ArticleNucleic acids research2008
ORegAnno: an open-access community-driven resource for regulatory annotation.
Article in Nucleic acids research, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 146 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
146 citing papers in PubMed.
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- Association of HOTAIR rs2366152 and rs1899663 polymorphisms with colorectal cancer susceptibility in Iranian population: A case-control study.Journal of clinical laboratory analysis · 2023Article
- Gene-by-environment interactions are pervasive among natural genetic variants.Cell genomics · 2023Article
- WEVar: a novel statistical learning framework for predicting noncoding regulatory variants.Briefings in bioinformatics · 2021Article
- Many chronological aging clocks can be found throughout the epigenome: Implications for quantifying biological aging.Aging cell · 2021Article
- Experiment level curation of transcriptional regulatory interactions in neurodevelopment.PLoS computational biology · 2021Article
- Role ofThe Journal of neuroscience : the official journal of the Society for Neuroscience · 2021Article
- HAHmiR.DB: a server platform for high-altitude human miRNA-gene coregulatory networks and associated regulatory circuits.Database : the journal of biological databases and curation · 2020Article
- Subacute cannabidiol alters genome-wide DNA methylation in adult mouse hippocampus.Environmental and molecular mutagenesis · 2020Article
- LRRK2 mediates microglial neurotoxicity via NFATc2 in rodent models of synucleinopathies.Science translational medicine · 2020Article
- Critical Analysis of Genome-Wide Association Studies: Triple Negative Breast CancerInternational journal of molecular sciences · 2020Review
- Article
- A comprehensive review of computational prediction of genome-wide features.Briefings in bioinformatics · 2020Article
- Eric Davidson's Regulatory Genome for Computer Science: Causality, Logic, and Proof Principles of the GenomicJournal of computational biology : a journal of computational molecular cell biology · 2019Article
- Comprehensive mapping of the methylation landscape of 16 CpG-dense regions in oral and pharyngeal squamous cell carcinoma.Epigenomics · 2019Article
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- The TargetMine Data Warehouse: Enhancement and Updates.Frontiers in genetics · 2019Article
- Myometrial Transcriptional Signatures of Human Parturition.Frontiers in genetics · 2019Article
86 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
30 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
ORegAnno is an open-source, open-access database and literature curation system for community-based annotation of experimentally identified DNA regulatory regions, transcription factor binding sites and regulatory variants. The current release comprises 30 145 records curated from 922 publications and describing regulatory sequences for over 3853 genes and 465 transcription factors from 19 species. A new feature called the 'publication queue' allows users to input relevant papers from scientific literature as targets for annotation. The queue contains 4438 gene regulation papers entered by experts and another 54 351 identified by text-mining methods. Users can enter or 'check out' papers from the queue for manual curation using a series of user-friendly annotation pages. A typical record entry consists of species, sequence type, sequence, target gene, binding factor, experimental outcome and one or more lines of experimental evidence. An evidence ontology was developed to describe and categorize these experiments. Records are cross-referenced to Ensembl or Entrez gene identifiers, PubMed and dbSNP and can be visualized in the Ensembl or UCSC genome browsers. All data are freely available through search pages, XML data dumps or web services at: http://www.oreganno.org.
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.