ReviewFrontiers in bioengineering and biotechnology2015
Searching and Indexing Genomic Databases via Kernelization.
Review in Frontiers in bioengineering and biotechnology, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 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
9 citing papers in PubMed.
- MBGC2: Boosting compression via efficient encoding of approximate matches in genome collections.GigaScience · 2026Article
- Taxonomic classification with maximal exact matches in KATKA kernels and minimizer digests.LIPIcs : Leibniz international proceedings in informatics · 2024Article
- MBGC: Multiple Bacteria Genome Compressor.GigaScience · 2022Article
- Distributed hybrid-indexing of compressed pan-genomes for scalable and fast sequence alignment.PloS one · 2021Article
- Efficient Construction of a Complete Index for Pan-Genomics Read Alignment.Journal of computational biology : a journal of computational molecular cell biology · 2020Article
- Fully-sensitive seed finding in sequence graphs using a hybrid index.Bioinformatics (Oxford, England) · 2019Article
- Linear time minimum segmentation enables scalable founder reconstruction.Algorithms for molecular biology : AMB · 2019Article
- Relative Suffix Trees.The computer journal · 2018Article
- Computational pan-genomics: status, promises and challenges.Briefings in bioinformatics · 2018Review
Corrections and comments
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The rapid advance of DNA sequencing technologies has yielded databases of thousands of genomes. To search and index these databases effectively, it is important that we take advantage of the similarity between those genomes. Several authors have recently suggested searching or indexing only one reference genome and the parts of the other genomes where they differ. In this paper, we survey the 20-year history of this idea and discuss its relation to kernelization in parameterized complexity.
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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.