ArticleGenome research2005
Begin at the beginning: predicting genes with 5' UTRs.
Article in Genome research, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
What it found
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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.
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Who cites it
14 citing papers in PubMed.
- FINDER: an automated software package to annotate eukaryotic genes from RNA-Seq data and associated protein sequences.BMC bioinformatics · 2021Article
- Known and novel post-transcriptional regulatory sequences are conserved across plant families.RNA (New York, N.Y.) · 2012Article
- mGene: accurate SVM-based gene finding with an application to nematode genomes.Genome research · 2009Article
- Finding genes in Schistosoma japonicum: annotating novel genomes with help of extrinsic evidence.Nucleic acids research · 2009Article
- POEM, A 3-dimensional exon taxonomy and patterns in untranslated exons.BMC genomics · 2008Article
- Towards a molecular dynamics consensus view of B-DNA flexibility.Nucleic acids research · 2008Article
- Conrad: gene prediction using conditional random fields.Genome research · 2007Article
- Determining promoter location based on DNA structure first-principles calculations.Genome biology · 2007Article
- Using ESTs to improve the accuracy of de novo gene prediction.BMC bioinformatics · 2006Article
- Automatic generation of gene finders for eukaryotic species.BMC bioinformatics · 2006Article
- Identification of core promoter modules in Drosophila and their application in accurate transcription start site prediction.Nucleic acids research · 2006Article
- Performance assessment of promoter predictions on ENCODE regions in the EGASP experiment.Genome biology · 2006Review
- Pairagon+N-SCAN_EST: a model-based gene annotation pipeline.Genome biology · 2006Article
- Vertebrate gene finding from multiple-species alignments using a two-level strategy.Genome biology · 2006Article
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
The retrainable, comparative gene predictor N-SCAN integrates multigenome modeling and 5' untranslated region (5' UTR) modeling. In this article, we evaluate N-SCAN's transcription-start site (TSS) and first exon predictions both computationally and experimentally. The computational results indicate that N-SCAN is more accurate than any of the other tools we tested at predicting the TSS and the complete first exon. It is the only one of these tools that can predict complete gene structures together with 5' UTRs. Experimental evaluation shows that N-SCAN can be used to validate novel UTR introns in human gene predictions that do not overlap any RefSeq gene and even to correct RefSeq mRNAs by adding validated UTR exons that are missing from RefSeq.
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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.