ArticleGenome medicine2014
SuRFing the genomics wave: an R package for prioritising SNPs by functionality.
Article in Genome medicine, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 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
16 citing papers in PubMed.
- Variant Impact Predictor database (VIPdb), version 2: trends from three decades of genetic variant impact predictors.Human genomics · 2024Article
- Variant Impact Predictor database (VIPdb), version 2: Trends from 25 years of genetic variant impact predictors.bioRxiv : the preprint server for biology · 2024Article
- DeepPerVar: a multi-modal deep learning framework for functional interpretation of genetic variants in personal genome.Bioinformatics (Oxford, England) · 2022Article
- Article
- Article
- Genome-wide landscape establishes novel association signals for metabolic traits in the Arab population.Human genetics · 2021Article
- Knowledge-based analyses reveal new candidate genes associated with risk of hepatitis B virus related hepatocellular carcinoma.BMC cancer · 2020Article
- CERENKOV3: Clustering and molecular network-derived features improve computational prediction of functional noncoding SNPs.Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing · 2020Article
- regBase: whole genome base-wise aggregation and functional prediction for human non-coding regulatory variants.Nucleic acids research · 2019Article
- Regulatory variants: from detection to predicting impact.Briefings in bioinformatics · 2019Review
- VIPdb, a genetic Variant Impact Predictor Database.Human mutation · 2019Article
- CERENKOV2: improved detection of functional noncoding SNPs using data-space geometric features.BMC bioinformatics · 2019Article
- Identification of a novel locus on chromosome 2q13, which predisposes to clinical vertebral fractures independently of bone density.Annals of the rheumatic diseases · 2018Article
- Principles and methods of in-silico prioritization of non-coding regulatory variants.Human genetics · 2018Review
- Predicting regulatory variants with composite statistic.Bioinformatics (Oxford, England) · 2016Article
- New statistical approaches exploit the polygenic architecture of schizophrenia--implications for the underlying neurobiology.Current opinion in neurobiology · 2016Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
Abstract
Identifying functional non-coding variants is one of the greatest unmet challenges in genetics. To help address this, we introduce an R package, SuRFR, which integrates functional annotation and prior biological knowledge to prioritise candidate functional variants. SuRFR is publicly available, modular, flexible, fast, and simple to use. We demonstrate that SuRFR performs with high sensitivity and specificity and provide a widely applicable and scalable benchmarking dataset for model training and validation. Website: http://www.cgem.ed.ac.uk/resources/
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.