ArticleBioinformatics (Oxford, England)2020
GenMap: ultra-fast computation of genome mappability.
Article in Bioinformatics (Oxford, England), 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 138 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
138 citing papers in PubMed, 244 citations in OpenAlex.
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- Stepwise emergence of recombination suppression precedes fissiparous asexuality in the planarian Schmidtea mediterranea.Nature communications · 2026Article
- kmerRRR: A k-mer based tool for functional genomics in Repeat Rich Regions.bioRxiv : the preprint server for biology · 2026Article
- Ancient DNA from shells reveals delayed genomic erosion and rapid immune adaptation in the critically endangered black abalone.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Census and genetic analysis of the United States marmoset population.bioRxiv : the preprint server for biology · 2026Article
- Comparative analysis of gene importance inmSystems · 2026Article
- A chromosome level genome assembly of the marine flowering plant, Torrey's surfgrass (Phyllospadix Torreyi) reveals an exceptionally large Y-chromosome.The Journal of heredity · 2026Article
- ctDNA monitoring using tumor-informed copy number analysis.EMBO molecular medicine · 2026Article
- Genome-Wide Analysis Successfully Resolves Population Structure Shaped by Recent Divergence in the Endangered Bagrid CatfishEcology and evolution · 2026Article
- De Novo Chromosome-Level Assembly of the Endangered Pilocarpus Microphyllus Highlights Genomic Resources for Conservation and Sustainable Pilocarpine Extraction.Genome biology and evolution · 2026Article
- Chromosome-level genome of the bank vole (Clethrionomys glareolus): a resource for eco-evo-disease research.Scientific data · 2026Article
- The Japanese Archipelago sheltered cave lions, not tigers, during the Late Pleistocene.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
78 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 4 institutions in 4 countries.
Funding
Abstract
motivationComputing the uniqueness of k-mers for each position of a genome while allowing for up to e mismatches is computationally challenging. However, it is crucial for many biological applications such as the design of guide RNA for CRISPR experiments. More formally, the uniqueness or (k, e)-mappability can be described for every position as the reciprocal value of how often this k-mer occurs approximately in the genome, i.e. with up to e mismatches.
resultsWe present a fast method GenMap to compute the (k, e)-mappability. We extend the mappability algorithm, such that it can also be computed across multiple genomes where a k-mer occurrence is only counted once per genome. This allows for the computation of marker sequences or finding candidates for probe design by identifying approximate k-mers that are unique to a genome or that are present in all genomes. GenMap supports different formats such as binary output, wig and bed files as well as csv files to export the location of all approximate k-mers for each genomic position. AVAILABILITY AND IMPLEMENTATION: GenMap can be installed via bioconda. Binaries and C++ source code are available on https://github.com/cpockrandt/genmap.
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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.