ArticleDatabase : the journal of biological databases and curation2012
Tracking and coordinating an international curation effort for the CCDS Project.
Article in Database : the journal of biological databases and curation, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
39 citing papers in PubMed.
- How Genomic and Structural Context Could Shape JAK-STAT Variant Pathogenicity.Twin research and human genetics : the official journal of the International Society for Twin Studies · 2026Article
- Efficient gene editing through an intronic selection marker in cells.Cellular and molecular life sciences : CMLS · 2022Article
- APPRIS: selecting functionally important isoforms.Nucleic acids research · 2022Article
- Assessing the functional relevance of splice isoforms.NAR genomics and bioinformatics · 2021Article
- Quality of whole genome sequencing from blood versus saliva derived DNA in cardiac patients.BMC medical genomics · 2020Article
- MiPepid: MicroPeptide identification tool using machine learning.BMC bioinformatics · 2019Article
- Beyond sequencing: re-visiting annotations for PJL as a test case.BMC research notes · 2019Article
- Overexpressed TTC3 Protein Tends to be Cleaved into Fragments and Form Aggregates in the Nucleus.Neuromolecular medicine · 2019Article
- Modular 5'-UTR hexamers for context-independent tuning of protein expression in eukaryotes.Nucleic acids research · 2018Article
- Target-Cell-Directed Bioengineering Approaches for Gene Therapy of Hemophilia A.Molecular therapy. Methods & clinical development · 2018Article
- Consensus coding sequence (CCDS) database: a standardized set of human and mouse protein-coding regions supported by expert curation.Nucleic acids research · 2018Article
- Accurate prediction of human essential genes using only nucleotide composition and association information.Bioinformatics (Oxford, England) · 2017Article
- Alternative Splicing May Not Be the Key to Proteome Complexity.Trends in biochemical sciences · 2017Review
- Explorations to improve the completeness of exome sequencing.BMC medical genomics · 2016Article
- MRPrimerW: a tool for rapid design of valid high-quality primers for multiple target qPCR experiments.Nucleic acids research · 2016Article
- The UniProtKB guide to the human proteome.Database : the journal of biological databases and curation · 2016Article
- CoReCG: a comprehensive database of genes associated with colon-rectal cancer.Database : the journal of biological databases and curation · 2016Article
- The Ensembl gene annotation system.Database : the journal of biological databases and curation · 2016Article
- Discrepancies between human DNA, mRNA and protein reference sequences and their relation to single nucleotide variants in the human population.Database : the journal of biological databases and curation · 2016Article
- Alternatively Spliced Homologous Exons Have Ancient Origins and Are Highly Expressed at the Protein Level.PLoS computational biology · 2015Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
13 authors.
Funding
Abstract
The Consensus Coding Sequence (CCDS) collaboration involves curators at multiple centers with a goal of producing a conservative set of high quality, protein-coding region annotations for the human and mouse reference genome assemblies. The CCDS data set reflects a 'gold standard' definition of best supported protein annotations, and corresponding genes, which pass a standard series of quality assurance checks and are supported by manual curation. This data set supports use of genome annotation information by human and mouse researchers for effective experimental design, analysis and interpretation. The CCDS project consists of analysis of automated whole-genome annotation builds to identify identical CDS annotations, quality assurance testing and manual curation support. Identical CDS annotations are tracked with a CCDS identifier (ID) and any future change to the annotated CDS structure must be agreed upon by the collaborating members. CCDS curation guidelines were developed to address some aspects of curation in order to improve initial annotation consistency and to reduce time spent in discussing proposed annotation updates. Here, we present the current status of the CCDS database and details on our procedures to track and coordinate our efforts. We also present the relevant background and reasoning behind the curation standards that we have developed for CCDS database treatment of transcripts that are nonsense-mediated decay (NMD) candidates, for transcripts containing upstream open reading frames, for identifying the most likely translation start codons and for the annotation of readthrough transcripts. Examples are provided to illustrate the application of these guidelines. DATABASE URL: http://www.ncbi.nlm.nih.gov/CCDS/CcdsBrowse.cgi.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.