GlyGen Protein Dataset Release 2024_06 ====================================== UniProt release: 27-NOV-2024 GlyGen dataset : 18-DEC-2024 * uniprot-proteome-homo-sapiens.nt.gz * uniprot-proteome-mus-musculus.nt.gz * uniprot-proteome-rattus-norvegicus.nt.gz * uniprot-proteome-drosophila-melanogaster.nt.gz * uniprot-proteome-saccharomyces-cerevisiae.nt.gz * uniprot-proteome-dictyostelium-discoideum.nt.gz * uniprot-proteome-sus-scrofa.nt.gz * uniprot-proteome-gallus-gallus.nt.gz * uniprot-proteome-arabidopsis-thaliana.nt.gz * uniprot-proteome-hepatitis-c-virus-1a.nt.gz * uniprot-proteome-hepatitis-c-virus-1b.nt.gz * uniprot-proteome-human-sars-coronavirus.nt.gz * uniprot-proteome-sars-cov-2.nt.gz * uniprot-proteome-bos-taurus.nt.gz * uniprot-proteome-danio-rerio.nt.gz * uniprot-proteome-cricetulus-griseus.nt.gz Changes in this release: ------------------------ Species: cricetulus-griseus is newly added species imported from INSDC. Homo Sapiens Dataset inputs: > Homo_sapiens.GRCh38.cds.all.fa from http://ftp.ensembl.org/pub/current_fasta/homo_sapiens/cds > UP000005640_9606_uniprot_proteome.rdf using UniProt website REST API in Nov 2024 > UP000005640_9606.coordinates.json using Proteins REST API in Nov 2024 > Isoform info using UniProt Java API in Nov 2024 > UP000005640_9606.fasta from UniProt Release 2024_06 > UP000005640_9606_additional.fasta from UniProt Release 2024_06 Mus Musculus Dataset inputs: > Mus_musculus.GRCm39.cds.all.fa from http://ftp.ensembl.org/pub/current_fasta/mus_musculus/cds > UP000000589_10090_uniprot_proteome.rdf using UniProt website REST API in Nov 2024 > UP000000589_10090.coordinates.json using Proteins REST API in Nov 2024 > Isoform info using UniProt Java API in Nov 2024 > UP000000589_10090.fasta from UniProt Release 2024_06 > UP000000589_10090_additional.fasta from UniProt Release 2024_06 Rattus Norvegicus Dataset inputs: > Rattus_norvegicus.mRatBN7.2.cds.all.fa from http://ftp.ensembl.org/pub/current_fasta/rattus_norvegicus/cds > UP000002494_10116_uniprot_proteome.rdf using UniProt website REST API in Nov 2024 > UP000002494_10116.coordinates.json using Proteins REST API in Nov 2024 > Isoform info using UniProt Java API in Nov 2024 > UP000002494_10116.fasta from UniProt Release 2024_06 > UP000002494_10116_additional.fasta from UniProt Release 2024_06 Drosophila Melanogaster Dataset inputs: > Drosophila_melanogaster.BDGP6.46.cds.all.fa from http://ftp.ensembl.org/pub/current_fasta/drosophila_melanogaster/cds/ > UP000000803_7227_uniprot_proteome.rdf using UniProt website REST API in Nov 2024 > UP000000803_7227.coordinates.json using Proteins REST API in Nov 2024 > Isoform info using UniProt Java API in Nov 2024 > UP000000803_7227.fasta from UniProt Release 2024_06 > UP000000803_7227_additional.fasta from UniProt Release 2024_06 Saccharomyces Cerevisiae Dataset inputs: > Saccharomyces_cerevisiae.R64-1-1.cds.all.fa from https://ftp.ensembl.org/pub/current_fasta/saccharomyces_cerevisiae/cds/ > UP000002311_559292_uniprot_proteome.rdf using UniProt website REST API in Nov 2024 > UP000002311_559292.coordinates.json using Proteins REST API in Nov 2024 > Isoform info using UniProt Java API in Nov 2024 > UP000002311_559292.fasta from UniProt Release 2024_06 > UP000002311_559292_additional.fasta from UniProt Release 2024_06 Dictyostelium Discoideum Dataset inputs: > Dictyostelium_discoideum.dicty_2.7.cds.all.fa from https://ftp.ensemblgenomes.ebi.ac.uk/pub/protists/current/fasta/dictyostelium_discoideum/cds/ > UP000002195_44689_uniprot_proteome.rdf using UniProt website REST API in Nov 2024 > UP000002195_44689.coordinates.json using Proteins REST API in Nov 2024 > Isoform info using UniProt Java API in Nov 2024 > UP000002195_44689.fasta from UniProt Release 2024_06 > UP000002195_44689_additional.fasta from UniProt Release 2024_06 Sus scrofa Dataset inputs: > Sus_scrofa.Sscrofa11.1.cds.all.fa.gz from https://ftp.ensembl.org/pub/current_fasta/sus_scrofa/cds > UP000008227_9823_uniprot_proteome.rdf using UniProt website REST API in Nov 2024 > UP000008227_9823.coordinates.json using Proteins REST API in Nov 2024 > Isoform info using UniProt Java API in Nov 2024 > UP000008227_9823.fasta from UniProt Release 2024_06 > UP000008227_9823_additional.fasta from UniProt Release 2024_06 Gallus gallus Dataset inputs: > Gallus_gallus.bGalGal1.mat.broiler.GRCg7b.cds.all.fa.gz from https://ftp.ensembl.org/pub/current_fasta/gallus_gallus/cds > UP000000539_9031_uniprot_proteome.rdf using UniProt website REST API in Nov 2024 > UP000000539_9031.coordinates.json using Proteins REST API in Nov 2024 > Isoform info using UniProt Java API in Nov 2024 > UP000000539_9031.fasta from UniProt Release 2024_06 > UP000000539_9031_additional.fasta from UniProt Release 2024_06 Arabidopsis Thaliana Dataset inputs: > Arabidopsis_thaliana.TAIR10.cds.all.fa.gz from https://ftp.ensemblgenomes.ebi.ac.uk/pub/plants/current/fasta/arabidopsis_thaliana/cds/ > UP000006548_3702_uniprot_proteome.rdf using UniProt website REST API in Nov 2024 > UP000006548_3702.coordinates.json using Proteins REST API in Nov 2024 > Isoform info using UniProt Java API in Nov 2024 > UP000006548_3702.fasta from UniProt Release 2024_06 > UP000006548_3702_additional.fasta from UniProt Release 2024_06 Hepatitis C Virus Genotype 1a Dataset inputs: > UP000000518_63746_uniprot_proteome.rdf using UniProt website REST API in Nov 2024 > Isoform info using UniProt Java API in Nov 2024 > UP000000518_63746.fasta from UniProt Release 2024_06 Hepatitis C Virus Genotype 1b Dataset inputs: > UP000008095_11116_uniprot_proteome.rdf using UniProt website REST API in Nov 2024 > Isoform info using UniProt Java API in Nov 2024 > UP000008095_11116.fasta from UniProt website in Nov 2024 Human SARS coronavirus Dataset inputs: > UP000000354_694009_uniprot_proteome.rdf using UniProt website REST API in Nov 2024 > Isoform info using UniProt Java API in Nov 2024 > UP000000354_694009.fasta from UniProt Release 2024_06 SARS CoV 2 Dataset inputs: > UP000000354_694009_uniprot_proteome.rdf using UniProt website REST API in Nov 2024 > Isoform info using UniProt Java API in Nov 2024 > UP000000354_694009.fasta from UniProt Release 2024_06 Bos Taurus Dataset inputs: > Bos_taurus.ARS-UCD1.3.cds.all.fa.gz from https://ftp.ensembl.org/pub/current_fasta/bos_taurus/cds/Bos_taurus.ARS-UCD1.3.cds.all.fa.gz > UP000009136_9913_uniprot_proteome.rdf using UniProt website REST API in Nov 2024 > UP000009136_9913.coordinates.json using Proteins REST API in Nov 2024 > Isoform info using UniProt Java API in Nov 2024 > UP000009136_9913.fasta from UniProt Release 2024_06 > UP000009136_9913_additional.fasta from UniProt Release 2024_06 Danio Rerio Dataset inputs: > Danio_rerio.GRCz11.cds.all.fa.gz from https://ftp.ensembl.org/pub/current_fasta/danio_rerio/cds/Danio_rerio.GRCz11.cds.all.fa.gz > UP000000437_7955_uniprot_proteome.rdf using UniProt website REST API in Nov 2024 > UP000000437_7955.coordinates.json using Proteins REST API in Nov 2024 > Isoform info using UniProt Java API in Nov 2024 > UP000000437_7955.fasta from UniProt Release 2024_06 > UP000000437_7955_additional.fasta from UniProt Release 2024_06 Cricetulus Griseus Dataset inputs: > cricetulus_griseus.cds.all.fa.gz from https://ftp.ensembl.org/pub/current_fasta/cricetulus_griseus_crigri/cds/Cricetulus_griseus_crigri.CriGri_1.0.cds.all.fa.gz > UP000001075_10029_uniprot_proteome.rdf using UniProt website REST API in Nov 2024 > UP000001075_10029.coordinates.json using Proteins REST API in Nov 2024 > Isoform info using UniProt Java API in Nov 2024 > UP000001075_10029.fasta from UniProt Release 2024_06 > UP000001075_10029_additional.fasta from UniProt Release 2024_06 Reaction info from Reactome: > GraphDB v90 - https://reactome.org/download/current/reactome.graphdb.tgz > UniProt to All reactions mapping - https://reactome.org/download/current/UniProt2ReactomeReactions.txt Rhea info from ftp://ftp.ebi.ac.uk/pub/databases/rhea/rdf/rhea.rdf.gz Common UniProt Supporting Datasets (2024_06): > databases.rdf.xz Databases that are linked to from uniprot.rdf.xz > diseases.rdf.xz Human diseases > enzyme.rdf.xz Enzyme classification > go.owl.xz Gene Ontology > keywords.rdf.xz Keywords > locations.rdf.xz Subcellular locations > tissues.rdf.xz Tissues