README.data_sources.md

In bwzee/favor-gene-build: FAVOR Gene annotation builder

Introduction

These are the data source files used in creating a merged Gene database

Hugo

https://ftp.ebi.ac.uk/pub/databases/genenames/hgnc/tsv/locus_types/gene_with_protein_product.txt

HPA

https://www.proteinatlas.org/download/proteinatlas.tsv.zip

DBNSFP

https://drive.google.com/file/d/1tw5DlroGCX153wV4MqZc8qAMkEP19fWb/view?usp=sharing

Ensembl Refseq

http://ftp.ensembl.org/pub/release-103/tsv/homo_sapiens/

Mouse MGI Model

knockout model

http://www.informatics.jax.org/downloads/reports/index.html#pheno

DECIPHER DDG2P

https://www.deciphergenomics.org/redirect?to=https%3A%2F%2Fwww.ebi.ac.uk%2Fgene2phenotype%2Fdownloads%2FDDG2P.csv.gz

GTEX

https://storage.googleapis.com/gtex_analysis_v8/rna_seq_data/GTEx_Analysis_2017-06-05_v8_RNASeQCv1.1.9_gene_median_tpm.gct.gz

OMIM

https://omim.org/static/omim/data/mim2gene.txt

GWAS Catalog

https://www.ebi.ac.uk/gwas/api/search/downloads/full

bwzee/favor-gene-build documentation built on Dec. 19, 2021, 12:47 p.m.