ArticleBioinformatics (Oxford, England)2016
ProtAnnot: an App for Integrated Genome Browser to display how alternative splicing and transcription affect proteins.
Article in Bioinformatics (Oxford, England), 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 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
8 citing papers in PubMed, 13 citations in OpenAlex.
- BioVizFrontiers in bioinformatics · 2022Article
- Anno genominis XX: 20 years of Arabidopsis genomics.The Plant cell · 2021Review
- Computational prediction and characterisation of miRNAs and their pathway genes in human schistosomiasis caused by Schistosoma haematobium.Memorias do Instituto Oswaldo Cruz · 2020Article
- An 'eFP-Seq Browser' for visualizing and exploring RNA sequencing data.The Plant journal : for cell and molecular biology · 2019Article
- DownstreamJournal of neurotrauma · 2019Article
- Many rice genes are differentially spliced between roots and shoots but cytokinin has minimal effect on splicing.Plant direct · 2019Article
- Regionally clusteredJournal of neurology, neurosurgery, and psychiatry · 2018Article
- Identification of protein features encoded by alternative exons using Exon Ontology.Genome research · 2017Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors at 1 institution in 1 country.
Funding
Abstract
unlabelledOne gene can produce multiple transcript variants encoding proteins with different functions. To facilitate visual analysis of transcript variants, we developed ProtAnnot, which shows protein annotations in the context of genomic sequence. ProtAnnot searches InterPro and displays profile matches (protein annotations) alongside gene models, exposing how alternative promoters, splicing and 3' end processing add, remove, or remodel functional motifs. To draw attention to these effects, ProtAnnot color-codes exons by frame and displays a cityscape graphic summarizing exonic sequence at each position. These techniques make visual analysis of alternative transcripts faster and more convenient for biologists. AVAILABILITY AND IMPLEMENTATION: ProtAnnot is a plug-in App for Integrated Genome Browser, an open source desktop genome browser available from http://www.bioviz.org CONTACT: aloraine@uncc.edu.
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.