ArticleBioinformatics (Oxford, England)2015
Nsite, NsiteH and NsiteM computer tools for studying transcription regulatory elements.
Article in Bioinformatics (Oxford, England), 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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Who cites it
35 citing papers in PubMed.
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- Validation of a heat-induciblebioRxiv : the preprint server for biology · 2023Article
- From qualitative to quantitative: the state of the art and challenges for plant synthetic biology.Quantitative biology (Beijing, China) · 2023Review
- Codon adaptation by synonymous mutations impacts the functional properties of the estrogen receptor-alpha protein in breast cancer cells.Molecular oncology · 2023Article
- Deciphering evolutionary dynamics of WRKY genes in Arachis species.BMC genomics · 2023Article
- Overexpression of a pseudo-etiolated-in-light-like protein inFrontiers in plant science · 2023Article
- Integrated analyses reveal the response of peanut to phosphorus deficiency on phenotype, transcriptome and metabolome.BMC plant biology · 2022Article
- Orphan Genes in Crop Improvement: Enhancing Potato Tuber Protein without Impacting Yield.Plants (Basel, Switzerland) · 2022Article
- Gene delivery available in molluscan cells by strong promoter discovered from bivalve-infectious virus.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Motif and conserved module analysis in DNA (promoters, enhancers) and RNA (lncRNA, mRNA) using AlModules.Scientific reports · 2022Article
- Moderate DNA methylation changes associated with nitrogen remobilization and leaf senescence in Arabidopsis.Journal of experimental botany · 2022Article
- Exploring the diversity of promoter and 5'UTR sequences in ancestral, historic and modern wheat.Plant biotechnology journal · 2021Article
- Genomic characterization of ZIP genes in pigeonpea (Physiology and molecular biology of plants : an international journal of functional plant biology · 2021Article
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2 authors.
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No grant is acknowledged in the PubMed record.
Abstract
unlabelledGene transcription is mostly conducted through interactions of various transcription factors and their binding sites on DNA (regulatory elements, REs). Today, we are still far from understanding the real regulatory content of promoter regions. Computer methods for identification of REs remain a widely used tool for studying and understanding transcriptional regulation mechanisms. The Nsite, NsiteH and NsiteM programs perform searches for statistically significant (non-random) motifs of known human, animal and plant one-box and composite REs in a single genomic sequence, in a pair of aligned homologous sequences and in a set of functionally related sequences, respectively. AVAILABILITY AND IMPLEMENTATION: Pre-compiled executables built under commonly used operating systems are available for download by visiting http://www.molquest.kaust.edu.sa and http://www.softberry.com. CONTACT: solovictor@gmail.com SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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