Wikidata

User:ProteinBoxBot/Bot Status

< User:ProteinBoxBot
Job Name Description Last Run Status Last Run Log Report Log Path Code URL Bot Account
0 CGI Data Source: Cancer Biomarkers database (https://www.cancergenomeinterpreter.org/biomarkers)
Data Type: Variant
Properties: positive therapeutic predictor (drug or therapy), negative therapeutic predictor (drug or therapy)
External IDs: HGVS nomeclature
Schedule: Runs Monthly		 SUCCESS 2018-12-22 06:38:00 CGI_Variant_Bot-20181222_06:38.html CGI_Variant_Bot-20181222_06:38.log Link ProteinBoxBot
1 CIViC Data Source: CIViC (https://civic.genome.wustl.edu)
Data Type: Variant
Properties: positive therapeutic predictor (drug or therapy), negative therapeutic predictor (drug or therapy)
External IDs: HGVS nomeclature, CIViC ID
Schedule: Runs Monthly		 SUCCESS 2019-01-07 10:23:05 ProteinBoxBot-20190107_10:23.html ProteinBoxBot-20190107_10:23.log Link ProteinBoxBot
2 Disease_Ontology Data Source: Disease Ontology (http://www.disease-ontology.org)
Data Type: Disease
Properties: subclass of (disease)
External IDs: Orphanet ID, UMLS CUI, Disease Ontology ID, ICD10, ICD9, MeSH ID, NCI Thesaurus ID, OMIM ID
Schedule: Runs upon new release		 SUCCESS 2018-12-28 13:34:27 Disease Ontology-20181228_13:34.html Disease Ontology-20181228_13:34.log Link ProteinBoxBot
3 Gene_Ontology Data Source: Gene Ontology (http://www.geneontology.org/)
Data Type: Gene Ontology term (one of: molecular function, cell component, biological process)
Properties: subclass of (GO term), part of (GO term), has part (GO term), regulates (molecular biology) (GO term)
External IDs: Gene Ontology ID
Schedule: Runs Monthly		 SUCCESS 2019-01-01 02:49:00 Gene Ontology-20190101_02:49.html Gene Ontology-20190101_02:49.log Link ProteinBoxBot
4 GeneBot_AGR Data Source: MyGene.info (https://mygene.info/), which gets data from Entrez and Ensembl (https://mygene.info/v3/metadata)
Data Type: Gene (genes found in the following taxons: yeast, worm, fly, zebrafish, mouse, rat (NCBI taxonomy IDs: 559292, 6239, 7227, 7955. 10090, 10116 respectively))
Properties: subclass of (genomic type), found in taxon (taxon), encodes (protein), strand orientation, genomic start, genomic end, chromosome, cytogenetic location
External IDs: Entrez Gene ID, Ensembl Gene ID, Ensembl Transcript ID, RefSeq RNA ID, HomoloGene ID, Saccharomyces Genome Database ID, Mouse Genome Informatics ID, MGI Gene Symbol, Wormbase Gene ID, FlyBase Gene ID, ZFIN Gene ID, Rat Genome Database ID		 SUCCESS 2018-10-20 19:04:00 GeneBot-20181020_19:04.log Link ProteinBoxBot
5 GeneBot_Homo_sapiens Data Source: MyGene.info (https://mygene.info/), which gets data from Entrez and Ensembl (https://mygene.info/v3/metadata)
Data Type: Gene (genes on Human only)
Properties: subclass of (genomic type), found in taxon (taxon), encodes (protein), strand orientation, genomic start, genomic end, chromosome, cytogenetic location
External IDs: Entrez Gene ID, Ensembl Gene ID, Ensembl Transcript ID, HGNC ID, HGNC Gene Symbol, RefSeq RNA ID, HomoloGene ID		 SUCCESS 2018-12-20 18:11:16 GeneBot-20181220_18:11.html GeneBot-20181220_18:11.log Link ProteinBoxBot
6 GeneBot_microbes Data Source: MyGene.info (https://mygene.info/), which gets data from Entrez and Ensembl (https://mygene.info/v3/metadata)
Data Type: Gene (genes on Microbial Reference Strains only (https://www.ncbi.nlm.nih.gov/genome/browse/reference/)
Properties: subclass of (genomic type), found in taxon (taxon), encodes (protein), strand orientation, genomic start, genomic end, chromosome, cytogenetic location
External IDs: Entrez Gene ID, Ensembl Gene ID, Ensembl Transcript ID, HGNC ID, HGNC Gene Symbol, RefSeq RNA ID		 SUCCESS 2018-12-10 00:00:00 GeneBot-20181210_00:00.log Link MicrobeBot
7 GeneDiseaseBot Data Source: Phenocarta (https://gemma.msl.ubc.ca/phenotypes.html). We are using only the data from GWAS Catalog (http://www.ebi.ac.uk/gwas/)
Data Type: Gene (genes on Human only)
Properties: Genetic Association (Disease)		 SUCCESS 2019-01-07 11:51:43 GeneDiseaseBot-20190107_11:52.html GeneDiseaseBot-20190107_11:52.log Link ProteinBoxBot
8 GOProtein_Bot Data Source: QuickGO (https://www.ebi.ac.uk/QuickGO/)
Data Type: Protein
Properties: molecular function, cell component, biological process (GO term)
Schedule: Runs upon new UniProt-GOA Release (approx. monthly) (https://www.ebi.ac.uk/GOA)
This bot adds GO terms and references onto protein items (as molecular function, cell component or biological process)		 FAILURE 2018-12-25 03:24:02 Link ProteinBoxBot
9 IEDB_ChEBI Data Source: Immune Epitope Database (http://www.iedb.org/)
Data Type: chemical compound
External IDs: IEDB Epitope ID
Description: Add IEDB Epitope IDs onto chemical compounds. Lookup is done using ChEBI ID
Schedule: Monthly		 SUCCESS 2019-01-02 12:18:32 IEDB Epitope Bot-20190102_12:18.html IEDB Epitope Bot-20190102_12:18.log Link ProteinBoxBot
10 Interpro_Items Data Source: InterPro (https://www.ebi.ac.uk/interpro/)
Data Type: Active_site, Binding_site, Conserved_site, Domain, Family, Homologous_superfamily, PTM, Repeat
Properties: subclass of (family or Homologous_superfamily), has part (protein feature), part of (family)
External IDs: InterPro ID
Description: Add Protein families and protein features (active site, domains, etc.)
Schedule: Runs on new Interpro release (triggers from wdbiothings)		 SUCCESS 2018-11-27 19:40:02 InterproBot_Items-20181127_19:40.html deletion_log.txt; InterproBot_Items-20181127_19:40.log Link ProteinBoxBot
11 Interpro_Proteins Data Source: InterPro (https://www.ebi.ac.uk/interpro/)
Data Type: Protein
Properties: part of (family or Homologous_superfamily), has part (protein feature)
External IDs: InterPro ID
Description: Add information about protein family membership and protein features to protein items
Schedule: Runs on new Interpro release (triggers from wdbiothings)		 SUCCESS 2018-11-21 12:02:04 0; 1; 2; 3; 4; 5; 6; 7; 8; 9; 10; 11; 12; 13; 14; 15; 16; 17; 18; 19; 20; 21; 22; 23; 24; 25; 26; 27; 28; 29; 30; 31; 32; 33; 34; 35; 36; 37; 38; 39; 40; 41; 42; 43; 44; 45; 46; 47; 48; 49; 50; 51; 52; 53; 54; 55; 56; 57; 58; 59; 60; 61; 62; 63; 64; 65; 66; 67; 68; 69; 70; 71; 72; 73; 74; 75; 76; 77; 78; 79; 80; 81; 82; 83; 84; 85; 86; 87; 88; 89; 90; 91; 92; 93; 94; 95; 96; 97; 98; 99; 100; 101; 102; 103; 104; 105; 106; 107; 108; 109; 110; 111; 112; 113; 114; 115; 116; 117; 118; 119; 120; 121; 122; 123; 124; 125; 126; 127; 128; 129; 130; 131; 132; 133; 134; 135 0; 1; 2; 3; 4; 5; 6; 7; 8; 9; 10; 11; 12; 13; 14; 15; 16; 17; 18; 19; 20; 21; 22; 23; 24; 25; 26; 27; 28; 29; 30; 31; 32; 33; 34; 35; 36; 37; 38; 39; 40; 41; 42; 43; 44; 45; 46; 47; 48; 49; 50; 51; 52; 53; 54; 55; 56; 57; 58; 59; 60; 61; 62; 63; 64; 65; 66; 67; 68; 69; 70; 71; 72; 73; 74; 75; 76; 77; 78; 79; 80; 81; 82; 83; 84; 85; 86; 87; 88; 89; 90; 91; 92; 93; 94; 95; 96; 97; 98; 99; 100; 101; 102; 103; 104; 105; 106; 107; 108; 109; 110; 111; 112; 113; 114; 115; 116; 117; 118; 119; 120; 121; 122; 123; 124; 125; 126; 127; 128; 129; 130; 131; 132; 133; 134; 135; 136 Link ProteinBoxBot
12 OrthologBot Data Source: MyGene.info (https://mygene.info/). Using data from HomoloGene (https://www.ncbi.nlm.nih.gov/homologene)
Data Type: Gene
Properties: Ortholog (gene)
Description: Add orthologs on genes		 SUCCESS 2018-12-23 01:32:09 OrthologBot-20181223_01:32.html OrthologBot-20181223_01:32.log Link ProteinBoxBot
13 ProteinBot_AGR Data Source: MyGene.info (https://mygene.info/), Using data from Entrez and Uniprot (https://mygene.info/v3/metadata)
Data Type: Protein (proteins found in the following taxons: yeast, worm, fly, zebrafish, mouse, rat (NCBI taxonomy IDs: 559292, 6239, 7227, 7955. 10090, 10116 respectively))
Properties: found in taxon (taxon), encoded by (gene),
External IDs: UniProt protein ID, RefSeq Protein ID		 SUCCESS 2018-12-23 20:51:00 ProteinBot-20181223_20:51.html; ProteinBot-20181223_22:01.html; ProteinBot-20181224_04:10.html; ProteinBot-20181224_09:21.html; ProteinBot-20181224_13:08.html; ProteinBot-20181224_17:56.html; ProteinBot-20181224_23:50.html ProteinBot-20181223_20:51.log; ProteinBot-20181223_22:01.log; ProteinBot-20181224_04:10.log; ProteinBot-20181224_09:21.log; ProteinBot-20181224_13:08.log; ProteinBot-20181224_17:56.log; ProteinBot-20181224_23:50.log Link ProteinBoxBot
14 ProteinBot_homo_sapiens Data Source: MyGene.info (https://mygene.info/), Using data from Entrez and Uniprot (https://mygene.info/v3/metadata)
Data Type: Protein (only human)
Properties: found in taxon (taxon), encoded by (gene),
External IDs: UniProt protein ID, RefSeq Protein ID		 SUCCESS 2018-12-14 05:22:41 ProteinBot-20181214_05:23.html ProteinBot-20181214_05:23.log Link ProteinBoxBot
15 ProteinBot_microbes Data Source: MyGene.info (https://mygene.info/), Using data from Entrez and Uniprot (https://mygene.info/v3/metadata)
Data Type: Protein (proteins on Microbial Reference Strains only (https://www.ncbi.nlm.nih.gov/genome/browse/reference/)
Properties: found in taxon (taxon), encoded by (gene),
External IDs: UniProt protein ID, RefSeq Protein ID		 SUCCESS 2018-12-14 15:33:46 0; 1; 2; 3; 4; 5; 6; 7; 8; 9; 10; 11; 12; 13; 14; 15; 16; 17; 18; 19; 20; 21; 22; 23; 24; 25; 26; 27; 28; 29; 30; 31; 32; 33; 34; 35; 36; 37; 38; 39; 40; 41; 42; 43; 44; 45; 46; 47; 48; 49; 50; 51; 52; 53; 54; 55; 56; 57; 58; 59; 60; 61; 62; 63; 64; 65; 66; 67; 68; 69; 70; 71; 72; 73; 74; 75; 76; 77; 78; 79; 80; 81; 82; 83; 84; 85; 86; 87; 88; 89; 90; 91; 92; 93; 94; 95; 96; 97; 98; 99; 100; 101; 102; 103; 104; 105; 106; 107; 108; 109; 110; 111; 112; 113; 114; 115; 116; 117; 118; 119 0; 1; 2; 3; 4; 5; 6; 7; 8; 9; 10; 11; 12; 13; 14; 15; 16; 17; 18; 19; 20; 21; 22; 23; 24; 25; 26; 27; 28; 29; 30; 31; 32; 33; 34; 35; 36; 37; 38; 39; 40; 41; 42; 43; 44; 45; 46; 47; 48; 49; 50; 51; 52; 53; 54; 55; 56; 57; 58; 59; 60; 61; 62; 63; 64; 65; 66; 67; 68; 69; 70; 71; 72; 73; 74; 75; 76; 77; 78; 79; 80; 81; 82; 83; 84; 85; 86; 87; 88; 89; 90; 91; 92; 93; 94; 95; 96; 97; 98; 99; 100; 101; 102; 103; 104; 105; 106; 107; 108; 109; 110; 111; 112; 113; 114; 115; 116; 117; 118; 119; 120 Link MicrobeBot
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