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erc's Introduction

Processing human Evolutionary Rate Covariation data

This resource processes the evolutionary rate covaration (ERC) data from Priedigkeit et al 2015. ERC assesses whether two genes have a similar evolutionary history. See the corresponding Thinklab discussion for more information.

Files

erc.ipynb converts the raw ERC data into a tidy TSV (erc_mam33.tsv.gz) containing each gene pair mapped to Entrez Gene. entrez-group.R converts to using Entrez Gene as the primary gene identifiers. erc_mam33-entrez.tsv.gz is not tracked, since it's 821 MB, but the subset of gene pairs with ERC values >= 0.6 is stored in erc_mam33-entrez-gt-0.6.tsv.gz.

License

All original content in this repository is licensed under CC0 1.0. ERC data is used with permission.

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erc's Issues

Duplicate gene pairs in output data

In the course of resolving hetio/hetnetpy#10, I discovered there is a single gene pair that exists twice in erc_mam33-entrez-gt-0.6.tsv.gz (after filtering for correlation >= 0.75). See:

duplicated-genes

The intention was to not have any duplicate gene pairs. This is just an FYI for users and the upstream creators (have not tracked down why this occurs). I do not plan to fix this anytime soon.

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