ArticleBioinformatics (Oxford, England)2018
Motif scraper: a cross-platform, open-source tool for identifying degenerate nucleotide motif matches in FASTA files.
Article in Bioinformatics (Oxford, England), 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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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
6 citing papers in PubMed.
- Increased chromatin accessibility following 1α,25-dihydroxyvitamin DToxicology and applied pharmacology · 2026Article
- TransPilot: mining key transcription factors by correlating binding sites with differentially expressed genes.Bioinformatics advances · 2026Article
- A catalog of gene editing sites and genetic variations in editing sites in model organisms.BMC genomics · 2024Article
- Identification and characterization of specific motifs in effector proteins of plant parasites using MOnSTER.Communications biology · 2024Article
- Identification of upstream transcription factor binding sites in orthologous genes using mixed Student's t-test statistics.PLoS computational biology · 2022Article
- A catalog of CasX genome editing sites in common model organisms.BMC genomics · 2019Article
Corrections and comments
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Authors and funding
1 author.
Funding
Abstract
Summary: Many genomic features are defined not by exact sequence matches, but by degenerate nucleotide motifs that represent multiple compatible matches. While there are databases cataloging genomic features, such as the location of transcription factor motifs, for commonly used model species, identifying the locations of novel motifs, known motifs in non-model genomes, or known motifs in personal whole-genomes is difficult. I designed motif scraper to overcome this limitation, allowing for efficient, multiprocessor motif searches in any FASTA file. Availability and implementation: The motif scraper package (MIT license) is available via PyPI, and the Python source is available on GitHub at https://github.com/RobersonLab/motif_scraper.
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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.