Work Description

Title: Genes of the Pig, Sus scrofa, reconstructed with EvidentialGene Open Access Deposited

https://creativecommons.org/licenses/by/4.0/
Attribute Value
Abstract
  • The pig is a well studied model animal of biomedical and agricultural importance. Genes of this species, Sus scrofa, are known from experiments and predictions, and collected at the NCBI Reference Sequence database section. Gene reconstruction from transcribed gene evidence of RNAseq now can accurately and completely reproduce the biological gene sets of animals and plants. Such a gene set for the pig is reported here, including human orthologs missing from RefSeq and other improvements to the current NCBI RefSeq pig gene set. Methodology for accurate and complete gene set reconstruction from RNA, termed EvidentialGene is used, specifically a recent ‘SRA2Genes’ pipeline for automated reconstruction from public RNA-seq data.
Methodology
  • This SRA2Genes pipeline collects several EvidentialGene methods into a complete, automated gene set reconstruction pipeline for fetching public RNA-seq gene pieces from NCBI SRA, over-assembling that into many millions of gene models, varying assembly methods and data slices, then reducing the over-assembly by to its most accurate non-redundant coding gene loci and alternates, followed by annotation with reference/related species proteins and gene names, with checks for contaminants, and formatting of gene sequence sets to publication quality for public database submission.
Description
  • The evigene_pig2018 download contains a complete, reconstructed gene set of model animal Pig, Sus scrofa, produced with EvidentialGene methods. This file set includes gene sequences, annotations, analyses and summary documents.
Depositor
Citations to related material
Resource type
Last modified
  • 06/20/2024
Language
Subject
License
Date issued
  • 2018
To Cite this Work:
Genes of the Pig, Sus scrofa, reconstructed with EvidentialGene [Data set]. Indiana University - DataCORE.

Relationships

Files (Count: 3; Size: 3.42 KB)

Thumbnail Title Original Upload Last Modified File Size Access Actions
evigene_pig2018.tar.gz 2024-07-19 2024-07-19 Open Access
manifest.txt 2024-08-16 2024-08-16 223 Bytes Open Access
README_for_evigene_pig2018.txt 2024-08-16 2024-08-16 3.2 KB Open Access

Download All Files

Some files in this dataset must be individually downloaded, and will not be included in the zip download:
Files can be downloaded individually in the "Files" panel above.

Best for data sets < 3 GB. Downloads all files plus metadata into a zip file.