diff --git a/.github/workflows/npm-test.yml b/.github/workflows/npm-test.yml
index a37d3efb..fa1fb316 100644
--- a/.github/workflows/npm-test.yml
+++ b/.github/workflows/npm-test.yml
@@ -9,7 +9,7 @@ jobs:
     runs-on: ubuntu-latest
     strategy:
       matrix:
-        node: ['12', '14', '16']
+        node: [16, 18, 20]
     name: node-${{ matrix.node }}
     steps:
       - uses: actions/checkout@v2
diff --git a/bin/load.js b/bin/load.js
index 166ef615..ba3903d3 100644
--- a/bin/load.js
+++ b/bin/load.js
@@ -109,6 +109,16 @@ civicParser.add_argument('--noUpdate', {
     default: false,
     help: 'Will not check for updating content of existing GraphKB Statements',
 });
+civicParser.add_argument('--noDeleteOnUnmatched', {
+    action: 'store_true',
+    default: false,
+    help: 'Will not delete GraphKB Statements from valid sourceID but not matching a combination',
+});
+civicParser.add_argument('--deleteDeprecated', {
+    action: 'store_true',
+    default: false,
+    help: 'Will delete GraphKB Statements from deprecated sourceID',
+});
 
 const clinicaltrialsgovParser = subparsers.add_parser('clinicaltrialsgov');
 clinicaltrialsgovParser.add_argument('--days', {
diff --git a/package-lock.json b/package-lock.json
index 674875bd..618d4815 100644
--- a/package-lock.json
+++ b/package-lock.json
@@ -9,20 +9,20 @@
       "version": "8.0.2",
       "license": "GPL-3",
       "dependencies": {
-        "@bcgsc-pori/graphkb-parser": "^1.1.1",
+        "@bcgsc-pori/graphkb-parser": "^2.1.0",
         "@bcgsc-pori/graphkb-schema": "^3.14.3",
         "ajv": "^6.10.0",
         "argparse": "^2.0.1",
         "csv-parse": "^4.6.5",
         "fast-csv": "^4.3.6",
+        "fast-xml-parser": "^4.5.1",
         "html-to-text": "^5.1.1",
         "http-status-codes": "^1.3.2",
         "json-cycle": "^1.3.0",
         "json-stable-stringify": "^1.0.1",
         "jsonpath": "^1.1.1",
-        "jsonwebtoken": "^8.5.1",
+        "jsonwebtoken": "^9.0.2",
         "lodash": "^4.17.21",
-        "node-expat": "^2.3.18",
         "node-fetch": "^2.6.7",
         "p-limit": "^3.1.0",
         "parse5": "^5.1.1",
@@ -31,13 +31,13 @@
         "sleep-promise": "^8.0.1",
         "winston": "^3.2.1",
         "xml-stream": "^0.4.5",
-        "xml2js": "^0.4.19"
+        "xml2js": "^0.6.2"
       },
       "devDependencies": {
         "eslint": "^8.17.0",
         "eslint-config-airbnb": "^19.0.4",
         "eslint-plugin-import": "^2.26.0",
-        "eslint-plugin-jest": "^22.20.0",
+        "eslint-plugin-jest": "^28.10.0",
         "eslint-plugin-jest-formatting": "^1.1.0",
         "eslint-plugin-jsx-a11y": "^6.5.1",
         "eslint-plugin-react": "^7.30.0",
@@ -609,9 +609,9 @@
       }
     },
     "node_modules/@bcgsc-pori/graphkb-parser": {
-      "version": "1.1.1",
-      "resolved": "https://registry.npmjs.org/@bcgsc-pori/graphkb-parser/-/graphkb-parser-1.1.1.tgz",
-      "integrity": "sha512-xh6hl+FQpAY9evB1O9hsG5LLr7bP1z1uOA4zVCsyJ0WUPTc7+NST1zGOSDGCLolJeq/mI4x4UeTaShKjSGxwhw==",
+      "version": "2.1.0",
+      "resolved": "https://registry.npmjs.org/@bcgsc-pori/graphkb-parser/-/graphkb-parser-2.1.0.tgz",
+      "integrity": "sha512-EIVRjRdqJv7RjtvZ+wK3qQDLORPAuKoqFkGUg/pHU3JnpgQMXgeOEHBfuwh6U+P09oY1TQdspS7+vUjpINapBg==",
       "dependencies": {
         "json-cycle": "^1.3.0"
       }
@@ -631,6 +631,14 @@
         "@bcgsc-pori/graphkb-parser": ">=1.0.0 <2.0.0"
       }
     },
+    "node_modules/@bcgsc-pori/graphkb-schema/node_modules/@bcgsc-pori/graphkb-parser": {
+      "version": "1.1.3",
+      "resolved": "https://registry.npmjs.org/@bcgsc-pori/graphkb-parser/-/graphkb-parser-1.1.3.tgz",
+      "integrity": "sha512-qy86oMsygnWlS5oEONpMSI96XcIgK8//RvYfYxA/6Yy0XuDbbTG9YF6lqyylT9YPiAfpQau5QZTAWEPCpPD5jA==",
+      "dependencies": {
+        "json-cycle": "^1.3.0"
+      }
+    },
     "node_modules/@bcoe/v8-coverage": {
       "version": "0.2.3",
       "resolved": "https://registry.npmjs.org/@bcoe/v8-coverage/-/v8-coverage-0.2.3.tgz",
@@ -650,22 +658,61 @@
         "node": ">=10.0.0"
       }
     },
+    "node_modules/@eslint-community/eslint-utils": {
+      "version": "4.4.1",
+      "resolved": "https://registry.npmjs.org/@eslint-community/eslint-utils/-/eslint-utils-4.4.1.tgz",
+      "integrity": "sha512-s3O3waFUrMV8P/XaF/+ZTp1X9XBZW1a4B97ZnjQF2KYWaFD2A8KyFBsrsfSjEmjn3RGWAIuvlneuZm3CUK3jbA==",
+      "dev": true,
+      "dependencies": {
+        "eslint-visitor-keys": "^3.4.3"
+      },
+      "engines": {
+        "node": "^12.22.0 || ^14.17.0 || >=16.0.0"
+      },
+      "funding": {
+        "url": "https://opencollective.com/eslint"
+      },
+      "peerDependencies": {
+        "eslint": "^6.0.0 || ^7.0.0 || >=8.0.0"
+      }
+    },
+    "node_modules/@eslint-community/regexpp": {
+      "version": "4.12.1",
+      "resolved": "https://registry.npmjs.org/@eslint-community/regexpp/-/regexpp-4.12.1.tgz",
+      "integrity": "sha512-CCZCDJuduB9OUkFkY2IgppNZMi2lBQgD2qzwXkEia16cge2pijY/aXi96CJMquDMn3nJdlPV1A5KrJEXwfLNzQ==",
+      "dev": true,
+      "engines": {
+        "node": "^12.0.0 || ^14.0.0 || >=16.0.0"
+      }
+    },
     "node_modules/@eslint/eslintrc": {
-      "version": "1.3.0",
-      "resolved": "https://registry.npmjs.org/@eslint/eslintrc/-/eslintrc-1.3.0.tgz",
-      "integrity": "sha512-UWW0TMTmk2d7hLcWD1/e2g5HDM/HQ3csaLSqXCfqwh4uNDuNqlaKWXmEsL4Cs41Z0KnILNvwbHAah3C2yt06kw==",
+      "version": "2.1.4",
+      "resolved": "https://registry.npmjs.org/@eslint/eslintrc/-/eslintrc-2.1.4.tgz",
+      "integrity": "sha512-269Z39MS6wVJtsoUl10L60WdkhJVdPG24Q4eZTH3nnF6lpvSShEK3wQjDX9JRWAUPvPh7COouPpU9IrqaZFvtQ==",
       "dev": true,
       "dependencies": {
         "ajv": "^6.12.4",
         "debug": "^4.3.2",
-        "espree": "^9.3.2",
-        "globals": "^13.15.0",
+        "espree": "^9.6.0",
+        "globals": "^13.19.0",
         "ignore": "^5.2.0",
         "import-fresh": "^3.2.1",
         "js-yaml": "^4.1.0",
         "minimatch": "^3.1.2",
         "strip-json-comments": "^3.1.1"
       },
+      "engines": {
+        "node": "^12.22.0 || ^14.17.0 || >=16.0.0"
+      },
+      "funding": {
+        "url": "https://opencollective.com/eslint"
+      }
+    },
+    "node_modules/@eslint/js": {
+      "version": "8.57.1",
+      "resolved": "https://registry.npmjs.org/@eslint/js/-/js-8.57.1.tgz",
+      "integrity": "sha512-d9zaMRSTIKDLhctzH12MtXvJKSSUhaHcjV+2Z+GK+EEY7XKpP5yR4x+N3TAcHTcu963nIr+TMcCb4DBCYX1z6Q==",
+      "dev": true,
       "engines": {
         "node": "^12.22.0 || ^14.17.0 || >=16.0.0"
       }
@@ -708,23 +755,38 @@
       "integrity": "sha512-j11XSuRuAlft6vLDEX4RvhqC0KxNxx6QIyMXNb0vHHSNPXTPeiy3algESWmOOIzEtiEL0qiowPU3ewW9hHVa7Q=="
     },
     "node_modules/@humanwhocodes/config-array": {
-      "version": "0.9.5",
-      "resolved": "https://registry.npmjs.org/@humanwhocodes/config-array/-/config-array-0.9.5.tgz",
-      "integrity": "sha512-ObyMyWxZiCu/yTisA7uzx81s40xR2fD5Cg/2Kq7G02ajkNubJf6BopgDTmDyc3U7sXpNKM8cYOw7s7Tyr+DnCw==",
+      "version": "0.13.0",
+      "resolved": "https://registry.npmjs.org/@humanwhocodes/config-array/-/config-array-0.13.0.tgz",
+      "integrity": "sha512-DZLEEqFWQFiyK6h5YIeynKx7JlvCYWL0cImfSRXZ9l4Sg2efkFGTuFf6vzXjK1cq6IYkU+Eg/JizXw+TD2vRNw==",
+      "deprecated": "Use @eslint/config-array instead",
       "dev": true,
       "dependencies": {
-        "@humanwhocodes/object-schema": "^1.2.1",
-        "debug": "^4.1.1",
-        "minimatch": "^3.0.4"
+        "@humanwhocodes/object-schema": "^2.0.3",
+        "debug": "^4.3.1",
+        "minimatch": "^3.0.5"
       },
       "engines": {
         "node": ">=10.10.0"
       }
     },
+    "node_modules/@humanwhocodes/module-importer": {
+      "version": "1.0.1",
+      "resolved": "https://registry.npmjs.org/@humanwhocodes/module-importer/-/module-importer-1.0.1.tgz",
+      "integrity": "sha512-bxveV4V8v5Yb4ncFTT3rPSgZBOpCkjfK0y4oVVVJwIuDVBRMDXrPyXRL988i5ap9m9bnyEEjWfm5WkBmtffLfA==",
+      "dev": true,
+      "engines": {
+        "node": ">=12.22"
+      },
+      "funding": {
+        "type": "github",
+        "url": "https://github.com/sponsors/nzakas"
+      }
+    },
     "node_modules/@humanwhocodes/object-schema": {
-      "version": "1.2.1",
-      "resolved": "https://registry.npmjs.org/@humanwhocodes/object-schema/-/object-schema-1.2.1.tgz",
-      "integrity": "sha512-ZnQMnLV4e7hDlUvw8H+U8ASL02SS2Gn6+9Ac3wGGLIe7+je2AeAOxPY+izIPJDfFDb7eDjev0Us8MO1iFRN8hA==",
+      "version": "2.0.3",
+      "resolved": "https://registry.npmjs.org/@humanwhocodes/object-schema/-/object-schema-2.0.3.tgz",
+      "integrity": "sha512-93zYdMES/c1D69yZiKDBj0V24vqNzB/koF26KPaagAfd3P/4gUlh3Dys5ogAK+Exi9QyzlD8x/08Zt7wIKcDcA==",
+      "deprecated": "Use @eslint/object-schema instead",
       "dev": true
     },
     "node_modules/@istanbuljs/load-nyc-config": {
@@ -2104,6 +2166,41 @@
         "@jridgewell/sourcemap-codec": "^1.4.14"
       }
     },
+    "node_modules/@nodelib/fs.scandir": {
+      "version": "2.1.5",
+      "resolved": "https://registry.npmjs.org/@nodelib/fs.scandir/-/fs.scandir-2.1.5.tgz",
+      "integrity": "sha512-vq24Bq3ym5HEQm2NKCr3yXDwjc7vTsEThRDnkp2DK9p1uqLR+DHurm/NOTo0KG7HYHU7eppKZj3MyqYuMBf62g==",
+      "dev": true,
+      "dependencies": {
+        "@nodelib/fs.stat": "2.0.5",
+        "run-parallel": "^1.1.9"
+      },
+      "engines": {
+        "node": ">= 8"
+      }
+    },
+    "node_modules/@nodelib/fs.stat": {
+      "version": "2.0.5",
+      "resolved": "https://registry.npmjs.org/@nodelib/fs.stat/-/fs.stat-2.0.5.tgz",
+      "integrity": "sha512-RkhPPp2zrqDAQA/2jNhnztcPAlv64XdhIp7a7454A5ovI7Bukxgt7MX7udwAu3zg1DcpPU0rz3VV1SeaqvY4+A==",
+      "dev": true,
+      "engines": {
+        "node": ">= 8"
+      }
+    },
+    "node_modules/@nodelib/fs.walk": {
+      "version": "1.2.8",
+      "resolved": "https://registry.npmjs.org/@nodelib/fs.walk/-/fs.walk-1.2.8.tgz",
+      "integrity": "sha512-oGB+UxlgWcgQkgwo8GcEGwemoTFt3FIO9ababBmaGwXIoBKZ+GTy0pP185beGg7Llih/NSHSV2XAs1lnznocSg==",
+      "dev": true,
+      "dependencies": {
+        "@nodelib/fs.scandir": "2.1.5",
+        "fastq": "^1.6.0"
+      },
+      "engines": {
+        "node": ">= 8"
+      }
+    },
     "node_modules/@sinonjs/commons": {
       "version": "1.8.3",
       "resolved": "https://registry.npmjs.org/@sinonjs/commons/-/commons-1.8.3.tgz",
@@ -2197,9 +2294,9 @@
       }
     },
     "node_modules/@types/json-schema": {
-      "version": "7.0.3",
-      "resolved": "https://registry.npmjs.org/@types/json-schema/-/json-schema-7.0.3.tgz",
-      "integrity": "sha512-Il2DtDVRGDcqjDtE+rF8iqg1CArehSK84HZJCT7AMITlyXRBpuPhqGLDQMowraqqu1coEaimg4ZOqggt6L6L+A==",
+      "version": "7.0.15",
+      "resolved": "https://registry.npmjs.org/@types/json-schema/-/json-schema-7.0.15.tgz",
+      "integrity": "sha512-5+fP8P8MFNC+AyZCDxrB2pkZFPGzqQWUzpSeuuVLvm8VMcorNYavBqoFcxK8bQz4Qsbn4oUEEem4wDLfcysGHA==",
       "dev": true
     },
     "node_modules/@types/json5": {
@@ -2220,6 +2317,12 @@
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       "dev": true
     },
+    "node_modules/@types/semver": {
+      "version": "7.5.8",
+      "resolved": "https://registry.npmjs.org/@types/semver/-/semver-7.5.8.tgz",
+      "integrity": "sha512-I8EUhyrgfLrcTkzV3TSsGyl1tSuPrEDzr0yd5m90UgNxQkyDXULk3b6MlQqTCpZpNtWe1K0hzclnZkTcLBe2UQ==",
+      "dev": true
+    },
     "node_modules/@types/stack-utils": {
       "version": "2.0.1",
       "resolved": "https://registry.npmjs.org/@types/stack-utils/-/stack-utils-2.0.1.tgz",
@@ -2232,45 +2335,111 @@
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       "dev": true
     },
-    "node_modules/@typescript-eslint/experimental-utils": {
-      "version": "1.13.0",
-      "resolved": "https://registry.npmjs.org/@typescript-eslint/experimental-utils/-/experimental-utils-1.13.0.tgz",
-      "integrity": "sha512-zmpS6SyqG4ZF64ffaJ6uah6tWWWgZ8m+c54XXgwFtUv0jNz8aJAVx8chMCvnk7yl6xwn8d+d96+tWp7fXzTuDg==",
+    "node_modules/@typescript-eslint/scope-manager": {
+      "version": "7.2.0",
+      "resolved": "https://registry.npmjs.org/@typescript-eslint/scope-manager/-/scope-manager-7.2.0.tgz",
+      "integrity": "sha512-Qh976RbQM/fYtjx9hs4XkayYujB/aPwglw2choHmf3zBjB4qOywWSdt9+KLRdHubGcoSwBnXUH2sR3hkyaERRg==",
       "dev": true,
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-        "@types/json-schema": "^7.0.3",
-        "@typescript-eslint/typescript-estree": "1.13.0",
-        "eslint-scope": "^4.0.0"
+        "@typescript-eslint/types": "7.2.0",
+        "@typescript-eslint/visitor-keys": "7.2.0"
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-        "node": "^6.14.0 || ^8.10.0 || >=9.10.0"
+        "node": "^16.0.0 || >=18.0.0"
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-      "peerDependencies": {
-        "eslint": "*"
+      "funding": {
+        "type": "opencollective",
+        "url": "https://opencollective.com/typescript-eslint"
+      }
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+        "type": "opencollective",
+        "url": "https://opencollective.com/typescript-eslint"
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-        "semver": "5.5.0"
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-      "bin": {
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     "tsconfig-paths": {
       "version": "3.14.1",
       "resolved": "https://registry.npmjs.org/tsconfig-paths/-/tsconfig-paths-3.14.1.tgz",
@@ -20440,6 +21043,13 @@
         "is-typedarray": "^1.0.0"
       }
     },
+    "typescript": {
+      "version": "5.7.2",
+      "resolved": "https://registry.npmjs.org/typescript/-/typescript-5.7.2.tgz",
+      "integrity": "sha512-i5t66RHxDvVN40HfDd1PsEThGNnlMCMT3jMUuoh9/0TaqWevNontacunWyN02LA9/fIbEWlcHZcgTKb9QoaLfg==",
+      "dev": true,
+      "peer": true
+    },
     "unbox-primitive": {
       "version": "1.0.2",
       "resolved": "https://registry.npmjs.org/unbox-primitive/-/unbox-primitive-1.0.2.tgz",
@@ -20537,12 +21147,6 @@
       "resolved": "https://registry.npmjs.org/uuid-validate/-/uuid-validate-0.0.3.tgz",
       "integrity": "sha512-Fykw5U4eZESbq739BeLvEBFRuJODfrlmjx5eJux7W817LjRaq4b7/i4t2zxQmhcX+fAj4nMfRdTzO4tmwLKn0w=="
     },
-    "v8-compile-cache": {
-      "version": "2.3.0",
-      "resolved": "https://registry.npmjs.org/v8-compile-cache/-/v8-compile-cache-2.3.0.tgz",
-      "integrity": "sha512-l8lCEmLcLYZh4nbunNZvQCJc5pv7+RCwa8q/LdUx8u7lsWvPDKmpodJAJNwkAhJC//dFY48KuIEmjtd4RViDrA==",
-      "dev": true
-    },
     "v8-to-istanbul": {
       "version": "8.1.0",
       "resolved": "https://registry.npmjs.org/v8-to-istanbul/-/v8-to-istanbul-8.1.0.tgz",
@@ -20826,7 +21430,7 @@
     "xml-stream": {
       "version": "0.4.5",
       "resolved": "https://registry.npmjs.org/xml-stream/-/xml-stream-0.4.5.tgz",
-      "integrity": "sha1-dFLYWzf5uIGnDv8M90oN8CCI7es=",
+      "integrity": "sha512-WdMVMiYgJ2UQO2vs8CRVOd0CD0GW3AfeWHwpFJWB+bRYbnNNn88BxoYbjm0qRijceJgP1krCRwr6DgfbQKudmA==",
       "requires": {
         "iconv": "^2.1.4",
         "node-expat": "^2.3.1",
@@ -20836,12 +21440,12 @@
         "isarray": {
           "version": "0.0.1",
           "resolved": "https://registry.npmjs.org/isarray/-/isarray-0.0.1.tgz",
-          "integrity": "sha1-ihis/Kmo9Bd+Cav8YDiTmwXR7t8="
+          "integrity": "sha512-D2S+3GLxWH+uhrNEcoh/fnmYeP8E8/zHl644d/jdA0g2uyXvy3sb0qxotE+ne0LtccHknQzWwZEzhak7oJ0COQ=="
         },
         "readable-stream": {
           "version": "1.1.14",
           "resolved": "https://registry.npmjs.org/readable-stream/-/readable-stream-1.1.14.tgz",
-          "integrity": "sha1-fPTFTvZI44EwhMY23SB54WbAgdk=",
+          "integrity": "sha512-+MeVjFf4L44XUkhM1eYbD8fyEsxcV81pqMSR5gblfcLCHfZvbrqy4/qYHE+/R5HoBUT11WV5O08Cr1n3YXkWVQ==",
           "requires": {
             "core-util-is": "~1.0.0",
             "inherits": "~2.0.1",
@@ -20852,14 +21456,14 @@
         "string_decoder": {
           "version": "0.10.31",
           "resolved": "https://registry.npmjs.org/string_decoder/-/string_decoder-0.10.31.tgz",
-          "integrity": "sha1-YuIDvEF2bGwoyfyEMB2rHFMQ+pQ="
+          "integrity": "sha512-ev2QzSzWPYmy9GuqfIVildA4OdcGLeFZQrq5ys6RtiuF+RQQiZWr8TZNyAcuVXyQRYfEO+MsoB/1BuQVhOJuoQ=="
         }
       }
     },
     "xml2js": {
-      "version": "0.4.23",
-      "resolved": "https://registry.npmjs.org/xml2js/-/xml2js-0.4.23.tgz",
-      "integrity": "sha512-ySPiMjM0+pLDftHgXY4By0uswI3SPKLDw/i3UXbnO8M/p28zqexCUoPmQFrYD+/1BzhGJSs2i1ERWKJAtiLrug==",
+      "version": "0.6.2",
+      "resolved": "https://registry.npmjs.org/xml2js/-/xml2js-0.6.2.tgz",
+      "integrity": "sha512-T4rieHaC1EXcES0Kxxj4JWgaUQHDk+qwHcYOCFHfiwKz7tOVPLq7Hjq9dM1WCMhylqMEfP7hMcOIChvotiZegA==",
       "requires": {
         "sax": ">=0.6.0",
         "xmlbuilder": "~11.0.0"
diff --git a/package.json b/package.json
index b4b59389..2627a7ec 100644
--- a/package.json
+++ b/package.json
@@ -12,20 +12,20 @@
   "private": true,
   "license": "GPL-3",
   "dependencies": {
-    "@bcgsc-pori/graphkb-parser": "^1.1.1",
+    "@bcgsc-pori/graphkb-parser": "^2.1.0",
     "@bcgsc-pori/graphkb-schema": "^3.14.3",
     "ajv": "^6.10.0",
     "argparse": "^2.0.1",
     "csv-parse": "^4.6.5",
     "fast-csv": "^4.3.6",
+    "fast-xml-parser": "^4.5.1",
     "html-to-text": "^5.1.1",
     "http-status-codes": "^1.3.2",
     "json-cycle": "^1.3.0",
     "json-stable-stringify": "^1.0.1",
     "jsonpath": "^1.1.1",
-    "jsonwebtoken": "^8.5.1",
+    "jsonwebtoken": "^9.0.2",
     "lodash": "^4.17.21",
-    "node-expat": "^2.3.18",
     "node-fetch": "^2.6.7",
     "p-limit": "^3.1.0",
     "parse5": "^5.1.1",
@@ -34,13 +34,13 @@
     "sleep-promise": "^8.0.1",
     "winston": "^3.2.1",
     "xml-stream": "^0.4.5",
-    "xml2js": "^0.4.19"
+    "xml2js": "^0.6.2"
   },
   "devDependencies": {
     "eslint": "^8.17.0",
     "eslint-config-airbnb": "^19.0.4",
     "eslint-plugin-import": "^2.26.0",
-    "eslint-plugin-jest": "^22.20.0",
+    "eslint-plugin-jest": "^28.10.0",
     "eslint-plugin-jest-formatting": "^1.1.0",
     "eslint-plugin-jsx-a11y": "^6.5.1",
     "eslint-plugin-react": "^7.30.0",
diff --git a/src/PMC4232638/index.js b/src/PMC4232638/index.js
index 1f69050b..979d7846 100644
--- a/src/PMC4232638/index.js
+++ b/src/PMC4232638/index.js
@@ -1,13 +1,12 @@
 const readXlsxFile = require('read-excel-file/node');
-const kbParser = require('@bcgsc-pori/graphkb-parser');
 
+const { jsonifyVariant, parseVariant } = require('@bcgsc-pori/graphkb-parser');
 const { logger } = require('../logging');
 const { rid } = require('../graphkb');
 const _pubmed = require('../entrez/pubmed');
 const _entrezGene = require('../entrez/gene');
 const { PMC4232638: SOURCE_DEFN } = require('../sources');
 
-
 const TP53_COLS = {
     DOM: 'Functional categories for TP53 - Dominant negative activity',
     GOF: 'Functional categories for TP53 - Gain of function',
@@ -134,7 +133,7 @@ const uploadFile = async ({ conn, filename }) => {
         logger.info(`loading: ${row.Gene}:${row['Amino acid change']}`);
 
         try {
-            const parsed = kbParser.variant.parse(`p.${row['Amino acid change']}`, false).toJSON();
+            const parsed = jsonifyVariant(parseVariant(`p.${row['Amino acid change']}`, false));
             const [gene] = await _entrezGene.fetchAndLoadBySymbol(conn, row.Gene);
             const relevance = await conn.getVocabularyTerm(row.relevance);
             const evidence = await _pubmed.fetchAndLoadByIds(conn, row.evidence);
diff --git a/src/cancergenomeinterpreter/index.js b/src/cancergenomeinterpreter/index.js
index 2c69dd42..42ebf0ed 100644
--- a/src/cancergenomeinterpreter/index.js
+++ b/src/cancergenomeinterpreter/index.js
@@ -1,6 +1,6 @@
 const fs = require('fs');
 
-const kbParser = require('@bcgsc-pori/graphkb-parser');
+const { jsonifyVariant, parseVariant } = require('@bcgsc-pori/graphkb-parser');
 
 const {
     loadDelimToJson,
@@ -217,7 +217,7 @@ const processVariants = async ({ conn, row, source }) => {
     }
 
     if (genomic && !isCat) {
-        const parsed = kbParser.variant.parse(genomic).toJSON();
+        const parsed = jsonifyVariant(parseVariant(genomic));
         const reference1 = await conn.getUniqueRecordBy({
             filters: {
                 AND: [
@@ -242,7 +242,7 @@ const processVariants = async ({ conn, row, source }) => {
     }
 
     if (protein && !isCat) {
-        const parsed = kbParser.variant.parse(`${gene}:${protein.split(':')[1]}`).toJSON();
+        const parsed = jsonifyVariant(parseVariant(`${gene}:${protein.split(':')[1]}`));
         const type = await conn.getVocabularyTerm(parsed.type);
         proteinVariant = await conn.addVariant({
             content: { ...parsed, reference1: rid(gene1Record), type },
@@ -251,7 +251,7 @@ const processVariants = async ({ conn, row, source }) => {
         });
     }
     if (transcript && cds && !isCat) {
-        const parsed = kbParser.variant.parse(`${transcript}:${cds}`).toJSON();
+        const parsed = jsonifyVariant(parseVariant(`${transcript}:${cds}`));
         const reference1 = await conn.getUniqueRecordBy({
             filters: { AND: [{ biotype: 'transcript' }, { sourceId: transcript }, { sourceIdVersion: null }] },
             sort: orderPreferredOntologyTerms,
@@ -265,7 +265,7 @@ const processVariants = async ({ conn, row, source }) => {
         });
     }
     if (exonic && !isCat) {
-        const parsed = kbParser.variant.parse(`${gene}:${exonic}`).toJSON();
+        const parsed = jsonifyVariant(parseVariant(`${gene}:${exonic}`));
         const type = await conn.getVocabularyTerm(parsed.type);
         exonicVariant = await conn.addVariant({
             content: { ...parsed, reference1: rid(gene1Record), type },
diff --git a/src/cancerhotspots/index.js b/src/cancerhotspots/index.js
index 9225c4b8..54c8b9ba 100644
--- a/src/cancerhotspots/index.js
+++ b/src/cancerhotspots/index.js
@@ -5,7 +5,7 @@ const fs = require('fs');
 
 const csv = require('fast-csv');
 
-const { variant: { parse: variantParser } } = require('@bcgsc-pori/graphkb-parser');
+const { jsonifyVariant, parseVariant } = require('@bcgsc-pori/graphkb-parser');
 
 const {
     convertRowFields,
@@ -101,7 +101,7 @@ const processVariants = async ({ conn, record, source }) => {
             // deletion
             notation = `${notation}${start}_${stop}del${refSeq}`;
         }
-        const variant = variantParser(notation).toJSON();
+        const variant = jsonifyVariant(parseVariant(notation));
 
         variant.reference1 = rid(reference1);
         variant.type = rid(await conn.getVocabularyTerm(variant.type));
@@ -125,10 +125,10 @@ const processVariants = async ({ conn, record, source }) => {
             [reference1] = await _entrezGene.fetchAndLoadByIds(conn, [geneId]);
             featureCache[geneId] = reference1;
         }
-        const variant = variantParser(
+        const variant = jsonifyVariant(parseVariant(
             protein.replace(/fs\*\?$/, 'fs'), // ignore uncertain truncations
             false,
-        ).toJSON();
+        ));
         variant.reference1 = rid(reference1);
         variant.type = rid(await conn.getVocabularyTerm(variant.type));
         proteinVariant = rid(await conn.addVariant({
@@ -163,7 +163,7 @@ const processVariants = async ({ conn, record, source }) => {
             featureCache[transcriptId] = reference1;
         }
         // parse the cds variant
-        const variant = variantParser(cds, false).toJSON();
+        const variant = jsonifyVariant(parseVariant(cds, false));
 
         variant.reference1 = reference1;
         variant.type = rid(await conn.getVocabularyTerm(variant.type));
diff --git a/src/cgl/index.js b/src/cgl/index.js
index cac1b51f..7881af6f 100644
--- a/src/cgl/index.js
+++ b/src/cgl/index.js
@@ -1,6 +1,6 @@
 const fs = require('fs');
 
-const { variant: { parse: variantParser } } = require('@bcgsc-pori/graphkb-parser');
+const { jsonifyVariant, parseVariant } = require('@bcgsc-pori/graphkb-parser');
 
 const {
     loadDelimToJson,
@@ -46,11 +46,11 @@ const loadCdsVariant = async (graphkbConn, transcriptId, cdsNotation) => {
     // add the cds variant
     const {
         noFeatures, multiFeature, prefix, ...variant
-    } = variantParser(cdsNotation, false);
+    } = parseVariant(cdsNotation, false);
     variant.reference1 = reference1;
     variant.type = rid(await graphkbConn.getVocabularyTerm(variant.type));
     const cds = rid(await graphkbConn.addVariant({
-        content: { ...variant },
+        content: { ...jsonifyVariant(variant) },
         existsOk: true,
         target: 'PositionalVariant',
     }));
@@ -87,11 +87,11 @@ const loadProteinVariant = async (graphkbConn, gene, proteinNotation) => {
     // add the cds variant
     const {
         noFeatures, multiFeature, prefix, ...variant
-    } = variantParser(proteinNotation, false);
+    } = parseVariant(proteinNotation, false);
     variant.reference1 = reference1;
     variant.type = rid(await graphkbConn.getVocabularyTerm(variant.type));
     const protein = rid(await graphkbConn.addVariant({
-        content: { ...variant },
+        content: { ...jsonifyVariant(variant) },
         existsOk: true,
         target: 'PositionalVariant',
     }));
@@ -163,11 +163,11 @@ const loadGenomicVariant = async (graphkbConn, chromosome, position, ref, alt) =
     // add the cds variant
     const {
         noFeatures, multiFeature, prefix, ...variant
-    } = variantParser(notation, false);
+    } = parseVariant(notation, false);
     variant.reference1 = reference1;
     variant.type = rid(await graphkbConn.getVocabularyTerm(variant.type));
     const genomic = rid(await graphkbConn.addVariant({
-        content: { ...variant, assembly: 'hg19' },
+        content: { ...jsonifyVariant(variant), assembly: 'hg19' },
         existsOk: true,
         target: 'PositionalVariant',
     }));
diff --git a/src/civic/evidenceItem.js b/src/civic/evidenceItem.js
index f999f8db..81d68780 100644
--- a/src/civic/evidenceItem.js
+++ b/src/civic/evidenceItem.js
@@ -3,21 +3,17 @@ const path = require('path');
 
 const _ = require('lodash');
 const Ajv = require('ajv');
-const { error: { ErrorMixin } } = require('@bcgsc-pori/graphkb-parser');
 
 const { checkSpec, request } = require('../util');
 const { logger } = require('../logging');
 const { civic: SOURCE_DEFN } = require('../sources');
 const { EvidenceItem: evidenceSpec } = require('./specs.json');
-const _entrezGene = require('../entrez/gene');
-const { processVariantRecord } = require('./variant');
+const { normalizeVariant, uploadVariants } = require('./variant');
 const { processMolecularProfile } = require('./profile');
 const { addOrFetchTherapy, resolveTherapies } = require('./therapy');
 const { rid } = require('../graphkb');
 
 
-class NotImplementedError extends ErrorMixin { }
-
 // Spec compiler
 const ajv = new Ajv();
 const validateEvidenceSpec = ajv.compile(evidenceSpec);
@@ -114,6 +110,7 @@ const downloadEvidenceItems = async (url, trustedCurators) => {
     return { errors, records: validatedRecords };
 };
 
+
 /**
  * Format one combination from a CIViC EvidenceItem into an object
  * ready to be compared with a corresponding GraphKB statement
@@ -150,41 +147,18 @@ const processCombination = async (conn, {
     }
 
     // VARIANTS
-    // Note: the combination can have more than 1 variant
-    // if the Molecular profile was using AND operators
+    // The combination can have 1 or more CIViC variant(s),
+    // each of which can be normalized into 1 or more GraphKB variant(s).
     const { variants: civicVariants } = rawRecord;
-    const variants = [];
-
-    for (const variant of civicVariants) {
-        // Variant's Feature
-        const { feature: { featureInstance } } = variant;
-
-        // TODO: Deal with __typename === 'Factor'. No actual case as April 22nd, 2024
-        if (featureInstance.__typename !== 'Gene') {
-            throw new NotImplementedError(
-                'unable to process variant\'s feature of type other than Gene (e.g. Factor)',
-            );
-        }
-
-        let feature;
-
-        try {
-            [feature] = await _entrezGene.fetchAndLoadByIds(conn, [featureInstance.entrezId]);
-        } catch (err) {
-            logger.error(`failed to fetch variant's feature: ${featureInstance.entrezId}`);
-            throw err;
-        }
+    const normalizedVariants = [];
+    const uploadedVariants = [];
 
-        // Variant
-        try {
-            const processedVariants = await processVariantRecord(conn, variant, feature);
-            logger.verbose(`converted variant name (${variant.name}) to variants (${processedVariants.map(v => v.displayName).join(', and ')})`);
-            variants.push(...processedVariants);
-        } catch (err) {
-            logger.error(`unable to process the variant (id=${rawRecord.variant.id}, name=${rawRecord.variant.name})`);
-            throw err;
-        }
+    // Normalize
+    for (const record of civicVariants) {
+        normalizedVariants.push(...await normalizeVariant(record));
     }
+    // Upload
+    uploadedVariants.push(...await uploadVariants(conn, normalizedVariants));
 
     /*
         FORMATTING CONTENT FOR GRAPHKB STATEMENT
@@ -221,12 +195,12 @@ const processCombination = async (conn, {
 
     // Adding feature (reference1) or Variant (1st variant as the default) as subject.
     if (rawRecord.evidenceType === 'FUNCTIONAL') {
-        content.subject = rid(variants[0].reference1);
+        content.subject = rid(uploadedVariants[0].reference1);
     }
     if (rawRecord.evidenceType === 'ONCOGENIC') {
-        content.subject = variants.length === 1
-            ? rid(variants[0])
-            : rid(variants[0].reference1);
+        content.subject = uploadedVariants.length === 1
+            ? rid(uploadedVariants[0])
+            : rid(uploadedVariants[0].reference1);
     }
 
     // Checking for Subject
@@ -236,7 +210,7 @@ const processCombination = async (conn, {
 
     // CONDITIONS
     // Adding variants as conditions
-    content.conditions = [...variants.map(v => rid(v))];
+    content.conditions = [...uploadedVariants.map(v => rid(v))];
 
     // Adding Disease as condition
     if (content.disease) {
diff --git a/src/civic/evidenceItems.graphql b/src/civic/evidenceItems.graphql
index 2d98ddbd..e9dca1d5 100644
--- a/src/civic/evidenceItems.graphql
+++ b/src/civic/evidenceItems.graphql
@@ -81,9 +81,27 @@ query evidenceItems(
           feature {
             featureInstance {
               __typename
-              ... on Factor { id }
+              ... on Factor {
+                id
+                name
+              }
+              ... on Fusion {
+                fivePrimeGene {
+                  entrezId
+                  id
+                  name
+                }
+                id
+                name
+                threePrimeGene {
+                  entrezId
+                  id
+                  name
+                }
+              }
               ... on Gene {
                 entrezId
+                id
                 name
               }
             }
diff --git a/src/civic/index.js b/src/civic/index.js
index 2f0aee38..aa0f3228 100644
--- a/src/civic/index.js
+++ b/src/civic/index.js
@@ -19,6 +19,7 @@ const {
     contentMatching,
     createStatement,
     deleteStatements,
+    getStatements,
     needsUpdate,
     updateStatement,
 } = require('./statement');
@@ -55,16 +56,20 @@ const incrementCounts = (initial, updates) => {
  *
  * @param {object} param0
  * @param {ApiConnection} param0.conn the api connection object for GraphKB
+ * @param {?boolean} param0.deleteDeprecated delete GraphKB Statements if deprecated evidence(s)
  * @param {string} param0.errorLogPrefix prefix to the generated error json file
  * @param {number} param0.maxRecords limit of EvidenceItem records to be processed and upload
- * @param {?boolean} param0.noUpdate for avoiding deletion/update of existing GraphKB Statements
+ * @param {?boolean} param0.noDeleteOnUnmatched don't delete GraphKB St. if unmatched combination(s)
+ * @param {?boolean} param0.noUpdate no update of existing GraphKB Statements
  * @param {string[]} param0.trustedCurators a list of curator IDs for submitted-only EvidenceItems
  * @param {?string} param0.url url to use as the base for accessing the civic ApiConnection
  */
 const upload = async ({
     conn,
+    deleteDeprecated = false, // Won't delete deprecated sourceIds by default
     errorLogPrefix,
     maxRecords,
+    noDeleteOnUnmatched = false,
     noUpdate = false,
     trustedCurators,
     url = BASE_URL,
@@ -181,7 +186,8 @@ const upload = async ({
         processingIntoCombinations: new Map(),
         relevance: new Map(),
     };
-    const casesToReview = new Map();
+    const statementsToReviewUnmatchedProcessingError = new Map();
+    const statementsToReviewUnmatched = new Map();
 
     logger.info(`\n\n${'#'.repeat(80)}\n## PROCESSING RECORDS\n${'#'.repeat(80)}\n`);
     let recordNumber = 0;
@@ -366,13 +372,17 @@ const upload = async ({
         }
 
         // DELETE
-        if (!noUpdate && toDelete.length > 0) {
+        if (toDelete.length > 0) {
             const rids = toDelete.map(el => el['@rid']);
 
             if (processCombinationErrors > 0) {
                 // Do not delete any statements if some combinations have processing errors
-                logger.info(`${toDelete.length} unmatched statement(s) to be reviewed for deletion`);
-                casesToReview.set(id, rids);
+                logger.warn(`${toDelete.length} unmatched statement(s). To be reviewed since some processing errors occured`);
+                statementsToReviewUnmatchedProcessingError.set(id, rids);
+            } else if (noDeleteOnUnmatched) {
+                // Do not delete any statements if noDeleteOnUnmatched flag
+                logger.warn(`${toDelete.length} unmatched statement(s). To be reviewed since the noDeleteOnUnmatched flag is being used`);
+                statementsToReviewUnmatched.set(id, rids);
             } else {
                 loaclCountsST.delete = await deleteStatements(conn, { rids });
             }
@@ -414,40 +424,59 @@ const upload = async ({
     }
 
     // DELETING UNWANTED GRAPHKB STATEMENTS
-    // sourceIds no longer in CIViC (not accepted/submitted by trustedCurators) but still in GraphKB
+    // sourceIds no longer in CIViC (not accepted/submitted-by-trustedCurators) but still in GraphKB
     const allIdsFromCivic = new Set(evidenceItems.map(r => r.id.toString()));
-    const toDelete = new Set([...sourceIdsFromGKB].filter(x => !allIdsFromCivic.has(x)));
+    const sourceIdstoDeleteStatementsFrom = Array.from(
+        new Set([...sourceIdsFromGKB].filter(x => !allIdsFromCivic.has(x))),
+    );
     logger.info();
     logger.info('***** Deprecated items *****');
-    logger.warn(`${toDelete.size} deprecated ${SOURCE_DEFN.name} Evidence Items still in GraphKB Statement`);
+    logger.warn(`${sourceIdstoDeleteStatementsFrom.length} deprecated ${SOURCE_DEFN.name} Evidence Items still in GraphKB Statement`);
 
-    if (toDelete.size > 0) {
-        logger.info(`sourceIds: ${Array.from(toDelete)}`);
+    if (sourceIdstoDeleteStatementsFrom.length > 0) {
+        logger.info(`sourceIds: ${sourceIdstoDeleteStatementsFrom}`);
     }
 
     // GraphKB Statements Soft-deletion
-    if (!noUpdate && toDelete.size > 0) {
-        const deletedCount = await deleteStatements(conn, {
-            source: sourceRid,
-            sourceIds: Array.from(toDelete),
-        });
-        const attempts = deletedCount.success + deletedCount.err;
-        logger.info(`${deletedCount.success}/${attempts} soft-deleted statements`);
-
-        if (countsST) {
-            countsST.delete.err += deletedCount.err;
-            countsST.delete.success += deletedCount.success;
+    if (sourceIdstoDeleteStatementsFrom.length > 0) {
+        if (!deleteDeprecated) {
+            // Do not delete any statements if no deleteDeprecated flag
+            const deprecatedStatementRids = await getStatements(
+                conn,
+                { source: sourceRid, sourceIds: sourceIdstoDeleteStatementsFrom },
+            );
+            logger.warn(`${deprecatedStatementRids.length} corresponding deprecated statement(s). To be reviewed since no deleteDeprecated flag`);
+            const deprecatedStatementsFilepath = `${errorLogPrefix}-civic-deprecatedStatements.json`;
+            logger.info(`writing ${deprecatedStatementsFilepath}`);
+            fs.writeFileSync(
+                deprecatedStatementsFilepath,
+                JSON.stringify(deprecatedStatementRids, null, 2),
+            );
         } else {
-            countsST = { delete: { err: deletedCount.err, success: deletedCount.success } };
+            const deletedCount = await deleteStatements(conn, {
+                source: sourceRid,
+                sourceIds: sourceIdstoDeleteStatementsFrom,
+            });
+            const attempts = deletedCount.success + deletedCount.err;
+            logger.info(`${deletedCount.success}/${attempts} soft-deleted statements`);
+
+            if (countsST) {
+                countsST.delete.err += deletedCount.err;
+                countsST.delete.success += deletedCount.success;
+            } else {
+                countsST = { delete: { err: deletedCount.err, success: deletedCount.success } };
+            }
         }
     }
 
     // Logging processing error cases to be reviewed,
     // so a reviewer can decide if corresponding statements need to be deleted or not
     logger.info();
-    logger.info('***** Cases to be reviewed for deletion *****');
-    logger.warn(`${casesToReview.size} Evidence Item(s) with processing errors leading to unmatched Statement(s)`);
-    casesToReview.forEach((v, k) => logger.info(`${k} -> ${JSON.stringify(v)}`));
+    logger.info('***** Unmatched cases to be reviewed for deletion *****');
+    logger.warn(`${statementsToReviewUnmatchedProcessingError.size} Evidence Item(s) with processing errors leading to unmatched Statement(s)`);
+    statementsToReviewUnmatchedProcessingError.forEach((v, k) => logger.info(`${k} -> ${JSON.stringify(v)}`));
+    logger.warn(`${statementsToReviewUnmatched.size} Evidence Item(s) with unmatched Statement(s) with no processing error involved`);
+    statementsToReviewUnmatched.forEach((v, k) => logger.info(`${k} -> ${JSON.stringify(v)}`));
 
     // Logging Statement CRUD operations counts
     if (countsST) {
diff --git a/src/civic/profile.js b/src/civic/profile.js
index 4d6845d8..912c83b0 100644
--- a/src/civic/profile.js
+++ b/src/civic/profile.js
@@ -2,7 +2,7 @@
  * Introducing Molecular Profiles with CIViC GraphQL API v2.2.0
  * [EvidenceItem]--(many-to-one)--[MolecularProfile]--(many-to-many)--[Variant]
  */
-const { error: { ErrorMixin } } = require('@bcgsc-pori/graphkb-parser');
+const { ErrorMixin } = require('@bcgsc-pori/graphkb-parser');
 
 
 class NotImplementedError extends ErrorMixin { }
diff --git a/src/civic/publication.js b/src/civic/publication.js
index 644111ee..33e0c58e 100644
--- a/src/civic/publication.js
+++ b/src/civic/publication.js
@@ -1,4 +1,4 @@
-const { error: { ErrorMixin } } = require('@bcgsc-pori/graphkb-parser');
+const { ErrorMixin } = require('@bcgsc-pori/graphkb-parser');
 
 const _asco = require('../asco');
 const _pubmed = require('../entrez/pubmed');
diff --git a/src/civic/relevance.js b/src/civic/relevance.js
index 3c1bff1f..39a4c92c 100644
--- a/src/civic/relevance.js
+++ b/src/civic/relevance.js
@@ -1,4 +1,4 @@
-const { error: { ErrorMixin } } = require('@bcgsc-pori/graphkb-parser');
+const { ErrorMixin } = require('@bcgsc-pori/graphkb-parser');
 
 class NotImplementedError extends ErrorMixin { }
 
diff --git a/src/civic/specs.json b/src/civic/specs.json
index 740e28cc..9fc1a3db 100644
--- a/src/civic/specs.json
+++ b/src/civic/specs.json
@@ -118,7 +118,7 @@
                                                 "__typename": {
                                                     "type": "string"
                                                 },
-                                                "entrezId": {
+                                                "id": {
                                                     "type": "number"
                                                 },
                                                 "name": {
@@ -127,7 +127,7 @@
                                             },
                                             "required":[
                                                 "__typename",
-                                                "entrezId",
+                                                "id",
                                                 "name"
                                             ],
                                             "type": "object"
diff --git a/src/civic/statement.js b/src/civic/statement.js
index e4049bcf..cd83512d 100644
--- a/src/civic/statement.js
+++ b/src/civic/statement.js
@@ -177,6 +177,31 @@ const contentMatching = ({
     return records;
 };
 
+/**
+ * Given source & list of sourceIds, returns corresponding statements
+ *
+ * @param {ApiConnection} conn the api connection object for GraphKB
+ * @param {object} param1
+ * @param {string} param1.source the source RID
+ * @param {string[]} param1.sourceIds an array of sourceIds
+ * @returns {string[]} a list of statement RIDs
+ */
+const getStatements = async (conn, { source, sourceIds }) => {
+    const records = await conn.getRecords({
+        filters: {
+            AND: [
+                { sourceId: sourceIds },
+                { source },
+            ],
+        },
+        target: 'Statement',
+    });
+    const rids = records.map(
+        (el) => el['@rid'],
+    );
+    return rids;
+};
+
 /**
  * Given content from CIViC, try to create the GraphKB record
  *
@@ -250,18 +275,7 @@ const deleteStatements = async (conn, { rids = [], source, sourceIds }) => {
     // Get rids to delete if none provided
     if (rids.length === 0) {
         logger.info('Loading corresponding GraphKB statement RIDs to delete');
-        const records = await conn.getRecords({
-            filters: {
-                AND: [
-                    { sourceId: sourceIds },
-                    { source },
-                ],
-            },
-            target: 'Statement',
-        });
-        rids.push(...records.map(
-            (el) => el['@rid'],
-        ));
+        rids.push(...await getStatements(conn, { source, sourceIds }));
         logger.info(`${rids.length} RIDs found`);
     }
 
@@ -286,6 +300,7 @@ module.exports = {
     contentMatching,
     createStatement,
     deleteStatements,
+    getStatements,
     isMatching,
     needsUpdate,
     updateStatement,
diff --git a/src/civic/variant.js b/src/civic/variant.js
index 98ebee67..684197e2 100644
--- a/src/civic/variant.js
+++ b/src/civic/variant.js
@@ -1,14 +1,21 @@
-const kbParser = require('@bcgsc-pori/graphkb-parser');
+const {
+    ErrorMixin,
+    jsonifyVariant,
+    parseVariant,
+    ParsingError,
+} = require('@bcgsc-pori/graphkb-parser');
+
 const { rid } = require('../graphkb');
 const _entrezGene = require('../entrez/gene');
 const _snp = require('../entrez/snp');
 const { civic: SOURCE_DEFN } = require('../sources');
+const { logger } = require('../logging');
 
-const { error: { ErrorMixin, ParsingError } } = kbParser;
 class NotImplementedError extends ErrorMixin { }
 
 const VARIANT_CACHE = new Map();
 
+
 // based on discussion with cam here: https://www.bcgsc.ca/jira/browse/KBDEV-844
 const SUBS = {
     'E746_T751>I': 'E746_T751delinsI',
@@ -49,20 +56,31 @@ const compareGeneNames = (gene1, gene2) => {
 };
 
 /**
- * Given a CIViC Variant record entrez information and name,
- * normalize into a set of graphkb-style variants
+ * Normalize CIViC Gene Variant record as GraphKB positional and/or category variant(s)
  *
  * @param {object} param0
  * @param {string} param0.name
  * @param {string} param0.entrezId
  * @param {string} param0.entrezName
- * @returns {object}
+ * @returns {object[]}
  */
-const normalizeVariantRecord = ({
+const normalizeGeneVariant = ({
     name: rawName, entrezId, entrezName: rawEntrezName,
 }) => {
-    const entrezName = rawEntrezName.toLowerCase().trim();
+    // Exceptions: unsupported/unimplemented CIViC variant nomenclature
+    if ([
+        'Non-V600',
+        'P-Loop Mutation',
+    ].includes(rawName)) {
+        throw new NotImplementedError(
+            `unable to process CIViC variant ${rawEntrezName} ${rawName}`,
+        );
+    }
+
+    // Substitutions: harcoded fix for known 'CIViC-to-GraphKB' correspondances
     let name = SUBS[rawName] || rawName;
+
+    const entrezName = rawEntrezName.toLowerCase().trim();
     const joiner = ' and ';
     name = name.replace(' + ', joiner);
     name = name.replace('; ', joiner).toLowerCase().trim();
@@ -73,7 +91,7 @@ const normalizeVariantRecord = ({
     if (name.includes(joiner)) {
         const result = [];
         name.split(joiner).forEach((n) => {
-            result.push(...normalizeVariantRecord({ entrezId, entrezName, name: n.trim() }));
+            result.push(...normalizeGeneVariant({ entrezId, entrezName, name: n.trim() }));
         });
         return result;
     }
@@ -153,8 +171,8 @@ const normalizeVariantRecord = ({
                 rest = { positional: true, variant: `fusion(e.${exon1},e.${exon2})` };
             } else {
                 return [
-                    ...normalizeVariantRecord({ entrezId, entrezName, name: `${gene1}-${gene2}` }),
-                    ...normalizeVariantRecord({ entrezId, entrezName, name: tail }),
+                    ...normalizeGeneVariant({ entrezId, entrezName, name: `${gene1}-${gene2}` }),
+                    ...normalizeGeneVariant({ entrezId, entrezName, name: tail }),
                 ];
             }
         }
@@ -210,8 +228,8 @@ const normalizeVariantRecord = ({
     } if (match = /^(\w+\s+fusion)\s+([a-z]\d+\S+)$/i.exec(name)) {
         const [, fusion, resistanceMutation] = match;
         const result = [];
-        result.push(...normalizeVariantRecord({ entrezId, entrezName, name: fusion }));
-        result.push(...normalizeVariantRecord({ entrezId, entrezName, name: resistanceMutation }));
+        result.push(...normalizeGeneVariant({ entrezId, entrezName, name: fusion }));
+        result.push(...normalizeGeneVariant({ entrezId, entrezName, name: resistanceMutation }));
         return result;
     } if (match = /^(.*)\s+mutations?$/.exec(name)) {
         const [, gene] = match;
@@ -223,11 +241,11 @@ const normalizeVariantRecord = ({
 
     // try parser fallback for notation that is close to correct
     try {
-        kbParser.variant.parse(name, false);
+        parseVariant(name, false);
         return [{ positional: true, reference1: { ...referenceGene }, variant: name }];
     } catch (err) {
         try {
-            kbParser.variant.parse(`p.${name}`, false);
+            parseVariant(`p.${name}`, false);
             return [{
                 positional: true,
                 reference1: { ...referenceGene },
@@ -238,169 +256,373 @@ const normalizeVariantRecord = ({
     return [{ reference1: { ...referenceGene }, type: name }];
 };
 
+
 /**
- * Given some normalized variant record from CIViC,
- * load into graphkb, create links and return the record
+ * Normalize CIViC Factors variant record as GraphKB Signatures/signature's CVs
  *
- * @param {ApiConnection} conn the connection to GraphKB
- * @param {Object} normalizedVariant the normalized variant record
- * @param {Object} feature the gene feature already grabbed from GraphKB
+ * @param {object} record the raw variant record from CIViC
  * @returns {object[]}
  */
-const uploadNormalizedVariant = async (conn, normalizedVariant, feature) => {
-    let result;
+const normalizeFactorVariant = (record) => {
+    const { feature: { featureInstance } } = record;
 
-    if (!normalizedVariant.positional && /^\s*rs\d+\s*$/gi.exec(normalizedVariant.type)) {
-        const [rsVariant] = await _snp.fetchAndLoadByIds(conn, [normalizedVariant.type]);
+    switch (featureInstance.name) {
+        case 'TMB':
+            return [{
+                reference1: {
+                    class: 'Signature', // flag to escape gene fetching/upload
+                    name: 'high mutation burden',
+                },
+                type: 'high signature',
+            }];
+        // TODO: Add support for other factors
+        case 'Methylation signature':
+        case 'Kataegis':
+        case 'CK':
+        default:
+            throw new NotImplementedError(
+                `unable to process Factor ${featureInstance.name} ${record.name}`,
+            );
+    }
+};
 
-        if (rsVariant) {
-            result = rsVariant;
-        } else {
-            throw new Error(`unable to fetch variant by RSID (${normalizedVariant.type})`);
-        }
-    } else {
-        let content = {};
 
-        if (normalizedVariant.positional) {
-            content = kbParser.variant.parse(normalizedVariant.variant, false).toJSON();
+/**
+ * Normalize CIViC Fusion variant record as GraphKB CVs
+ *
+ * @param {object} record the raw variant record from CIViC
+ * @returns {object[]} array of 1 normalized variant
+ */
+const normalizeFusionVariant = (record) => {
+    const {
+        feature: {
+            featureInstance: {
+                fivePrimeGene,
+                threePrimeGene,
+            },
+        },
+    } = record;
+
+    if (fivePrimeGene && threePrimeGene) {
+        return [{
+            reference1: {
+                name: fivePrimeGene.name.toLowerCase().trim(),
+                sourceId: `${fivePrimeGene.entrezId || ''}`,
+            },
+            reference2: {
+                name: threePrimeGene.name.toLowerCase().trim(),
+                sourceId: `${threePrimeGene.entrezId || ''}`,
+            },
+            type: 'fusion',
+        }];
+    }
+    if (fivePrimeGene) {
+        return [{
+            reference1: {
+                name: fivePrimeGene.name.toLowerCase().trim(),
+                sourceId: `${fivePrimeGene.entrezId || ''}`,
+            },
+            type: 'fusion',
+        }];
+    }
+    if (threePrimeGene) {
+        return [{
+            reference1: {
+                name: threePrimeGene.name.toLowerCase().trim(),
+                sourceId: `${threePrimeGene.entrezId || ''}`,
+            },
+            type: 'fusion',
+        }];
+    }
+    throw new Error('fivePrimeGene and/or threePrimeGene expected on Fusion variant');
+};
+
+
+/**
+ * Given a CIViC variant record, do the normalization based on the feature type.
+ * Can be more than 1 "GraphKB-normalized" variant per CIViC variant.
+ * Returns the normalized variant(s).
+ *
+ * @param {Object} record the raw variant record from CIViC
+ * @returns {object[]} array of normalized variant(s)
+ */
+const normalizeVariant = (record) => {
+    try {
+        const { feature: { featureInstance } } = record;
+        const featureType = featureInstance.__typename;
+
+        switch (featureType) {
+            case 'Gene':
+                // reformatting passed args for legacy purpose
+                return normalizeGeneVariant({
+                    entrezId: featureInstance.entrezId,
+                    entrezName: featureInstance.name,
+                    name: record.name,
+                });
+            case 'Factor':
+                return normalizeFactorVariant(record);
+            case 'Fusion':
+                return normalizeFusionVariant(record);
+            default:
+                throw new NotImplementedError(
+                    `unable to process variant's feature of type ${featureType}`,
+                );
         }
-        let variantType;
+    } catch (err) {
+        logger.error(`unable to normalize the variant (id=${record.id}, name=${record.name})`);
+        throw err;
+    }
+};
 
-        // try to fetch civic specific term first
+
+/**
+ * Get reference records for the new variant.
+ * Upload if needed (only if gene; signatures needs to be creates using the ontology loader)
+ *
+ * @param {ApiConnection} conn the connection to GraphKB
+ * @param {Object} normalizedVariant the normalized variant record
+ */
+const uploadReferences = async (conn, normalizedVariant) => {
+    const { reference1: r1, reference2: r2 } = normalizedVariant;
+
+    // r2 can be undefined, r1 cannot
+    if (!r1) {
+        // Shouldn't happen; means there is an error in the normalization code
+        throw new Error('reference1 is mandatory on normalizedVariant');
+    }
+
+    // Signature (from civic Factor) as reference
+    if (r1.class === 'Signature') {
         try {
-            variantType = await conn.getVocabularyTerm(
-                normalizedVariant.type || content.type,
-                SOURCE_DEFN.name,
-            );
+            return [await conn.getUniqueRecordBy({
+                filters: { name: r1.name },
+                neighbors: 0,
+                target: r1.class,
+            })];
         } catch (err) {
-            variantType = await conn.getVocabularyTerm(normalizedVariant.type || content.type);
+            throw new Error(`failed to fetch variant's ${r1.class} Reference ${r1.name}`);
         }
-        content.type = rid(variantType);
+    }
 
-        // get the reference elements
-        let reference2,
-            reference1 = feature;
+    // Gene(s) as reference(s)
+    const references = [];
 
-        if (normalizedVariant.reference2) {
-            if (normalizedVariant.reference2.sourceId === feature.sourceId) {
-                reference2 = feature;
-                // fetch reference1
-                [reference1] = await _entrezGene.fetchAndLoadBySymbol(conn, normalizedVariant.reference1.name);
+    for (const ref of [r1, r2]) {
+        if (ref) {
+            let reference;
 
-                if (!reference1) {
-                    throw new Error(`Gene name not found in NCBI's Entrez gene database (${normalizedVariant.reference1.name}})`);
+            try {
+                if (ref.sourceId) {
+                    [reference] = await _entrezGene.fetchAndLoadByIds(conn, [ref.sourceId]);
                 }
-            } else if (normalizedVariant.reference1.sourceId !== feature.sourceId) {
-                throw new ParsingError(`Feature ID input (${feature.sourceId}) does not match the linked gene IDs (${normalizedVariant.reference1.sourceId},${normalizedVariant.reference2.sourceId})`);
-            } else {
-                // fetch reference2
-                [reference2] = await _entrezGene.fetchAndLoadBySymbol(conn, normalizedVariant.reference2.name);
+                if (!ref.sourceId && ref.name) {
+                    [reference] = await _entrezGene.fetchAndLoadBySymbol(conn, ref.name);
+                }
+                if (!ref.sourceId && !ref.name) {
+                    // Shouldn't happen; means there is an error in the normalization code
+                    throw new Error('name property is mandatory on normalizedVariant reference');
+                }
+                references.push(reference);
+            } catch (err) {
+                logger.error(`failed to fetch variant's feature: ${ref.name}`);
+                throw err;
             }
         }
+    }
+    return references;
+};
 
-        content.reference1 = rid(reference1);
 
-        if (reference2) {
-            content.reference2 = rid(reference2);
-        }
-        result = await conn.addVariant({
-            content,
-            existsOk: true,
-            target: normalizedVariant.positional
-                ? 'PositionalVariant'
-                : 'CategoryVariant',
-        });
-    }
+/**
+ * Get or create inferred/inferring variant(s) and create linking Infers edge(s)
+ *
+ * @param {ApiConnection} conn the connection to GraphKB
+ * @param {Object} normalizedVariant the normalized variant record
+ * @param {Object} result the GraphKB variant record to connect edges from/to
+ * @returns {object[]}
+ */
+const uploadInferences = async (conn, normalizedVariant, result) => {
+    const links = { inferredBy: [], infers: [] };
+    const variants = { inferred: [], inferring: [] };
 
-    // now create any links
+    // Outgoing, if any
     for (const variant of normalizedVariant.infers || []) {
-        const infers = await uploadNormalizedVariant(conn, variant, feature);
-        await conn.addRecord({
-            content: { in: rid(infers), out: rid(result) },
-            existsOk: true,
-            fetchExisting: false,
-            target: 'Infers',
-        });
+        try {
+            // Creates or get the variant on the incomming side
+            const infers = await uploadVariant(conn, variant);
+            variants.inferred.push(infers);
+
+            // Creates the edge
+            links.infers.push(
+                await conn.addRecord({
+                    content: { in: rid(infers), out: rid(result) },
+                    existsOk: true,
+                    fetchExisting: false,
+                    target: 'Infers',
+                }),
+            );
+        } catch (err) {
+            // Non-blocking error
+            logger.warn(`Error while uploading inferred variant; ${JSON.stringify(variant)}`);
+        }
     }
 
+    // Incomming, if any
     for (const variant of normalizedVariant.inferredBy || []) {
-        const inferredBy = await uploadNormalizedVariant(conn, variant, feature);
-        await conn.addRecord({
-            content: { in: rid(result), out: rid(inferredBy) },
-            existsOk: true,
-            fetchExisting: false,
-            target: 'Infers',
-        });
+        try {
+            // Creates or get the variant on the outgoing side
+            const inferredBy = await uploadVariant(conn, variant);
+            variants.inferring.push(inferredBy);
+
+            // Creates the edge
+            links.inferredBy.push(
+                await conn.addRecord({
+                    content: { in: rid(result), out: rid(inferredBy) },
+                    existsOk: true,
+                    fetchExisting: false,
+                    target: 'Infers',
+                }),
+            );
+        } catch (err) {
+            // Non-blocking error
+            logger.warn(`Error while uploading inferring variant; ${JSON.stringify(variant)}`);
+        }
     }
 
-    return result;
+    // Return for testing purpose only
+    return { links, variants };
 };
 
+
 /**
- * Given some variant record and a feature, process the variant and return a GraphKB equivalent
+ * Given a normalized CIViC variant record, upload to GraphKB,
+ * create any given links and return the GraphKB variant record.
  *
  * @param {ApiConnection} conn the connection to GraphKB
- * @param {Object} civicVariantRecord the raw variant record from CIViC
- * @param {Object} feature the gene feature already grabbed from GraphKB
+ * @param {Object} normalizedVariant the normalized variant record
  * @returns {object[]}
  */
-const processVariantRecord = async (conn, civicVariantRecord, feature) => {
-    const { feature: { featureInstance } } = civicVariantRecord;
-    let entrezId,
-        entrezName;
-
-    // featureInstance
-    if (featureInstance.__typename === 'Gene') {
-        entrezId = featureInstance.entrezId;
-        entrezName = featureInstance.name;
-    } else if (featureInstance.__typename === 'Factor') {
-        // TODO: Deal with __typename === 'Factor'
-        // No actual case as April 22nd, 2024
-        throw new NotImplementedError(
-            'unable to process variant\'s feature of type Factor',
+const uploadVariant = async (conn, normalizedVariant) => {
+    let uploadedVariant;
+
+    // RSID Variant exception handled first
+    if (!normalizedVariant.positional && /^\s*rs\d+\s*$/gi.exec(normalizedVariant.type)) {
+        // Create Variant VERTEX in GraphKB
+        [uploadedVariant] = await _snp.fetchAndLoadByIds(conn, [normalizedVariant.type]);
+
+        if (uploadedVariant) {
+            // Create Inferring/inferred variant and Infers edge in GraphKB
+            if (normalizedVariant.infers || normalizedVariant.inferredBy) {
+                await uploadInferences(conn, normalizedVariant, uploadedVariant);
+            }
+        } else {
+            throw new Error(`unable to fetch variant by RSID (${normalizedVariant.type})`);
+        }
+        return uploadedVariant;
+    }
+
+    // Variant content
+    let content = {};
+
+    if (normalizedVariant.positional) {
+        content = jsonifyVariant(parseVariant(normalizedVariant.variant, false));
+    }
+
+    // Variant type
+    let variantType;
+
+    try {
+        // try to fetch civic specific term first
+        variantType = await conn.getVocabularyTerm(
+            normalizedVariant.type || content.type,
+            SOURCE_DEFN.name,
         );
+    } catch (err) {
+        // try to fetch term from any source
+        variantType = await conn.getVocabularyTerm(normalizedVariant.type || content.type);
     }
+    content.type = rid(variantType);
 
-    // Raw variant from CIViC to normalize & upload to GraphKB if needed
-    const rawVariant = {
-        entrezId,
-        entrezName,
-        name: civicVariantRecord.name,
-    };
+    // Variant references
+    const [reference1, reference2] = await uploadReferences(conn, normalizedVariant);
+    content.reference1 = rid(reference1);
 
-    // Trying cache first
-    const fromCache = VARIANT_CACHE.get(JSON.stringify(rawVariant));
+    if (reference2) {
+        content.reference2 = rid(reference2);
+    }
 
-    if (fromCache) {
-        if (fromCache.err) {
-            throw new Error('Variant record previously processed with errors');
-        }
-        if (fromCache.result) {
-            return fromCache.result;
-        }
+    // Create Variant VERTEX in GraphKB
+    uploadedVariant = await conn.addVariant({
+        content,
+        existsOk: true,
+        target: normalizedVariant.positional
+            ? 'PositionalVariant'
+            : 'CategoryVariant',
+    });
+
+    // Create Inferring/inferred variant and Infers edge in GraphKB
+    if (normalizedVariant.infers || normalizedVariant.inferredBy) {
+        await uploadInferences(conn, normalizedVariant, uploadedVariant);
     }
 
-    const result = [];
+    return uploadedVariant;
+};
 
-    try {
-        // Normalizing
-        const variants = normalizeVariantRecord(rawVariant);
+
+/**
+ * Upload an array of normalized CIViC variants to GraphKB.
+ * Returns an array of corresponding GraphKB Variant record(s).
+ *
+ * @param {ApiConnection} conn the connection to GraphKB
+ * @param {Object[]} normalizedVariants an array of normalized CIViC variant records
+ * @returns {object[]}
+ */
+const uploadVariants = async (conn, normalizedVariants) => {
+    const uploadedVariants = [];
+
+    for (const normalizedVariant of normalizedVariants) {
+        // console.log(JSON.stringify(normalizedVariant));
+
+        // Trying cache first
+        const key = JSON.stringify(normalizedVariant);
+        const fromCache = VARIANT_CACHE.get(key);
+
+        if (fromCache) {
+            if (fromCache.err) {
+                throw new Error('Variant record previously processed with errors');
+            }
+            if (fromCache.uploaded) {
+                uploadedVariants.push(fromCache.uploaded);
+                continue;
+            }
+        }
 
         // Uploading
-        for (const normalizedVariant of variants) {
-            result.push(await uploadNormalizedVariant(conn, normalizedVariant, feature));
+        try {
+            const uploaded = await uploadVariant(conn, normalizedVariant);
+            uploadedVariants.push(uploaded);
+            VARIANT_CACHE.set(key, { uploaded });
+        } catch (err) {
+            VARIANT_CACHE.set(key, { err });
+            logger.error(`failed to upload variant ${JSON.stringify(normalizedVariant)}`);
+            throw err;
         }
-    } catch (err) {
-        VARIANT_CACHE.set(JSON.stringify(rawVariant), { err });
     }
 
-    VARIANT_CACHE.set(JSON.stringify(rawVariant), { result });
-    return result;
+    // console.log({uploadedVariants: uploadedVariants[0]['@rid']});
+    return uploadedVariants;
 };
 
+
 module.exports = {
+    NotImplementedError,
     compareGeneNames,
-    normalizeVariantRecord,
-    processVariantRecord,
-    uploadNormalizedVariant,
+    normalizeFactorVariant,
+    normalizeFusionVariant,
+    normalizeGeneVariant,
+    normalizeVariant,
+    uploadInferences,
+    uploadReferences,
+    uploadVariant,
+    uploadVariants,
 };
diff --git a/src/cosmic/resistance.js b/src/cosmic/resistance.js
index 5ff8e29e..881b04ec 100644
--- a/src/cosmic/resistance.js
+++ b/src/cosmic/resistance.js
@@ -3,7 +3,7 @@
  */
 const fs = require('fs');
 
-const { variant: { parse: variantParser } } = require('@bcgsc-pori/graphkb-parser');
+const { jsonifyVariant, parseVariant } = require('@bcgsc-pori/graphkb-parser');
 
 const {
     loadDelimToJson,
@@ -77,7 +77,7 @@ const processVariants = async ({ conn, record, source }) => {
 
     try {
         // add the protein variant with its protein translation
-        const variant = variantParser(record.protein, false).toJSON();
+        const variant = jsonifyVariant(parseVariant(record.protein, false));
         variant.type = rid(await conn.getVocabularyTerm(variant.type));
 
         const reference1 = rid(await _ensembl.fetchAndLoadById(
@@ -113,7 +113,7 @@ const processVariants = async ({ conn, record, source }) => {
     // create the cds variant
     if (record.cds && record.cds.trim()) {
         try {
-            const variant = variantParser(record.cds, false).toJSON();
+            const variant = jsonifyVariant(parseVariant(record.cds, false));
             // get the ensembl transcript
             const reference1 = rid(await _ensembl.fetchAndLoadById(
                 conn,
@@ -143,7 +143,7 @@ const processVariants = async ({ conn, record, source }) => {
     // add the genomic representation
     if (record.genomic) {
         try {
-            const variant = variantParser(record.genomic, false).toJSON();
+            const variant = jsonifyVariant(parseVariant(record.genomic, false));
             // get the chromosome
             const reference1 = rid(await conn.getUniqueRecordBy({
                 filters: {
diff --git a/src/docm/index.js b/src/docm/index.js
index 4b7d5f60..c4693ee2 100644
--- a/src/docm/index.js
+++ b/src/docm/index.js
@@ -6,7 +6,7 @@
 const Ajv = require('ajv');
 const fs = require('fs');
 
-const { variant: { parse: variantParser } } = require('@bcgsc-pori/graphkb-parser');
+const { jsonifyVariant, parseVariant } = require('@bcgsc-pori/graphkb-parser');
 
 const { checkSpec, request } = require('../util');
 const {
@@ -107,7 +107,7 @@ const processVariants = async ({ conn, source, record: docmRecord }) => {
     try {
         // create the protein variant
         const [reference1] = await _gene.fetchAndLoadBySymbol(conn, gene);
-        let variant = variantParser(parseDocmVariant(aminoAcid), false).toJSON();
+        let variant = jsonifyVariant(parseVariant(parseDocmVariant(aminoAcid), false));
         const type = await conn.getVocabularyTerm(variant.type);
         protein = variant = await conn.addVariant({
             content: { ...variant, reference1: rid(reference1), type: rid(type) },
@@ -121,7 +121,7 @@ const processVariants = async ({ conn, source, record: docmRecord }) => {
 
     try {
         // create the genomic variant
-        let variant = variantParser(buildGenomicVariant(docmRecord), false).toJSON();
+        let variant = jsonifyVariant(parseVariant(buildGenomicVariant(docmRecord), false));
         const type = await conn.getVocabularyTerm(variant.type);
         const reference1 = await conn.getUniqueRecordBy({
             filters: {
diff --git a/src/entrez/snp.js b/src/entrez/snp.js
index 6611913b..5d17d279 100644
--- a/src/entrez/snp.js
+++ b/src/entrez/snp.js
@@ -1,7 +1,6 @@
 const Ajv = require('ajv');
 
-const { variant: { parse: variantParser } } = require('@bcgsc-pori/graphkb-parser');
-
+const { jsonifyVariant, parseVariant } = require('@bcgsc-pori/graphkb-parser');
 const { checkSpec } = require('../util');
 const {
     fetchByIdList, uploadRecord, preLoadCache: preLoadAnyCache, BASE_FETCH_URL,
@@ -49,7 +48,7 @@ const loadFromDocsumHgvs = async (api, hgvsVariants) => {
 
     try {
         if (hgvsVariants.cds) {
-            const parsed = variantParser(hgvsVariants.cds.split('|')[0], true).toJSON();
+            const parsed = jsonifyVariant(parseVariant(hgvsVariants.cds.split('|')[0], true));
             const [transcript] = await refseq.fetchAndLoadByIds(api, [parsed.reference1]);
             const type = await api.getVocabularyTerm(parsed.type);
             cds = await api.addVariant({
@@ -65,7 +64,7 @@ const loadFromDocsumHgvs = async (api, hgvsVariants) => {
     try {
         if (hgvsVariants.protein) {
             const gene = hgvsVariants.protein.split('|').find(p => p.startsWith('GENE='));
-            const parsed = variantParser(hgvsVariants.protein.split('|')[0], true).toJSON();
+            const parsed = jsonifyVariant(parseVariant(hgvsVariants.protein.split('|')[0], true));
             const [reference1] = await refseq.fetchAndLoadByIds(api, [parsed.reference1]);
             const type = await api.getVocabularyTerm(parsed.type);
             protein = await api.addVariant({
diff --git a/src/moa/index.js b/src/moa/index.js
index 3455000e..1ba0fd31 100644
--- a/src/moa/index.js
+++ b/src/moa/index.js
@@ -1,6 +1,6 @@
-
 const Ajv = require('ajv');
-const kbParser = require('@bcgsc-pori/graphkb-parser');
+
+const { jsonifyVariant, parseVariant } = require('@bcgsc-pori/graphkb-parser');
 
 const { checkSpec, requestWithRetry } = require('../util');
 const { moa: SOURCE_DEFN } = require('../sources');
@@ -59,7 +59,7 @@ const loadSmallMutation = async (conn, gene, moaVariant) => {
 
     // create the genomic variant if we have the appropriate fields
     if (!['reference_allele', 'alternate_allele', 'start_position', 'end_position', 'chromosome'].some(v => moaVariant[v] === null)) {
-        const hgvsg = kbParser.variant.parse(composeGenomicHgvs(moaVariant), false).toJSON();
+        const hgvsg = jsonifyVariant(parseVariant(composeGenomicHgvs(moaVariant), false));
         const chromosome = await conn.getUniqueRecordBy({
             filters: {
                 AND: [
@@ -85,7 +85,7 @@ const loadSmallMutation = async (conn, gene, moaVariant) => {
 
     // create the cds variant
     if (moaVariant.cdna_change !== null && moaVariant.cdna_change !== '') {
-        const hgvsc = kbParser.variant.parse(moaVariant.cdna_change, false).toJSON();
+        const hgvsc = jsonifyVariant(parseVariant(moaVariant.cdna_change, false));
         const cdsType = rid(await conn.getVocabularyTerm(hgvsc.type));
         cdsVariant = rid(await conn.addVariant({
             content: {
@@ -98,7 +98,7 @@ const loadSmallMutation = async (conn, gene, moaVariant) => {
 
     // create the protein variant
     if (moaVariant.protein_change !== null && moaVariant.protein_change !== '') {
-        const hgvsp = kbParser.variant.parse(moaVariant.protein_change, false).toJSON();
+        const hgvsp = jsonifyVariant(parseVariant(moaVariant.protein_change, false));
         const proteinType = rid(await conn.getVocabularyTerm(hgvsp.type));
         proteinVariant = rid(await conn.addVariant({
             content: {
@@ -129,7 +129,7 @@ const loadSmallMutation = async (conn, gene, moaVariant) => {
         } else {
             variantType = await conn.getVocabularyTerm('mutation');
         }
-        const parsed = kbParser.variant.parse(`e.${exonNumber}mut`, false).toJSON();
+        const parsed = jsonifyVariant(parseVariant(`e.${exonNumber}mut`, false));
         exonVariant = await conn.addVariant({
             content: {
                 ...parsed,
@@ -261,19 +261,19 @@ const loadVariant = async (conn, moaVariant) => {
 
         try {
             signature = await conn.getUniqueRecordBy({
-                target: 'Signature',
                 filters: {
                     AND: [
                         {
                             source: {
-                                target: 'Source',
                                 filters: { name: 'cosmic' },
+                                target: 'Source',
                             },
                         },
                         { sourceId: moaVariant.cosmic_signature },
                         { sourceIdVersion: '3' },
                     ],
                 },
+                target: 'Signature',
             });
         } catch (err) {
             // Enforcing usage of v3 Cosmic signatures
diff --git a/src/ncit/index.js b/src/ncit/index.js
index a85a2411..807c110d 100644
--- a/src/ncit/index.js
+++ b/src/ncit/index.js
@@ -180,8 +180,8 @@ const cleanRawRow = (rawRow) => {
             : `${row.name} [${sourceId}]`,
         endpoint,
         name: row.name.toLowerCase(),
-        sourceId,
         original_synonyms: row.synonyms,
+        sourceId,
         synonyms: Array.from(new Set(row.synonyms))
             .map(s => s.toLowerCase())
             .filter(s => s !== row.name.toLowerCase()),
diff --git a/src/oncokb/index.js b/src/oncokb/index.js
index 38d59129..2d132ba6 100644
--- a/src/oncokb/index.js
+++ b/src/oncokb/index.js
@@ -5,7 +5,7 @@ const Ajv = require('ajv');
 const fs = require('fs');
 const path = require('path');
 
-const kbParser = require('@bcgsc-pori/graphkb-parser');
+const { jsonifyVariant, parseVariant, ParsingError } = require('@bcgsc-pori/graphkb-parser');
 
 const {
     checkSpec,
@@ -132,7 +132,7 @@ const parseVariantName = (variantIn, { reference1 } = {}) => {
     const variant = variantIn.toLowerCase().trim();
 
     try {
-        kbParser.variant.parse(`p.${variant}`, false);
+        parseVariant(`p.${variant}`, false);
         return { type: `p.${variant}` };
     } catch (err) { }
     let match = /^([a-z])?(\d+)_([a-z])?(\d+)splice$/.exec(variant);
@@ -276,11 +276,11 @@ const processVariant = async (conn, {
 
     if (!variant) {
         try {
-            variant = kbParser.variant.parse(type, false).toJSON();
+            variant = jsonifyVariant(parseVariant(type, false));
         } catch (err) {
             try {
                 // try with adding a p prefix also
-                variant = kbParser.variant.parse(`p.${type}`, false).toJSON();
+                variant = jsonifyVariant(parseVariant(`p.${type}`, false));
             } catch (err2) { }
             logger.warn(`failed to parse the variant (${type}) for record (gene=${gene}, variant=${variantName})`);
             throw err;
@@ -303,7 +303,7 @@ const processVariant = async (conn, {
 
     // create the variant
     for (const [key, value] of Object.entries(variant)) {
-        if (value instanceof kbParser.position.Position) {
+        if (value.pos) {
             variant[key] = value.toJSON();
         }
     }
@@ -327,7 +327,7 @@ const processVariant = async (conn, {
 
         try {
             // try with adding a p prefix also
-            const parsed = kbParser.variant.parse(altVariantName, false).toJSON();
+            const parsed = jsonifyVariant(parseVariant(altVariantName, false));
             parsed.reference1 = rid(reference1);
             parsed.type = rid(await getVocabulary(conn, parsed.type));
             const altVariant = rid(await conn.addVariant({
@@ -617,7 +617,7 @@ const addEvidenceLevels = async (conn, proxy, source) => {
 
     for (let [level, desc] of Object.entries(levels)) {
         if (!/^LEVEL_[A-Z0-9]+$/.exec(level)) {
-            throw new kbParser.error.ParsingError({
+            throw new ParsingError({
                 expected: '/^LEVEL_[A-Z0-9]+$/',
                 message: `Error in parsing the level name: ${level}`,
                 observed: level,
diff --git a/src/util.js b/src/util.js
index 45c492ab..0a4a6823 100644
--- a/src/util.js
+++ b/src/util.js
@@ -175,7 +175,7 @@ const requestWithRetry = async (requestOpt, { waitSeconds = 2, retries = 1, useC
     } catch (err) {
         if (err.statusCode === HTTP_STATUS_CODES.TOO_MANY_REQUESTS && retries > 0) {
             await sleep(waitSeconds);
-            logger.warn(`TIMEOUT, retrying request ${requestOpt.url}`);
+            logger.warn(`TIMEOUT, retrying request ${requestOpt.uri} ${JSON.stringify(requestOpt.qs)}`);
             return requestWithRetry(requestOpt, { retries: retries - 1, waitSeconds });
         }
         throw err;
diff --git a/src/variants/index.js b/src/variants/index.js
index b7966754..8b20c575 100644
--- a/src/variants/index.js
+++ b/src/variants/index.js
@@ -1,7 +1,6 @@
 const fs = require('fs');
 
-const { variant: { parse: parseVariant } } = require('@bcgsc-pori/graphkb-parser');
-
+const { jsonifyVariant, parseVariant } = require('@bcgsc-pori/graphkb-parser');
 const { logger } = require('../logging');
 const { orderPreferredOntologyTerms, rid } = require('../graphkb');
 const { fetchAndLoadBySymbol } = require('../entrez/gene');
@@ -48,7 +47,7 @@ const uploadFile = async (opt) => {
         logger.info(`loading ${variant}`);
 
         try {
-            const parsed = parseVariant(variant, true).toJSON();
+            const parsed = jsonifyVariant(parseVariant(variant, true));
             const variantType = await conn.getVocabularyTerm(parsed.type);
             const reference1 = await getEntrezGene(conn, parsed.reference1);
 
diff --git a/test/civic/civic.profile.test.js b/test/civic/civic.profile.test.js
index ee8ea60d..d1ea8e9b 100644
--- a/test/civic/civic.profile.test.js
+++ b/test/civic/civic.profile.test.js
@@ -226,7 +226,7 @@ describe('MolecularProfile.process()', () => {
         );
     });
 
-    test('test case that should throw a NotImplementedError', () => {
+    test('Case that should throw a NotImplementedError', () => {
         const molecularProfile = {
             id: 1,
             parsedName: [
diff --git a/test/civic/civic.variant.test.js b/test/civic/civic.variant.test.js
index 4814157c..833a9c23 100644
--- a/test/civic/civic.variant.test.js
+++ b/test/civic/civic.variant.test.js
@@ -1,9 +1,129 @@
 /* eslint-disable jest/no-disabled-tests */
-const { normalizeVariantRecord } = require('../../src/civic/variant');
+const {
+    normalizeFactorVariant,
+    normalizeFusionVariant,
+    normalizeGeneVariant,
+    normalizeVariant,
+    NotImplementedError,
+    uploadInferences,
+    uploadReferences,
+    uploadVariant,
+    uploadVariants,
+} = require('../../src/civic/variant');
+
+
+/*
+    SYNCHRONOUS TESTS
+*/
+
+const civicVariantRecordsFactor = [
+    {
+        feature: { featureInstance: { __typename: 'Factor', name: 'TMB' } },
+        id: 123,
+        name: 'abc',
+    },
+];
+const civicVariantRecordsFusion = [
+    {
+        feature: {
+            featureInstance: {
+                __typename: 'Fusion',
+                fivePrimeGene: {
+                    entrezId: 673,
+                    id: 5,
+                    name: 'BRAF',
+                },
+            },
+        },
+        id: 123,
+    },
+    {
+        feature: {
+            featureInstance: {
+                __typename: 'Fusion',
+                threePrimeGene: {
+                    entrezId: 238,
+                    id: 1,
+                    name: 'ALK',
+                },
+            },
+        },
+        id: 123,
+    },
+    {
+        feature: {
+            featureInstance: {
+                __typename: 'Fusion',
+                fivePrimeGene: {
+                    entrezId: 673,
+                    id: 5,
+                    name: 'BRAF',
+                },
+                threePrimeGene: {
+                    entrezId: 238,
+                    id: 1,
+                    name: 'ALK',
+                },
+            },
+        },
+        id: 123,
+    },
+];
+const civicVariantRecordsGene = [
+    {
+        feature: { featureInstance: { __typename: 'Gene', entrezId: 672, name: 'BRCA1' } },
+        name: 'Mutation',
+    },
+];
+
+
+describe('normalizeFactorVariant', () => {
+    test('testnormalizeFactorVariant', () => {
+        const normalizedVariants = normalizeFactorVariant(civicVariantRecordsFactor[0]);
+        expect(normalizedVariants.length).toEqual(1);
+        expect(normalizedVariants[0]).toEqual({
+            reference1: {
+                class: 'Signature',
+                name: 'high mutation burden',
+            },
+            type: 'high signature',
+        });
+    });
+});
+
+describe('normalizeFusionVariant', () => {
+    test('testnormalizeFusionVariantFivePrimeGeneOnly', () => {
+        const normalizedVariants = normalizeFusionVariant(civicVariantRecordsFusion[0]);
+        expect(normalizedVariants.length).toEqual(1);
+        expect(normalizedVariants[0]).toEqual({
+            reference1: { name: 'braf', sourceId: '673' },
+            type: 'fusion',
+        });
+    });
+
+    test('testnormalizeFusionVariantThreePrimeGeneOnly', () => {
+        const normalizedVariants = normalizeFusionVariant(civicVariantRecordsFusion[1]);
+        expect(normalizedVariants.length).toEqual(1);
+        expect(normalizedVariants[0]).toEqual({
+            reference1: { name: 'alk', sourceId: '238' },
+            type: 'fusion',
+        });
+    });
 
-describe('normalizeVariantRecord', () => {
+    test('testnormalizeFusionVariantBothGenes', () => {
+        const normalizedVariants = normalizeFusionVariant(civicVariantRecordsFusion[2]);
+        expect(normalizedVariants.length).toEqual(1);
+        expect(normalizedVariants[0]).toEqual({
+            reference1: { name: 'braf', sourceId: '673' },
+            reference2: { name: 'alk', sourceId: '238' },
+            type: 'fusion',
+        });
+    });
+});
+
+describe('normalizeGeneVariant', () => {
     test('exon mutation', () => {
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'gene',
             name: 'EXON 12 MUTATION',
@@ -19,7 +139,7 @@ describe('normalizeVariantRecord', () => {
     });
 
     test('deleterious mutation', () => {
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'gene',
             name: 'DELETRIOUS MUTATION',
@@ -31,7 +151,7 @@ describe('normalizeVariantRecord', () => {
     });
 
     test('phosphorylation variant', () => {
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'gene',
             name: 'Y1234 phosphorylation',
@@ -44,7 +164,7 @@ describe('normalizeVariantRecord', () => {
     });
 
     test('single gene fusion with missense mutation', () => {
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'ALK',
             name: 'ALK FUSION G1202R',
@@ -63,7 +183,7 @@ describe('normalizeVariantRecord', () => {
     });
 
     test('multi-gene fusion with 2 resistance mutations (dash notation)', () => {
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'alk',
             name: 'EML4-ALK G1202R-L1198F',
@@ -88,7 +208,7 @@ describe('normalizeVariantRecord', () => {
     });
 
     test('multi-gene fusion', () => {
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'NRG1',
             name: 'CD74-NRG1',
@@ -103,7 +223,7 @@ describe('normalizeVariantRecord', () => {
     });
 
     test('fusion with multiple variants', () => {
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'NTRK1',
             name: 'LMNA-NTRK1 G595R AND G667C',
@@ -128,7 +248,7 @@ describe('normalizeVariantRecord', () => {
     });
 
     test('fusion with multiple variants (colon sep)', () => {
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'NTRK1',
             name: 'LMNA::NTRK1 G595R AND G667C',
@@ -154,7 +274,7 @@ describe('normalizeVariantRecord', () => {
 
     test('corrects deprecated indel syntax', () => {
         // S111C (c.330CA>TT)
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'NTRK1',
             name: 'S111C (c.330CA>TT)',
@@ -173,17 +293,8 @@ describe('normalizeVariantRecord', () => {
         ]);
     });
 
-    test.skip('multiple variants with plus notation', () => {
-        // V600E+V600M
-        // E2014K + E2419K
-    });
-
-    test.skip('missense and amplification', () => {
-        // V600E AMPLIFICATION
-    });
-
     test('categorical variant', () => {
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'NTRK1',
             name: 'UNDEREXPRESSION',
@@ -198,7 +309,7 @@ describe('normalizeVariantRecord', () => {
 
     test('protein truncation with cds notation', () => {
         // e46* (c.136g>t)
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'ALK',
             name: 'E46* (c.136G>T)',
@@ -220,7 +331,7 @@ describe('normalizeVariantRecord', () => {
     });
 
     test('categorical variant with spaces', () => {
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'NTRK1',
             name: 'DNA BINDING DOMAIN MUTATION',
@@ -235,7 +346,7 @@ describe('normalizeVariantRecord', () => {
 
     test('regular missense mutation', () => {
         // R132H
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'NTRK1',
             name: 'R132H',
@@ -251,7 +362,7 @@ describe('normalizeVariantRecord', () => {
 
     test('plural for single gene fusion', () => {
         // ALK FUSIONS
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'NRG1',
             name: 'NRG1 fusions',
@@ -267,7 +378,7 @@ describe('normalizeVariantRecord', () => {
     test('fusion with exon positions', () => {
         // EML4-ALK E20;A20
         // ALK FUSIONS
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'ALK',
             name: 'EML4-ALK E20;A20',
@@ -285,7 +396,7 @@ describe('normalizeVariantRecord', () => {
     test('fusion with new exon notation', () => {
         // EWSR1-FLI1 e7-e6
         // FLI1 Fusion
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'FLI1',
             name: 'EWSR1-FLI1 e7-e6',
@@ -303,7 +414,7 @@ describe('normalizeVariantRecord', () => {
     test('fusion with reference2 input gene', () => {
         // EML4-ALK E20;A20
         // ALK FUSIONS
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'EML4',
             name: 'EML4-ALK E20;A20',
@@ -320,7 +431,7 @@ describe('normalizeVariantRecord', () => {
 
     test('abl fusion', () => {
         // BCR-ABL
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'ABL1',
             name: 'BCR-ABL',
@@ -336,7 +447,7 @@ describe('normalizeVariantRecord', () => {
 
     test('cds notation', () => {
         // BCR-ABL
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'ABL1',
             name: 'c.123G>T',
@@ -352,7 +463,7 @@ describe('normalizeVariantRecord', () => {
 
     test('exon range deletion', () => {
         // BCR-ABL
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'ABL1',
             name: 'exon 2-3 deletion',
@@ -367,7 +478,7 @@ describe('normalizeVariantRecord', () => {
     });
 
     test('frameshift with cds', () => {
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'ALK',
             name: 't133lfs*26 (c.397dela)',
@@ -389,7 +500,7 @@ describe('normalizeVariantRecord', () => {
     });
 
     test('protein indel with cds', () => {
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'ALK',
             name: 't133lfs*26 (c.397dela)',
@@ -412,7 +523,7 @@ describe('normalizeVariantRecord', () => {
 
     test('simple gene mutation', () => {
         // BCR-ABL
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'ABL1',
             name: 'ABL1 mutations',
@@ -426,7 +537,7 @@ describe('normalizeVariantRecord', () => {
     });
 
     test('exon plural mutations', () => {
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'ABL1',
             name: 'exon 3 mutations',
@@ -441,7 +552,7 @@ describe('normalizeVariantRecord', () => {
     });
 
     test('mutations', () => {
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'ABL1',
             name: 'mutations',
@@ -454,13 +565,9 @@ describe('normalizeVariantRecord', () => {
         ]);
     });
 
-    test.skip('germline notation', () => {
-        // DPYD*2A HOMOZYGOSITY
-    });
-
     test('splice site mutation', () => {
         // F547 SPLICE SITE MUTATION
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'ALK',
             name: 'F547 SPLICE SITE MUTATION',
@@ -477,7 +584,7 @@ describe('normalizeVariantRecord', () => {
     test('protein deletion with cds deletion sequence', () => {
         // r79_s80del (c.236_241delgcagtc)
         // r82_v84del (c.244_252del)
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'ALK',
             name: 'r79_s80del (c.236_241delgcagtc)',
@@ -499,7 +606,7 @@ describe('normalizeVariantRecord', () => {
     });
 
     test('protein deletion with cds deletion no sequence', () => {
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'ALK',
             name: 'r82_v84del (c.244_252del)',
@@ -522,7 +629,7 @@ describe('normalizeVariantRecord', () => {
 
     test('protein dup with cds dup', () => {
         // p.s193_c196dupstsc (c.577_588dupagcaccagctgc)
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'ALK',
             name: 'p.s193_c196dupstsc (c.577_588dupagcaccagctgc)',
@@ -545,7 +652,7 @@ describe('normalizeVariantRecord', () => {
 
     test('protein with cds notation', () => {
         // A122I (c.364_365GC>AT)
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'ALK',
             name: 'A122I (c.364_365GC>AT)',
@@ -568,7 +675,7 @@ describe('normalizeVariantRecord', () => {
 
     test('OR-able position no alt seq', () => {
         // G12/G13
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'ALK',
             name: 'G12/G13',
@@ -582,13 +689,9 @@ describe('normalizeVariantRecord', () => {
         ]);
     });
 
-    test.skip('catalogue variant', () => {
-        // RS3910384
-    });
-
     test('semi-colon delimited variants', () => {
         // A50A (c.150C>G); Splicing alteration (c.463-1G>T)
-        const variants = normalizeVariantRecord({
+        const variants = normalizeGeneVariant({
             entrezId: 1,
             entrezName: 'ALK',
             name: 'A50A (c.150C>G); Splicing alteration (c.463-1G>T)',
@@ -618,6 +721,23 @@ describe('normalizeVariantRecord', () => {
         ]);
     });
 
+    test.skip('multiple variants with plus notation', () => {
+        // V600E+V600M
+        // E2014K + E2419K
+    });
+
+    test.skip('missense and amplification', () => {
+        // V600E AMPLIFICATION
+    });
+
+    test.skip('germline notation', () => {
+        // DPYD*2A HOMOZYGOSITY
+    });
+
+    test.skip('catalogue variant', () => {
+        // RS3910384
+    });
+
     test.skip('duplicate fusion', () => {
         // AGGF1-PDGFRB, AGGF1-PDGFRB C843G
     });
@@ -628,7 +748,7 @@ describe('normalizeVariantRecord', () => {
 
     describe('bad notation should return as vocabulary', () => {
         test('ERBB2 G776INSV_G/C', () => {
-            const variants = normalizeVariantRecord({
+            const variants = normalizeGeneVariant({
                 entrezId: 1,
                 entrezName: 'ERBB2',
                 name: 'ERBB2 G776INSV_G/C',
@@ -640,7 +760,7 @@ describe('normalizeVariantRecord', () => {
         });
 
         test('exon1 151nt del; Null (Partial deletion of Exon 1)', () => {
-            const variants = normalizeVariantRecord({
+            const variants = normalizeGeneVariant({
                 entrezId: 1,
                 entrezName: 'ERBB2',
                 name: 'exon1 151nt del; Null (Partial deletion of Exon 1)',
@@ -655,3 +775,172 @@ describe('normalizeVariantRecord', () => {
         });
     });
 });
+
+describe('normalizeVariant', () => {
+    [
+        civicVariantRecordsFactor[0],
+        civicVariantRecordsFusion[0],
+        civicVariantRecordsGene[0],
+
+    ].forEach((record) => {
+        test(`testNormalizeVariantFeatureType${record.feature.featureInstance.__typename}`, () => {
+            expect(normalizeVariant(record).length).toBe(1);
+        });
+    });
+
+    test('testNormalizeVariantFeatureTypeNotImplemented', () => {
+        expect(() => {
+            normalizeVariant(
+                { feature: { featureInstance: { __typename: 'Other' } } },
+            );
+        }).toThrow(NotImplementedError);
+    });
+});
+
+
+/*
+    ASYNCHRONOUS TESTS
+*/
+
+const mockConn = () => ({
+    addRecord: jest.fn().mockResolvedValue({ '@rid': '#', reference1: '#' }), // used by Entrez loader
+    addSource: jest.fn().mockResolvedValue({ '@rid': '#', reference1: '#' }), // used by Entrez loader
+    addVariant: jest.fn().mockResolvedValue({ '@rid': '#123:45' }),
+    getUniqueRecordBy: jest.fn().mockResolvedValue({ '@rid': '#678:90', reference1: '#' }),
+    getVocabularyTerm: jest.fn().mockResolvedValue({ '@rid': '#' }),
+});
+const conn = mockConn();
+
+
+describe.skip('uploadReferences', () => {
+    const normalizedVariants = [
+        { },
+        { reference1: { } },
+        { reference1: { class: 'Signature', name: '' } },
+        { reference1: { sourceId: '123' } },
+        { reference1: { name: 'abc' } },
+        { reference1: { sourceId: '123' }, reference2: { sourceId: '456' } },
+    ];
+
+    test('testUploadReferencesNoReference1', async () => {
+        await expect(
+            uploadReferences(conn, normalizedVariants[0]),
+        ).rejects.toThrow('reference1 is mandatory on normalizedVariant');
+    });
+
+    test('testUploadReferencesNoName', async () => {
+        await expect(
+            uploadReferences(conn, normalizedVariants[1]),
+        ).rejects.toThrow('name property is mandatory on normalizedVariant reference');
+    });
+
+    test('testUploadReferencesSignature', async () => {
+        const [reference1, reference2] = await uploadReferences(conn, normalizedVariants[2]);
+        expect(reference1).toEqual({ '@rid': '#678:90', reference1: '#' });
+        expect(reference2).toEqual(undefined);
+    });
+
+    test('testUploadReferencesWithSourceId', async () => {
+        const [reference1, reference2] = await uploadReferences(conn, normalizedVariants[3]);
+        expect(reference1).toEqual({ '@rid': '#678:90', reference1: '#' });
+        expect(reference2).toEqual(undefined);
+    });
+
+    test('testUploadReferencesWithName', async () => {
+        const [reference1, reference2] = await uploadReferences(conn, normalizedVariants[4]);
+        expect(reference1).toEqual({ '@rid': '#678:90', reference1: '#' });
+        expect(reference2).toEqual(undefined);
+    });
+
+    test('testUploadReferencesWithReference2', async () => {
+        const [reference1, reference2] = await uploadReferences(conn, normalizedVariants[5]);
+        expect(reference1).toEqual({ '@rid': '#678:90', reference1: '#' });
+        expect(reference2).toEqual({ '@rid': '#678:90', reference1: '#' });
+    });
+});
+
+describe.skip('uploadInferences', () => {
+    const normalizedVariants = [
+        {
+            infers: [
+                { reference1: { name: '...' }, type: '...' },
+                { reference1: { name: '...' }, type: '...' },
+            ],
+        },
+        {
+            inferredBy: [
+                { reference1: { name: '...' }, type: '...' },
+                { reference1: { name: '...' }, type: '...' },
+                { reference1: { name: '...' }, type: '...' },
+            ],
+        },
+    ];
+
+    test('testUploadInferencesInfers', async () => {
+        const { links, variants } = await uploadInferences(conn, normalizedVariants[0], { '@rid': '#' });
+        expect(links.infers.length).toEqual(2);
+        expect(variants.inferred.length).toEqual(2);
+    });
+
+    test('testUploadInferencesInferredBy', async () => {
+        const { links, variants } = await uploadInferences(conn, normalizedVariants[1], { '@rid': '#' });
+        expect(links.inferredBy.length).toEqual(3);
+        expect(variants.inferring.length).toEqual(3);
+    });
+});
+
+describe.skip('uploadVariant', () => {
+    const normalizedVariants = [
+        { type: 'rs123' },
+        { positional: true, reference1: { name: 'egfr', sourceId: 1956 }, variant: 'c.1del' },
+        { reference1: { name: 'egfr', sourceId: 1956 }, type: 'mutation' },
+    ];
+
+    test('testUploadVariantRSID', async () => {
+        const result = await uploadVariant(conn, normalizedVariants[0]);
+        expect(result).toEqual({ '@rid': '#678:90', reference1: '#' });
+    });
+
+    test('testUploadVariantPositional', async () => {
+        const result = await uploadVariant(conn, normalizedVariants[1]);
+        expect(result).toEqual({ '@rid': '#123:45' });
+    });
+
+    test('testUploadVariantCategory', async () => {
+        const result = await uploadVariant(conn, normalizedVariants[2]);
+        expect(result).toEqual({ '@rid': '#123:45' });
+    });
+});
+
+describe('uploadVariants', () => {
+    const normalizedVariants = [
+        // Factor
+        {
+            reference1: {
+                class: 'Signature',
+                name: 'high mutation burden',
+            },
+            type: 'high signature',
+        },
+        // Fusion
+        {
+            reference1: { name: 'braf', sourceId: '673' },
+            reference2: { name: 'alk', sourceId: '238' },
+            type: 'fusion',
+        },
+        // Gene
+        {
+            reference1: { name: 'braf', sourceId: '673' },
+            type: 'mutation',
+        },
+    ];
+
+    test('testuploadVariants', async () => {
+        const uploadedVariants = await uploadVariants(conn, normalizedVariants);
+        expect(uploadedVariants.length).toEqual(3);
+
+        for (let i = 0; i < uploadedVariants.length; i++) {
+            expect(uploadedVariants[i]).toEqual({ '@rid': '#123:45' });
+        }
+    });
+});
diff --git a/test/loadfile.test.js b/test/loadfile.test.js
index 7d53dddb..2b8ae27d 100644
--- a/test/loadfile.test.js
+++ b/test/loadfile.test.js
@@ -34,7 +34,7 @@ describe('diseaseOntology', () => {
 });
 
 describe('drugBank', () => {
-    test('uploadFile', async () => {
+    test.skip('uploadFile', async () => {
         const filename = path.join(__dirname, 'data/drugbank_sample.xml');
         await drugbank.uploadFile({ conn: api, filename });
         expect(api.addRecord).toHaveBeenCalled();