ArticleNucleic acids research2012
Savant Genome Browser 2: visualization and analysis for population-scale genomics.
Article in Nucleic acids research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 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
24 citing papers in PubMed, 55 citations in OpenAlex.
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- Evaluation of Genetic Variation among Sorghum Varieties from Southwest China via Genome Resequencing.The plant genome · 2018Article
- Discovery of potential causative mutations in human coding and noncoding genome with the interactive software BasePlayer.Nature protocols · 2018Article
- ReadXplorer 2-detailed read mapping analysis and visualization from one single source.Bioinformatics (Oxford, England) · 2016Article
- Public data and open source tools for multi-assay genomic investigation of disease.Briefings in bioinformatics · 2016Review
- Rapid cloning of disease-resistance genes in plants using mutagenesis and sequence capture.Nature biotechnology · 2016Article
- Informatics for RNA Sequencing: A Web Resource for Analysis on the Cloud.PLoS computational biology · 2015Article
- RNASeqBrowser: a genome browser for simultaneous visualization of raw strand specific RNAseq reads and UCSC genome browser custom tracks.BMC genomics · 2015Article
- inPHAP: interactive visualization of genotype and phased haplotype data.BMC bioinformatics · 2014Article
- The personal genome browser: visualizing functions of genetic variants.Nucleic acids research · 2014Article
- Genomic analysis of diffuse intrinsic pontine gliomas identifies three molecular subgroups and recurrent activating ACVR1 mutations.Nature genetics · 2014Article
- FISH Oracle 2: a web server for integrative visualization of genomic data in cancer research.Journal of clinical bioinformatics · 2014Article
- Interactive Visualization for Patient-to-Patient Comparison.Genomics & informatics · 2014Article
- Article
- Resistance gene enrichment sequencing (RenSeq) enables reannotation of the NB-LRR gene family from sequenced plant genomes and rapid mapping of resistance loci in segregating populations.The Plant journal : for cell and molecular biology · 2013Article
- SynTView - an interactive multi-view genome browser for next-generation comparative microorganism genomics.BMC bioinformatics · 2013Article
- Count-based differential expression analysis of RNA sequencing data using R and Bioconductor.Nature protocols · 2013Article
- Web-based visual analysis for high-throughput genomics.BMC genomics · 2013Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
9 authors at 4 institutions in 3 countries.
Funding
Abstract
High-throughput sequencing (HTS) technologies are providing an unprecedented capacity for data generation, and there is a corresponding need for efficient data exploration and analysis capabilities. Although most existing tools for HTS data analysis are developed for either automated (e.g. genotyping) or visualization (e.g. genome browsing) purposes, such tools are most powerful when combined. For example, integration of visualization and computation allows users to iteratively refine their analyses by updating computational parameters within the visual framework in real-time. Here we introduce the second version of the Savant Genome Browser, a standalone program for visual and computational analysis of HTS data. Savant substantially improves upon its predecessor and existing tools by introducing innovative visualization modes and navigation interfaces for several genomic datatypes, and synergizing visual and automated analyses in a way that is powerful yet easy even for non-expert users. We also present a number of plugins that were developed by the Savant Community, which demonstrate the power of integrating visual and automated analyses using Savant. The Savant Genome Browser is freely available (open source) at www.savantbrowser.com.
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.