From 1eb1f5bd260e856c2eb70b6bd8c70df053550825 Mon Sep 17 00:00:00 2001 From: Glenn Proctor <gp1@sanger.ac.uk> Date: Tue, 2 Aug 2005 08:33:07 +0000 Subject: [PATCH] Added friendly display name for database. Removed some unused external_dbs. --- misc-scripts/external_db/external_dbs.txt | 226 +++++++++++----------- 1 file changed, 110 insertions(+), 116 deletions(-) diff --git a/misc-scripts/external_db/external_dbs.txt b/misc-scripts/external_db/external_dbs.txt index ce03f7d8a8..7a2445a660 100644 --- a/misc-scripts/external_db/external_dbs.txt +++ b/misc-scripts/external_db/external_dbs.txt @@ -1,116 +1,110 @@ -90 UMCU_Hsapiens_19Kv1 1 XREF 1 0 5 -200 Anopheles_paper 1 KNOWNXREF 1 0 5 -210 Anopheles_symbol 1 KNOWN 1 0 50 -300 BRIGGSAE_HYBRID 1 KNOWNXREF 1 0 5 -400 Celera_Gene 1 PRED 1 0 5 -410 Celera_Pep 1 PRED 1 0 5 -420 Celera_Trans 1 PRED 1 0 5 -600 DROS_ORTH 1 ORTH 1 0 5 -700 EMBL 1 KNOWNXREF 1 0 5 -800 flybase_gene_id 1 KNOWNXREF 1 0 5 -801 flybase_translation_id 1 KNOWNXREF 1 0 5 -802 flybase_gff 1 KNOWNXREF 1 0 5 -803 flybase_polypeptide_id 1 KNOWNXREF 1 0 5 -804 flybase_annotation_id 1 KNOWNXREF 1 0 5 -805 flybase_symbol 1 KNOWNXREF 1 0 50 -806 flybase_synonym 1 KNOWNXREF 1 0 5 -807 flybase_name 1 KNOWNXREF 1 0 5 -808 flybase_transcript_id 1 KNOWNXREF 1 0 5 -810 gadfly_gene_cgid 1 KNOWNXREF 1 0 10 -811 gadfly_transcript_cgid 1 KNOWNXREF 1 0 10 -812 gadfly_translation_cgid 1 KNOWNXREF 1 0 10 -821 FlyBaseName_gene 1 KNOWNXREF 1 0 5 -822 FlyBaseORFNames 1 XREF 1 0 5 -823 FlyBaseSynonyms 1 XREF 1 0 5 -824 FlyBaseName_translations 1 XREF 1 0 5 -825 FlyBaseName_transcript 1 XREF 1 0 50 -900 GKB 1 XREF 1 0 5 -1000 GO 1 KNOWNXREF 1 0 5 -1100 HUGO 1 KNOWNXREF 0 1 100 -1200 Interpro 1 XREF 1 0 5 -1300 EntrezGene 1 KNOWNXREF 1 0 10 -1400 MarkerSymbol 1 KNOWNXREF 1 0 50 -1500 MIM 1 KNOWNXREF 1 0 5 -1600 PDB 1 KNOWNXREF 1 0 5 -1700 protein_id 1 KNOWNXREF 1 0 5 -1800 RefSeq_dna 1 KNOWN 1 0 25 -1805 RefSeq_dna_predicted 1 PRED 1 0 15 -1810 RefSeq_peptide 1 KNOWN 1 0 26 -1815 RefSeq_peptide_predicted 1 PRED 1 0 16 -1900 Sanger_Hver1_2_1 1 XREF 1 0 5 -1901 Sanger_Hver1_3_1 1 XREF 1 0 5 -1902 SNGR_Hver 1 XREF 1 0 5 -1910 Sanger_Mver1_1_1 1 XREF 1 0 5 -2000 Uniprot/SPTREMBL 1 KNOWN 1 0 20 -2010 prediction_SPTREMBL 1 XREF 1 1 10 -2100 Superfamily 1 KNOWNXREF 1 0 5 -2200 Uniprot/SWISSPROT 1 KNOWN 1 1 30 -2300 Vega_gene 1 XREF 1 0 5 -2310 Vega_transcript 1 XREF 1 0 5 -2320 Vega_translation 1 XREF 1 0 5 -2400 wormbase_gene 1 KNOWN 1 0 5 -2410 wormbase_transcript 1 KNOWN 1 0 5 -2420 wormpep_id 1 KNOWN 1 0 5 -2430 wormbase_pseudogene 1 PSEUDO 1 0 5 -2500 ZFIN 1 KNOWNXREF 1 0 50 -2510 ZFIN_ID 1 KNOWNXREF 1 0 5 -2520 ZFIN_AC 1 KNOWNXREF 1 0 5 -2600 GeneDB 1 KNOWN 1 0 5 -2601 ciona_int_jgi_proteins_v1 1 KNOWN 1 0 5 -2700 Ens_Hs_gene 1 XREF 1 0 5 -2710 Ens_Hs_transcript 1 XREF 1 0 5 -2720 Ens_Hs_translation 1 XREF 1 0 5 -2800 RGD 1 XREF 1 0 50 -2900 Genoscope_pred_gene 1 XREF 1 0 38 -2910 Genoscope_pred_transcript 1 XREF 1 0 39 -2920 Genoscope_annotated_gene 1 KNOWN 1 0 40 -3001 AFFY_MG_U74_all 1 XREF 1 0 1 -3002 AFFY_MG_U74A 1 XREF 1 0 1 -3003 AFFY_MG_U74Av2 1 XREF 1 0 1 -3004 AFFY_MG_U74B 1 XREF 1 0 1 -3005 AFFY_MG_U74Bv2 1 XREF 1 0 1 -3006 AFFY_MG_U74C 1 XREF 1 0 1 -3007 AFFY_MG_U74Cv2 1 XREF 1 0 1 -3008 AFFY_MOE430_all 1 XREF 1 0 1 -3009 AFFY_MOE430A 1 XREF 1 0 1 -3010 AFFY_MOE430B 1 XREF 1 0 1 -3011 AFFY_Mu11Ksub_all 1 XREF 1 0 1 -3012 AFFY_Mu11KsubA 1 XREF 1 0 1 -3013 AFFY_Mu11KsubB 1 XREF 1 0 1 -3014 AFFY_Mouse430_2 1 XREF 1 0 1 -3015 AFFY_Mouse430A_2 1 XREF 1 0 1 -3051 AFFY_RAE230_all 1 XREF 1 0 1 -3052 AFFY_RAE230A 1 XREF 1 0 1 -3053 AFFY_RAE230B 1 XREF 1 0 1 -3054 AFFY_RG_U34_all 1 XREF 1 0 1 -3055 AFFY_RG_U34A 1 XREF 1 0 1 -3056 AFFY_RG_U34B 1 XREF 1 0 1 -3057 AFFY_RG_U34C 1 XREF 1 0 1 -3058 AFFY_RN_U34 1 XREF 1 0 1 -3059 AFFY_RT_U34 1 XREF 1 0 1 -3101 AFFY_HG_U133_all 1 XREF 1 0 1 -3102 AFFY_HG_U133A 1 XREF 1 0 1 -3103 AFFY_HG_U133B 1 XREF 1 0 1 -3104 AFFY_HG_U95_all 1 XREF 1 0 1 -3105 AFFY_HG_U95A 1 XREF 1 0 1 -3106 AFFY_HG_U95Av2 1 XREF 1 0 1 -3107 AFFY_HG_U95B 1 XREF 1 0 1 -3108 AFFY_HG_U95C 1 XREF 1 0 1 -3109 AFFY_HG_U95D 1 XREF 1 0 1 -3110 AFFY_HG_U95E 1 XREF 1 0 1 -3111 AFFY_HG_U133_PLUS_2 1 XREF 1 0 1 -3112 AFFY_HG_U133A_2 1 XREF 1 0 1 -3113 AFFY_HG_Focus 1 XREF 1 0 1 -3114 AFFY_Rat230_2 1 XREF 1 0 1 -3115 AFFY_Zebrafish 1 XREF 1 0 1 -3116 AFFY_U133_X3P 1 XREF 1 0 1 -3117 AFFY_Canine 1 XREF 1 0 1 -3118 AFFY_Chicken 1 XREF 1 0 1 -3300 miRNA_Registry 1 XREF 1 0 1 -3400 SGD 1 KNOWN 1 0 50 -3500 IPI 1 KNOWN 1 0 5 -3800 CCDS 1 KNOWN 1 0 50 -3900 PUBMED 1 KNOWN 1 0 5 -4000 MEDLINE 1 KNOWN 1 0 5 -4100 UniGene 1 KNOWN 1 0 5 -4200 RFAM 1 XREF 1 0 5 +210 Anopheles_symbol 1 KNOWN 1 0 50 Anopheles symbol +300 BRIGGSAE_HYBRID 1 KNOWNXREF 1 0 5 Briggsae Hybrid +400 Celera_Gene 1 PRED 1 0 5 Celera gene +410 Celera_Pep 1 PRED 1 0 5 Celera pep +420 Celera_Trans 1 PRED 1 0 5 Celera trans +600 DROS_ORTH 1 ORTH 1 0 5 DROS ORTH +700 EMBL 1 KNOWNXREF 1 0 5 EMBL +800 flybase_gene_id 1 KNOWNXREF 1 0 5 Flybase Gene +801 flybase_translation_id 1 KNOWNXREF 1 0 5 Flybase translation ID +802 flybase_gff 1 KNOWNXREF 1 0 5 Flybase GFF +803 flybase_polypeptide_id 1 KNOWNXREF 1 0 5 Flybase Polypeptide ID +804 flybase_annotation_id 1 KNOWNXREF 1 0 5 Flybase Annotation ID +805 flybase_symbol 1 KNOWNXREF 1 0 50 Flybase Symbol +806 flybase_synonym 1 KNOWNXREF 1 0 5 Flybase Synonym +807 flybase_name 1 KNOWNXREF 1 0 5 Flybase Name +808 flybase_transcript_id 1 KNOWNXREF 1 0 5 Flybase transcript ID +810 gadfly_gene_cgid 1 KNOWNXREF 1 0 10 Gadfly gene CGID +811 gadfly_transcript_cgid 1 KNOWNXREF 1 0 10 Gadfly transcript CGID +812 gadfly_translation_cgid 1 KNOWNXREF 1 0 10 Gadfly translation CGID +821 FlyBaseName_gene 1 KNOWNXREF 1 0 5 FlyBaseName gene +824 FlyBaseName_translations 1 XREF 1 0 5 FlyBaseName translations +825 FlyBaseName_transcript 1 XREF 1 0 50 FlyBaseName transcript +900 GKB 1 XREF 1 0 5 GKB +1000 GO 1 KNOWNXREF 1 0 5 GO +1100 HUGO 1 KNOWNXREF 0 1 100 HUGO +1200 Interpro 1 XREF 1 0 5 Interpro +1300 EntrezGene 1 KNOWNXREF 1 0 10 EntrezGene +1400 MarkerSymbol 1 KNOWNXREF 1 0 50 MarkerSymbol +1500 MIM 1 KNOWNXREF 1 0 5 MIM +1600 PDB 1 KNOWNXREF 1 0 5 PDB +1700 protein_id 1 KNOWNXREF 1 0 5 Protein ID +1800 RefSeq_dna 1 KNOWN 1 0 25 RefSeq DNA +1805 RefSeq_dna_predicted 1 PRED 1 0 15 RefSeq DNA predicted +1810 RefSeq_peptide 1 KNOWN 1 0 26 RefSeq peptide +1815 RefSeq_peptide_predicted 1 PRED 1 0 16 RefSeq peptide predicted +1900 Sanger_Hver1_2_1 1 XREF 1 0 5 Sanger Hver 121 +1901 Sanger_Hver1_3_1 1 XREF 1 0 5 Sanger Hver 131 +1902 SNGR_Hver 1 XREF 1 0 5 Sanger Hver +1910 Sanger_Mver1_1_1 1 XREF 1 0 5 Sanger Hver 111 +2000 Uniprot/SPTREMBL 1 KNOWN 1 0 20 UniProt/TrEMBL +2010 prediction_SPTREMBL 1 XREF 1 1 10 Prediction SpTREMBL +2100 Superfamily 1 KNOWNXREF 1 0 5 Superfamily +2200 Uniprot/SWISSPROT 1 KNOWN 1 1 30 UniProt/Swiss-Prot +2300 Vega_gene 1 XREF 1 0 5 Vega gene +2310 Vega_transcript 1 XREF 1 0 5 Vega transcript +2320 Vega_translation 1 XREF 1 0 5 Vega translation +2400 wormbase_gene 1 KNOWN 1 0 5 Wormbase Gene +2410 wormbase_transcript 1 KNOWN 1 0 5 Wormbase Transcript +2420 wormpep_id 1 KNOWN 1 0 5 Wormpep ID +2430 wormbase_pseudogene 1 PSEUDO 1 0 5 Wormbase Pseudogene +2510 ZFIN_ID 1 KNOWNXREF 1 0 5 ZFIN ID +2600 GeneDB 1 KNOWN 1 0 5 GeneDB +2601 ciona_int_jgi_proteins_v1 1 KNOWN 1 0 5 Ciona V1 +2700 Ens_Hs_gene 1 XREF 1 0 5 Ensembl Human Gene +2710 Ens_Hs_transcript 1 XREF 1 0 5 Ensembl Human Transcript +2720 Ens_Hs_translation 1 XREF 1 0 5 Ensembl Human Translation +2800 RGD 1 XREF 1 0 50 RGD +2900 Genoscope_pred_gene 1 XREF 1 0 38 Genoscope pred gene +2910 Genoscope_pred_transcript 1 XREF 1 0 39 Genoscope pred transcript +2920 Genoscope_annotated_gene 1 KNOWN 1 0 40 Genoscope annotated gene +3001 AFFY_MG_U74_all 1 XREF 1 0 1 Affymx Microarray U74 +3002 AFFY_MG_U74A 1 XREF 1 0 1 Affymx Microarray U74 +3003 AFFY_MG_U74Av2 1 XREF 1 0 1 Affymx Microarray U74 +3004 AFFY_MG_U74B 1 XREF 1 0 1 Affymx Microarray U74 +3005 AFFY_MG_U74Bv2 1 XREF 1 0 1 Affymx Microarray U74 +3006 AFFY_MG_U74C 1 XREF 1 0 1 Affymx Microarray U74 +3007 AFFY_MG_U74Cv2 1 XREF 1 0 1 Affymx Microarray U74 +3008 AFFY_MOE430_all 1 XREF 1 0 1 Affymx Microarray OE430 +3009 AFFY_MOE430A 1 XREF 1 0 1 Affymx Microarray MOE430 +3010 AFFY_MOE430B 1 XREF 1 0 1 Affymx Microarray MOE430 +3011 AFFY_Mu11Ksub_all 1 XREF 1 0 1 Affymx Microarray Mu11 +3012 AFFY_Mu11KsubA 1 XREF 1 0 1 Affymx Microarray Mu11 +3013 AFFY_Mu11KsubB 1 XREF 1 0 1 Affymx Microarray Mu11 +3014 AFFY_Mouse430_2 1 XREF 1 0 1 Affymx Microarray Mouse430 +3015 AFFY_Mouse430A_2 1 XREF 1 0 1 Affymx Microarray Mouse430 +3051 AFFY_RAE230_all 1 XREF 1 0 1 Affymx Microarray RAE230 +3052 AFFY_RAE230A 1 XREF 1 0 1 Affymx Microarray RAE230 +3053 AFFY_RAE230B 1 XREF 1 0 1 Affymx Microarray RAE230 +3054 AFFY_RG_U34_all 1 XREF 1 0 1 Affymx Microarray U34 +3055 AFFY_RG_U34A 1 XREF 1 0 1 Affymx Microarray U34 +3056 AFFY_RG_U34B 1 XREF 1 0 1 Affymx Microarray U34 +3057 AFFY_RG_U34C 1 XREF 1 0 1 Affymx Microarray U34 +3058 AFFY_RN_U34 1 XREF 1 0 1 Affymx Microarray U34 +3059 AFFY_RT_U34 1 XREF 1 0 1 Affymx Microarray U34 +3101 AFFY_HG_U133_all 1 XREF 1 0 1 Affymx Microarray U133 +3102 AFFY_HG_U133A 1 XREF 1 0 1 Affymx Microarray U133 +3103 AFFY_HG_U133B 1 XREF 1 0 1 Affymx Microarray U133 +3104 AFFY_HG_U95_all 1 XREF 1 0 1 Affymx Microarray U95 +3105 AFFY_HG_U95A 1 XREF 1 0 1 Affymx Microarray U95 +3106 AFFY_HG_U95Av2 1 XREF 1 0 1 Affymx Microarray U95 +3107 AFFY_HG_U95B 1 XREF 1 0 1 Affymx Microarray U95 +3108 AFFY_HG_U95C 1 XREF 1 0 1 Affymx Microarray U95 +3109 AFFY_HG_U95D 1 XREF 1 0 1 Affymx Microarray U95 +3110 AFFY_HG_U95E 1 XREF 1 0 1 Affymx Microarray U95 +3111 AFFY_HG_U133_PLUS_2 1 XREF 1 0 1 Affymx Microarray U133 +3112 AFFY_HG_U133A_2 1 XREF 1 0 1 Affymx Microarray U133 +3113 AFFY_HG_Focus 1 XREF 1 0 1 Affymx Microarray Focus +3114 AFFY_Rat230_2 1 XREF 1 0 1 Affymx Microarray U133 +3115 AFFY_Zebrafish 1 XREF 1 0 1 Affymx Microarray Zebrafish +3116 AFFY_U133_X3P 1 XREF 1 0 1 Affymx Microarray U133 +3117 AFFY_Canine 1 XREF 1 0 1 Affymx Microarray Canine +3118 AFFY_Chicken 1 XREF 1 0 1 Affymx Microarray Chicken +3300 miRNA_Registry 1 XREF 1 0 1 miRNA Registry +3400 SGD 1 KNOWN 1 0 50 SGD +3500 IPI 1 KNOWN 1 0 5 IPI +3800 CCDS 1 KNOWN 1 0 50 CCDS +3900 PUBMED 1 KNOWN 1 0 5 Sequence Publications +4000 MEDLINE 1 KNOWN 1 0 5 MEDLINE +4100 UniGene 1 KNOWN 1 0 5 UniGene +4200 RFAM 1 XREF 1 0 5 RFAM \ No newline at end of file -- GitLab