ArticleCurrent protocols in bioinformatics2007
Using galaxy to perform large-scale interactive data analyses.
Article in Current protocols in bioinformatics, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 76 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
76 citing papers in PubMed, 146 citations in OpenAlex.
- Haxe as a Swiss knife for bioinformatic applications: the SeqPHASE case story.Briefings in bioinformatics · 2024Article
- Review
- Watchdog 2.0: New developments for reusability, reproducibility, and workflow execution.GigaScience · 2020Article
- Single-cell technologies in reproductive immunology.American journal of reproductive immunology (New York, N.Y. : 1989) · 2019Review
- An immunoproteomic approach to characterize the CAR interactome and signalosome.Science signaling · 2019Article
- Targeting the BRD4-HOXB13 Coregulated Transcriptional Networks with Bromodomain-Kinase Inhibitors to Suppress Metastatic Castration-Resistant Prostate Cancer.Molecular cancer therapeutics · 2018Article
- Watchdog - a workflow management system for the distributed analysis of large-scale experimental data.BMC bioinformatics · 2018Article
- Article
- Sustained activation of the AKT/mTOR and MAP kinase pathways mediate resistance to the Src inhibitor, dasatinib, in thyroid cancer.Oncotarget · 2017Article
- APOSTL: An Interactive Galaxy Pipeline for Reproducible Analysis of Affinity Proteomics Data.Journal of proteome research · 2016Article
- Cell cycle progression in Caulobacter requires a nucleoid-associated protein with high AT sequence recognition.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- The Effects of Ivermectin on Brugia malayi Females In Vitro: A Transcriptomic Approach.PLoS neglected tropical diseases · 2016Article
- Article
- Integration of EGA secure data access into Galaxy.F1000Research · 2016Article
- The Effect of In Vitro Cultivation on the Transcriptome of Adult Brugia malayi.PLoS neglected tropical diseases · 2016Article
- Transcriptome analysis of TH2 CD4(+) T cells differentiated from wild-type and NLRP3KO mice.Genomics data · 2015Article
- The receptor NLRP3 is a transcriptional regulator of TH2 differentiation.Nature immunology · 2015Article
- Kinase-independent role of cyclin D1 in chromosomal instability and mammary tumorigenesis.Oncotarget · 2015Article
- Differential Expression Analysis in RNA-Seq by a Naive Bayes Classifier with Local Normalization.BioMed research international · 2015Article
- A genome-wide map of adeno-associated virus-mediated human gene targeting.Nature structural & molecular biology · 2014Article
16 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
4 authors at 2 institutions in 1 country.
Funding
Abstract
While most experimental biologists know where to download genomic data, few have a concrete plan on how to analyze it. This situation can be corrected by: (1) providing unified portals serving genomic data and (2) building Web applications to allow flexible retrieval and on-the-fly analyses of the data. Powerful resources, such as the UCSC Genome Browser already address the first issue. The second issue, however, remains open. For example, how to find human protein-coding exons with the highest density of single nucleotide polymorphisms (SNPs) and extract orthologous sequences from all sequenced mammals? Indeed, one can access all relevant data from the UCSC Genome Browser. But once the data is downloaded how would one deal with millions of SNPs and gigabytes of alignments? Galaxy (http://g2.bx.psu.edu) is designed specifically for that purpose. It amplifies the strengths of existing resources (such as UCSC Genome Browser) by allowing the user to access and, most importantly, analyze data within a single interface in an unprecedented number of ways.
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.