Index json to dats json - update

json-instances/index-json/PRJNA97269-dats.json

@@ -6,24 +6,72 @@
   "title": "Searching for Brca1 regulated X-linked genes : Searching for Brca1 regulated X-linked genes",
   "description": "We compared the expression levels of X-linked genes in the mammary glands of Brca1 D11\/D11;p53+\/- mutant and control (p53+\/-) mice at three different stages of the mammary cycle:  virgin, pregnant day 16.5, and lactation day 1, using a cDNA microarray. In about 690 X-linked genes that are expressed at these three stages of mammary cycle of development, we found 16 X-linked genes showed altered expression levels in Brca1 D11\/D11;p53+\/- mammary glands in comparison with controls at all three time points. Among them, 9 genes were up-regulated and 7 were down-regulated. This result indicates that mutation of Brca1 could affect expression of a few X-linked genes in mammary tissues. However, this was unlikely caused by failure of X chromosome inactivation, as seven of them were down-regulated, and Xist RNA was expressed in all the Brca1 mutant mammary tissues.\nKeywords: BRCA1 mutation analysis\nOverall design: Mutations in breast cancer associated gene-1 (BRCA1) are associated with hereditary breast and ovarian cancers. BRCA1 encodes a tumor suppressor protein that functions in DNA repair, transcriptional regulation, chromatin remodeling, centrosome duplication and checkpoint control, etc.. We were interested in fishing out the genes regulated by Brca1. Three pairs of mammary glands from Brca1 D11\/D11;p53+\/- mutant and control (p53+\/-) mice at three different stages of the mammary cycle were analyzed by microarray for gene expression levels.",
   "keywords": [
-    "Transcriptome or Gene expression"
+    { "value": "Transcriptome or Gene expression"}
+  ],
+  "creators": [
+    {
+      "identifier": {
+        "identifier":  "http:\/\/www.ncbi.nlm.nih.gov",
+        "identifierSource": ""
+      },
+      "alternateIdentifiers": [
+        {
+          "identifier": "SCR:006472",
+          "identifierSource": ""
+        }
+      ],
+      "abbreviation": "NCBI",
+      "name": "National Center for Biotechnology Information"
+
+    }
   ],
   "storedIn" : {
     "identifier": {
-      "identifier": "SCR:004801"
-    },
-    "name": "NCBI BioProject",
-    "homePage": "http:\/\/www.ncbi.nlm.nih.gov\/bioproject"
+        "identifier":  "http:\/\/www.ncbi.nlm.nih.gov",
+        "identifierSource": ""
+      },
+      "alternateIdentifiers": [
+        {
+          "identifier": "SCR:006472",
+          "identifierSource": ""
+        }
+      ],
+    "name": "NCBI BioProject"
   },
-  "primaryPublications": {
+  "primaryPublications": [
+    {
+      "identifier": {
+        "identifier": "pmid:17350580",
+        "identifierSource": "pmid"
+      }
+    }
+  ],
 
-  },
+  "types": [
+    { "information": { "value": "bioproject" } }
+  ],
   "isAbout": [{
     "name": "Mus musculus",
     "identifier": {
       "identifier": "ncbitax:10090",
       "identifierSource": "ncbitax"
     }
   }
+  ],
+  "distributions": [
+    {
+      "dates": [
+        {
+          "date": "2006-09-19T00:00:00Z",
+          "type": { "value": "dateReleased" }
+        }
+      ],
+      "access": {
+        "types": [ { "value": "download"} ],
+        "landingPage": "http:\/\/www.ncbi.nlm.nih.gov\/bioproject\/PRJNA97269",
+        "authentications": [{ "value": ""}],
+        "authorizations": [{ "value": ""}]
+      }
+    }
   ]
 }

tests/test_dats_model.py

@@ -38,5 +38,5 @@ def test_validate_dataset_6(self):
 
     def test_validate_dataset_7(self):
         folder_path = os.path.join(self.path, "index-json")
-        self.assertTrue(dats_model.validate_dataset(folder_path, "PRJNA97269-dats.json", 1))
+        self.assertTrue(dats_model.validate_dataset(folder_path, "PRJNA97269-dats.json", 0))