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An Integrated Approach for Microprotein Identification and Sequence Analysis

An Integrated Approach for Microprotein Identification and Sequence Analysis

Published on: July 12, 2022

Current status and new features of the Consensus Coding Sequence database.

Catherine M Farrell¹, Nuala A O'Leary, Rachel A Harte

¹National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Building 38A, 8600 Rockville Pike, Bethesda, MD 20894, USA, Center for Biomolecular Science and Engineering, University of California Santa Cruz (UCSC), Santa Cruz, CA 95064, USA, Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA, UK and Howard Hughes Medical Institute, University of California Santa Cruz, Santa Cruz, CA 95064, USA.

Nucleic Acids Research

|November 13, 2013

Summary

This summary is machine-generated.

The Consensus Coding Sequence (CCDS) project provides a high-quality, stable dataset of human and mouse protein-coding regions. Recent updates enhance data accessibility and reporting for improved genomic research.

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Area of Science:

Genomics
Bioinformatics

Background:

The Consensus Coding Sequence (CCDS) project is a collaborative effort to maintain a consistent dataset of protein-coding regions.
It ensures identical annotations between human and mouse reference genomes from NCBI and Ensembl pipelines.
CCDS IDs provide stable identifiers for these high-quality, quality-assured annotations.

Purpose of the Study:

To describe the current status and growth of the CCDS dataset.
To report recent enhancements to the CCDS web and FTP sites.
To outline future curation targets for the CCDS project.

Main Methods:

Collaborative review by NCBI, Wellcome Trust Sanger Institute, and UC Santa Cruz.
Quality assurance tests for identical annotations.
Development of new search, display, and reporting features on CCDS web and FTP sites.

Main Results:

The CCDS dataset has experienced recent growth.
Web and FTP sites now offer more explicit reporting on compared annotation releases.
New features include improved search/display options and biologically descriptive information.

Conclusions:

The CCDS project ensures high-quality, consistent genomic annotations.
Recent updates enhance data usability and transparency for researchers.
Ongoing curation efforts aim to further improve the CCDS dataset.