Merge pull request #197 from togoid/main

release 2023-11-06
togoid · Nov 6, 2023 · a0b8fff · a0b8fff
2 parents b2e9e0a + 755a660
commit a0b8fff
Show file tree

Hide file tree

Showing 6 changed files with 1,752 additions and 2,245 deletions.
diff --git a/docs/help.md b/docs/help.md
@@ -1,5 +1,5 @@
 # TogoID ver. 1.1
-Datasets last updated: 2023/10/31
+Datasets last updated: 2023-11-06
 
 ## About
 - [TogoID](https://togoid.dbcls.jp/) is an ID conversion service implementing unique features with an intuitive web interface and an API for programmatic access. TogoID currently supports 89 datasets covering various biological categories. TogoID users can perform exploratory multistep conversions to find a path among IDs. To guide the interpretation of biological meanings in the conversions, we crafted an [ontology](https://togoid.dbcls.jp/ontology) that defines the semantics of the dataset relations.
@@ -22,7 +22,7 @@ Shuya Ikeda, Hiromasa Ono, Tazro Ohta, Hirokazu Chiba, Yuki Naito, Yuki Moriya,
 
 - [API Documentation (Swagger)](https://togoid.dbcls.jp/apidoc/)
 
-## Statistics (as of 2023/10/31)
+## Statistics (as of 2023-11-06)
 - Number of target datasets 
     - 102 (from 72 databases)
 - For details on the target DBs and ID examples, please refer to the "DATASETS" tab. 

diff --git a/docs/help_ja.md b/docs/help_ja.md
@@ -1,5 +1,5 @@
 # TogoID ver. 1.1
-Datasets last updated: 2023/10/31
+Datasets last updated: 2023-11-06
 
 ## About
 - [TogoID](https://togoid.dbcls.jp/) は、直感的なインターフェースにより生命科学系データベース(DB)間のつながりを探索的に確認しながらID変換を行うことができるウェブアプリケーションです。同一の実体を指すID間の変換だけでなく、関連する別のカテゴリーのIDへの変換も可能です。また、直接リンクされていないDBのID間でも、他のDBを経由した変換を探索することができます。
@@ -28,7 +28,7 @@ Datasets last updated: 2023/10/31
 
 - [API Documentation (Swagger)](https://togoid.dbcls.jp/apidoc/)
 
-## 統計 (2023/10/31)
+## 統計 (2023-11-06)
 - 対象データセット数 
     - 102 (72のデータベースに由来)
 - 対象DBの詳細やID例については、"DATASETS" タブ からご覧いただけます。 

diff --git a/lib/togoid-config.rb b/lib/togoid-config.rb
@@ -119,6 +119,7 @@ def rdfize_id_label
               id, label = line.scrub.strip.split("\t")
               sbj = "#{@name}:#{id}"
               id_full = @prefix.gsub(/.+\//, "") + id
+              label = label.gsub(/["\\]/, '\\\\\&')
               ttl_file.puts "#{sbj}\tdcterms:identifier\t\"#{id_full}\" ."
               ttl_file.puts "#{sbj}\trdfs:label\t\"#{label}\" ."
             end

diff --git a/log/error.log b/log/error.log
@@ -1,135 +1,8 @@
 # Error: output/tsv/chembl_target-ensembl_gene.tsv new file size per old 0 / 61845 = 0.0 < 0.5
 # Error: Failed to create output/tsv/chembl_target-ensembl_gene.tsv or created file was empty
-# Error: output/tsv/doid-mesh.tsv new file size per old 143 / 56961 = 0.002510489633257843 < 0.5
-# Error: output/tsv/doid-mesh.tsv seems to contain HTML <head><title>502 Bad Gateway</title></head>
-# Error: output/tsv/doid-mesh.tsv seems to contain HTML <body>
-# Error: output/tsv/doid-mesh.tsv seems to contain HTML <center><h1>502 Bad Gateway</h1></center>
-# Error: output/tsv/doid-mesh.tsv seems to contain HTML <hr><center>nginx/1.24.0</center>
-# Error: output/tsv/doid-mesh.tsv seems to contain HTML </body>
-# Error: output/tsv/doid-mesh.tsv seems to contain HTML </html>
-# Error: output/tsv/doid-mesh.tsv seems to contain HTML <head><title>502 Bad Gateway</title></head>
-# Error: output/tsv/doid-mesh.tsv seems to contain HTML <body>
-# Error: output/tsv/doid-mesh.tsv seems to contain HTML <center><h1>502 Bad Gateway</h1></center>
-# Error: output/tsv/doid-mesh.tsv seems to contain HTML <hr><center>nginx/1.24.0</center>
-# Error: output/tsv/doid-mesh.tsv seems to contain HTML </body>
-# Error: output/tsv/doid-mesh.tsv seems to contain HTML </html>
-# Error: output/tsv/doid-ncit_disease.tsv new file size per old 143 / 58395 = 0.0024488397979279047 < 0.5
-# Error: output/tsv/doid-ncit_disease.tsv seems to contain HTML <head><title>502 Bad Gateway</title></head>
-# Error: output/tsv/doid-ncit_disease.tsv seems to contain HTML <body>
-# Error: output/tsv/doid-ncit_disease.tsv seems to contain HTML <center><h1>502 Bad Gateway</h1></center>
-# Error: output/tsv/doid-ncit_disease.tsv seems to contain HTML <hr><center>nginx/1.24.0</center>
-# Error: output/tsv/doid-ncit_disease.tsv seems to contain HTML </body>
-# Error: output/tsv/doid-ncit_disease.tsv seems to contain HTML </html>
-# Error: output/tsv/doid-ncit_disease.tsv seems to contain HTML <head><title>502 Bad Gateway</title></head>
-# Error: output/tsv/doid-ncit_disease.tsv seems to contain HTML <body>
-# Error: output/tsv/doid-ncit_disease.tsv seems to contain HTML <center><h1>502 Bad Gateway</h1></center>
-# Error: output/tsv/doid-ncit_disease.tsv seems to contain HTML <hr><center>nginx/1.24.0</center>
-# Error: output/tsv/doid-ncit_disease.tsv seems to contain HTML </body>
-# Error: output/tsv/doid-ncit_disease.tsv seems to contain HTML </html>
-# Error: output/tsv/doid-omim_phenotype.tsv new file size per old 143 / 82860 = 0.0017258025585324644 < 0.5
-# Error: output/tsv/doid-omim_phenotype.tsv seems to contain HTML <head><title>502 Bad Gateway</title></head>
-# Error: output/tsv/doid-omim_phenotype.tsv seems to contain HTML <body>
-# Error: output/tsv/doid-omim_phenotype.tsv seems to contain HTML <center><h1>502 Bad Gateway</h1></center>
-# Error: output/tsv/doid-omim_phenotype.tsv seems to contain HTML <hr><center>nginx/1.24.0</center>
-# Error: output/tsv/doid-omim_phenotype.tsv seems to contain HTML </body>
-# Error: output/tsv/doid-omim_phenotype.tsv seems to contain HTML </html>
-# Error: output/tsv/doid-omim_phenotype.tsv seems to contain HTML <head><title>502 Bad Gateway</title></head>
-# Error: output/tsv/doid-omim_phenotype.tsv seems to contain HTML <body>
-# Error: output/tsv/doid-omim_phenotype.tsv seems to contain HTML <center><h1>502 Bad Gateway</h1></center>
-# Error: output/tsv/doid-omim_phenotype.tsv seems to contain HTML <hr><center>nginx/1.24.0</center>
-# Error: output/tsv/doid-omim_phenotype.tsv seems to contain HTML </body>
-# Error: output/tsv/doid-omim_phenotype.tsv seems to contain HTML </html>
-# Error: output/tsv/hp_inheritance-omim_phenotype.tsv new file size per old 0 / 129900 = 0.0 < 0.5
-# Error: Failed to create output/tsv/hp_inheritance-omim_phenotype.tsv or created file was empty
-# Error: output/tsv/mondo-doid.tsv new file size per old 143 / 155460 = 0.0009198507654702174 < 0.5
-# Error: output/tsv/mondo-doid.tsv seems to contain HTML <head><title>502 Bad Gateway</title></head>
-# Error: output/tsv/mondo-doid.tsv seems to contain HTML <body>
-# Error: output/tsv/mondo-doid.tsv seems to contain HTML <center><h1>502 Bad Gateway</h1></center>
-# Error: output/tsv/mondo-doid.tsv seems to contain HTML <hr><center>nginx/1.24.0</center>
-# Error: output/tsv/mondo-doid.tsv seems to contain HTML </body>
-# Error: output/tsv/mondo-doid.tsv seems to contain HTML </html>
-# Error: output/tsv/mondo-doid.tsv seems to contain HTML <head><title>502 Bad Gateway</title></head>
-# Error: output/tsv/mondo-doid.tsv seems to contain HTML <body>
-# Error: output/tsv/mondo-doid.tsv seems to contain HTML <center><h1>502 Bad Gateway</h1></center>
-# Error: output/tsv/mondo-doid.tsv seems to contain HTML <hr><center>nginx/1.24.0</center>
-# Error: output/tsv/mondo-doid.tsv seems to contain HTML </body>
-# Error: output/tsv/mondo-doid.tsv seems to contain HTML </html>
-# Error: output/tsv/mondo-hp_phenotype.tsv new file size per old 143 / 9184 = 0.015570557491289199 < 0.5
-# Error: output/tsv/mondo-hp_phenotype.tsv seems to contain HTML <head><title>502 Bad Gateway</title></head>
-# Error: output/tsv/mondo-hp_phenotype.tsv seems to contain HTML <body>
-# Error: output/tsv/mondo-hp_phenotype.tsv seems to contain HTML <center><h1>502 Bad Gateway</h1></center>
-# Error: output/tsv/mondo-hp_phenotype.tsv seems to contain HTML <hr><center>nginx/1.24.0</center>
-# Error: output/tsv/mondo-hp_phenotype.tsv seems to contain HTML </body>
-# Error: output/tsv/mondo-hp_phenotype.tsv seems to contain HTML </html>
-# Error: output/tsv/mondo-hp_phenotype.tsv seems to contain HTML <head><title>502 Bad Gateway</title></head>
-# Error: output/tsv/mondo-hp_phenotype.tsv seems to contain HTML <body>
-# Error: output/tsv/mondo-hp_phenotype.tsv seems to contain HTML <center><h1>502 Bad Gateway</h1></center>
-# Error: output/tsv/mondo-hp_phenotype.tsv seems to contain HTML <hr><center>nginx/1.24.0</center>
-# Error: output/tsv/mondo-hp_phenotype.tsv seems to contain HTML </body>
-# Error: output/tsv/mondo-hp_phenotype.tsv seems to contain HTML </html>
-# Error: output/tsv/mondo-meddra.tsv new file size per old 143 / 25262 = 0.005660676114321906 < 0.5
-# Error: output/tsv/mondo-meddra.tsv seems to contain HTML <head><title>502 Bad Gateway</title></head>
-# Error: output/tsv/mondo-meddra.tsv seems to contain HTML <body>
-# Error: output/tsv/mondo-meddra.tsv seems to contain HTML <center><h1>502 Bad Gateway</h1></center>
-# Error: output/tsv/mondo-meddra.tsv seems to contain HTML <hr><center>nginx/1.24.0</center>
-# Error: output/tsv/mondo-meddra.tsv seems to contain HTML </body>
-# Error: output/tsv/mondo-meddra.tsv seems to contain HTML </html>
-# Error: output/tsv/mondo-meddra.tsv seems to contain HTML <head><title>502 Bad Gateway</title></head>
-# Error: output/tsv/mondo-meddra.tsv seems to contain HTML <body>
-# Error: output/tsv/mondo-meddra.tsv seems to contain HTML <center><h1>502 Bad Gateway</h1></center>
-# Error: output/tsv/mondo-meddra.tsv seems to contain HTML <hr><center>nginx/1.24.0</center>
-# Error: output/tsv/mondo-meddra.tsv seems to contain HTML </body>
-# Error: output/tsv/mondo-meddra.tsv seems to contain HTML </html>
-# Error: output/tsv/mondo-mesh.tsv new file size per old 143 / 133836 = 0.0010684718610837144 < 0.5
-# Error: output/tsv/mondo-mesh.tsv seems to contain HTML <head><title>502 Bad Gateway</title></head>
-# Error: output/tsv/mondo-mesh.tsv seems to contain HTML <body>
-# Error: output/tsv/mondo-mesh.tsv seems to contain HTML <center><h1>502 Bad Gateway</h1></center>
-# Error: output/tsv/mondo-mesh.tsv seems to contain HTML <hr><center>nginx/1.24.0</center>
-# Error: output/tsv/mondo-mesh.tsv seems to contain HTML </body>
-# Error: output/tsv/mondo-mesh.tsv seems to contain HTML </html>
-# Error: output/tsv/mondo-mesh.tsv seems to contain HTML <head><title>502 Bad Gateway</title></head>
-# Error: output/tsv/mondo-mesh.tsv seems to contain HTML <body>
-# Error: output/tsv/mondo-mesh.tsv seems to contain HTML <center><h1>502 Bad Gateway</h1></center>
-# Error: output/tsv/mondo-mesh.tsv seems to contain HTML <hr><center>nginx/1.24.0</center>
-# Error: output/tsv/mondo-mesh.tsv seems to contain HTML </body>
-# Error: output/tsv/mondo-mesh.tsv seems to contain HTML </html>
-# Error: output/tsv/mondo-omim_phenotype.tsv new file size per old 143 / 145395 = 0.0009835276316241962 < 0.5
-# Error: output/tsv/mondo-omim_phenotype.tsv seems to contain HTML <head><title>502 Bad Gateway</title></head>
-# Error: output/tsv/mondo-omim_phenotype.tsv seems to contain HTML <body>
-# Error: output/tsv/mondo-omim_phenotype.tsv seems to contain HTML <center><h1>502 Bad Gateway</h1></center>
-# Error: output/tsv/mondo-omim_phenotype.tsv seems to contain HTML <hr><center>nginx/1.24.0</center>
-# Error: output/tsv/mondo-omim_phenotype.tsv seems to contain HTML </body>
-# Error: output/tsv/mondo-omim_phenotype.tsv seems to contain HTML </html>
-# Error: output/tsv/mondo-omim_phenotype.tsv seems to contain HTML <head><title>502 Bad Gateway</title></head>
-# Error: output/tsv/mondo-omim_phenotype.tsv seems to contain HTML <body>
-# Error: output/tsv/mondo-omim_phenotype.tsv seems to contain HTML <center><h1>502 Bad Gateway</h1></center>
-# Error: output/tsv/mondo-omim_phenotype.tsv seems to contain HTML <hr><center>nginx/1.24.0</center>
-# Error: output/tsv/mondo-omim_phenotype.tsv seems to contain HTML </body>
-# Error: output/tsv/mondo-omim_phenotype.tsv seems to contain HTML </html>
-# Error: output/tsv/mondo-orphanet_phenotype.tsv new file size per old 143 / 146923 = 0.000973298938899968 < 0.5
-# Error: output/tsv/mondo-orphanet_phenotype.tsv seems to contain HTML <head><title>502 Bad Gateway</title></head>
-# Error: output/tsv/mondo-orphanet_phenotype.tsv seems to contain HTML <body>
-# Error: output/tsv/mondo-orphanet_phenotype.tsv seems to contain HTML <center><h1>502 Bad Gateway</h1></center>
-# Error: output/tsv/mondo-orphanet_phenotype.tsv seems to contain HTML <hr><center>nginx/1.24.0</center>
-# Error: output/tsv/mondo-orphanet_phenotype.tsv seems to contain HTML </body>
-# Error: output/tsv/mondo-orphanet_phenotype.tsv seems to contain HTML </html>
-# Error: output/tsv/mondo-orphanet_phenotype.tsv seems to contain HTML <head><title>502 Bad Gateway</title></head>
-# Error: output/tsv/mondo-orphanet_phenotype.tsv seems to contain HTML <body>
-# Error: output/tsv/mondo-orphanet_phenotype.tsv seems to contain HTML <center><h1>502 Bad Gateway</h1></center>
-# Error: output/tsv/mondo-orphanet_phenotype.tsv seems to contain HTML <hr><center>nginx/1.24.0</center>
-# Error: output/tsv/mondo-orphanet_phenotype.tsv seems to contain HTML </body>
-# Error: output/tsv/mondo-orphanet_phenotype.tsv seems to contain HTML </html>
-# Error: output/tsv/nando-mondo.tsv new file size per old 143 / 38240 = 0.003739539748953975 < 0.5
-# Error: output/tsv/nando-mondo.tsv seems to contain HTML <head><title>502 Bad Gateway</title></head>
-# Error: output/tsv/nando-mondo.tsv seems to contain HTML <body>
-# Error: output/tsv/nando-mondo.tsv seems to contain HTML <center><h1>502 Bad Gateway</h1></center>
-# Error: output/tsv/nando-mondo.tsv seems to contain HTML <hr><center>nginx/1.24.0</center>
-# Error: output/tsv/nando-mondo.tsv seems to contain HTML </body>
-# Error: output/tsv/nando-mondo.tsv seems to contain HTML </html>
-# Error: output/tsv/nando-mondo.tsv seems to contain HTML <head><title>502 Bad Gateway</title></head>
-# Error: output/tsv/nando-mondo.tsv seems to contain HTML <body>
-# Error: output/tsv/nando-mondo.tsv seems to contain HTML <center><h1>502 Bad Gateway</h1></center>
-# Error: output/tsv/nando-mondo.tsv seems to contain HTML <hr><center>nginx/1.24.0</center>
-# Error: output/tsv/nando-mondo.tsv seems to contain HTML </body>
-# Error: output/tsv/nando-mondo.tsv seems to contain HTML </html>
+# Error: output/tsv/mbgd_gene-uniprot.tsv new file size per old 0 / 4017692184 = 0.0 < 0.5
+# Error: Failed to create output/tsv/mbgd_gene-uniprot.tsv or created file was empty
+# Error: output/tsv/mbgd_organism-taxonomy.tsv new file size per old 0 / 81445 = 0.0 < 0.5
+# Error: Failed to create output/tsv/mbgd_organism-taxonomy.tsv or created file was empty
 # Error: output/tsv/pubchem_compound-atc.tsv new file size per old 28643 / 72636 = 0.39433614185803184 < 0.5
+# Error: output/tsv/togovar-clinvar.tsv new file size per old 4326672 / 13681182 = 0.31624986788422227 < 0.5
diff --git a/log/pair_count.tsv b/log/pair_count.tsv
@@ -1,12 +1,12 @@
 affy_probeset-ncbigene.tsv	19063
-assembly_insdc-bioproject.tsv	1871569
-assembly_insdc-biosample.tsv	1883028
-assembly_insdc-insdc_master.tsv	1818086
-bioproject-biosample.tsv	2257764
-bioproject-geo_series.tsv	194630
-bioproject-pubmed.tsv	255794
-bioproject_umbrella-bioproject.tsv	96670
-biosample-bioproject.tsv	2257764
+assembly_insdc-bioproject.tsv	1882660
+assembly_insdc-biosample.tsv	1894130
+assembly_insdc-insdc_master.tsv	1828915
+bioproject-biosample.tsv	2273003
+bioproject-geo_series.tsv	195161
+bioproject-pubmed.tsv	256387
+bioproject_umbrella-bioproject.tsv	96945
+biosample-bioproject.tsv	2273003
 cellosaurus-ncit_disease.tsv	68557
 cellosaurus-orphanet_phenotype.tsv	38153
 chebi-inchi_key.tsv	141392
@@ -39,7 +39,7 @@ ensembl_gene-ensembl_transcript.tsv	14437446
 ensembl_gene-hgnc.tsv	44278
 ensembl_gene-ncbigene.tsv	6179217
 ensembl_gene-uniprot.tsv	4924829
-ensembl_protein-ensembl_transcript.tsv	12180887
+ensembl_protein-ensembl_transcript.tsv	12064337
 ensembl_transcript-affy_probeset.tsv	218298
 ensembl_transcript-go.tsv	52748677
 ensembl_transcript-hgnc.tsv	219677
@@ -98,11 +98,11 @@ medgen-mondo.tsv	21567
 medgen-ncbigene.tsv	7229
 medgen-omim_phenotype.tsv	11043
 medgen-orphanet_phenotype.tsv	9063
-mgi_gene-ensembl_gene.tsv	56593
-mgi_gene-hgnc.tsv	24606
-mgi_gene-mgi_allele.tsv	100264
-mgi_gene-ncbigene.tsv	55043
-mgi_gene-uniprot.tsv	79656
+mgi_gene-ensembl_gene.tsv	56591
+mgi_gene-hgnc.tsv	24607
+mgi_gene-mgi_allele.tsv	100345
+mgi_gene-ncbigene.tsv	55041
+mgi_gene-uniprot.tsv	79654
 mgi_genotype-doid.tsv	7711
 mgi_genotype-mgi_allele.tsv	122136
 mgi_genotype-mp.tsv	391037
@@ -113,26 +113,26 @@ mondo-mesh.tsv	8352
 mondo-omim_phenotype.tsv	9693
 mondo-orphanet_phenotype.tsv	10380
 nando-mondo.tsv	2390
-ncbigene-ensembl_gene.tsv	8987554
-ncbigene-ensembl_protein.tsv	10503564
-ncbigene-ensembl_transcript.tsv	10954026
+ncbigene-ensembl_gene.tsv	9060577
+ncbigene-ensembl_protein.tsv	10583179
+ncbigene-ensembl_transcript.tsv	10990867
 ncbigene-flybase_gene.tsv	25107
-ncbigene-go.tsv	10899757
+ncbigene-go.tsv	16424994
 ncbigene-hgnc.tsv	43706
-ncbigene-mgi_gene.tsv	71694
+ncbigene-mgi_gene.tsv	71696
 ncbigene-mirbase.tsv	17541
-ncbigene-omim_gene.tsv	18348
-ncbigene-refseq_genomic.tsv	211616
-ncbigene-refseq_protein.tsv	59302999
-ncbigene-refseq_rna.tsv	57623245
+ncbigene-omim_gene.tsv	18358
+ncbigene-refseq_genomic.tsv	211618
+ncbigene-refseq_protein.tsv	59526509
+ncbigene-refseq_rna.tsv	57839278
 ncbigene-rgd.tsv	42520
 ncbigene-sgd.tsv	6464
 ncbigene-tair.tsv	32835
-ncbigene-taxonomy.tsv	48749205
+ncbigene-taxonomy.tsv	48951465
 ncbigene-vgnc.tsv	112107
 ncbigene-wormbase_gene.tsv	19850
 ncbigene-xenbase_gene.tsv	46225
-ncbigene-zfin_gene.tsv	27127
+ncbigene-zfin_gene.tsv	27125
 ncit_disease-ncit_tissue.tsv	26233
 oma_protein-ensembl_gene.tsv	2460780
 oma_protein-ensembl_transcript.tsv	2804840
@@ -157,7 +157,7 @@ pubchem_compound-chebi.tsv	141021
 pubchem_compound-chembl_compound.tsv	2327813
 pubchem_compound-drugbank.tsv	10789
 pubchem_compound-glytoucan.tsv	31767
-pubchem_compound-inchi_key.tsv	115371455
+pubchem_compound-inchi_key.tsv	115413603
 pubchem_pathway-ncbigene.tsv	32308
 pubchem_pathway-pathbank.tsv	69387
 pubchem_pathway-pubchem_compound.tsv	1252527
@@ -175,7 +175,7 @@ reactome_reaction-go.tsv	3335
 reactome_reaction-iuphar_ligand.tsv	15106
 reactome_reaction-mirbase.tsv	182
 reactome_reaction-uniprot.tsv	710946
-refseq_protein-uniprot.tsv	179005345
+refseq_protein-uniprot.tsv	179005362
 refseq_rna-dbsnp.tsv	269555074
 refseq_rna-hgnc.tsv	227884
 refseq_rna-ncbigene.tsv	56393572
@@ -189,28 +189,28 @@ rhea-go.tsv	4382
 rhea-pubmed.tsv	135188
 rhea-reactome_reaction.tsv	1438
 rhea-uniprot.tsv	35862353
-sra_accession-bioproject.tsv	457431
-sra_accession-biosample.tsv	27286140
+sra_accession-bioproject.tsv	457963
+sra_accession-biosample.tsv	27354771
 sra_accession-sra_analysis.tsv	270271
-sra_accession-sra_experiment.tsv	30186822
-sra_accession-sra_project.tsv	534698
-sra_accession-sra_run.tsv	34653091
-sra_accession-sra_sample.tsv	29376574
-sra_experiment-bioproject.tsv	26397508
-sra_experiment-biosample.tsv	26735738
-sra_experiment-sra_project.tsv	26740409
-sra_experiment-sra_sample.tsv	26740212
-sra_project-bioproject.tsv	457447
-sra_run-bioproject.tsv	28198069
-sra_run-biosample.tsv	28530220
-sra_run-sra_experiment.tsv	28599279
-sra_run-sra_project.tsv	28553708
-sra_run-sra_sample.tsv	28534680
-sra_sample-biosample.tsv	27295074
+sra_accession-sra_experiment.tsv	30305571
+sra_accession-sra_project.tsv	536288
+sra_accession-sra_run.tsv	34774776
+sra_accession-sra_sample.tsv	29491821
+sra_experiment-bioproject.tsv	26429207
+sra_experiment-biosample.tsv	26759907
+sra_experiment-sra_project.tsv	26772108
+sra_experiment-sra_sample.tsv	26771911
+sra_project-bioproject.tsv	457979
+sra_run-bioproject.tsv	28232240
+sra_run-biosample.tsv	28555512
+sra_run-sra_experiment.tsv	28636307
+sra_run-sra_project.tsv	28587879
+sra_run-sra_sample.tsv	28566861
+sra_sample-biosample.tsv	27363705
 swisslipids-chebi.tsv	4276
 swisslipids-hmdb.tsv	26026
 swisslipids-inchi_key.tsv	593209
-taxonomy-pubmed.tsv	48650
+taxonomy-pubmed.tsv	48714
 togovar-clinvar.tsv	720705
 togovar-dbsnp.tsv	66877211
 togovar-ensembl_gene.tsv	72473309
@@ -249,4 +249,4 @@ wikipathways-hmdb.tsv	4003
 wikipathways-lipidmaps.tsv	1352
 wikipathways-ncbigene.tsv	30100
 wikipathways-uniprot.tsv	33205
-total	4540405858
+total	4547530749