ArticleCell systems2016
Topological Data Analysis Generates High-Resolution, Genome-wide Maps of Human Recombination.
Article in Cell systems, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
20 citing papers in PubMed, 54 citations in OpenAlex.
- Persistent homology-based multiscale Hi-C analysis uncovers TADs-mediated gene regulation.Scientific reports · 2026Article
- Simplicial complex entropy for time series analysis.Scientific reports · 2023Article
- An analysis modality for vascular structures combining tissue-clearing technology and topological data analysis.Nature communications · 2022Article
- Individual Genetic Heterogeneity.Genes · 2022Review
- Analysis of archaic human haplotypes suggests that 5hmC acts as an epigenetic guide for NCO recombination.BMC biology · 2022Article
- The topology of data: opportunities for cancer research.Bioinformatics (Oxford, England) · 2021Article
- Global Patterns of Recombination across Human Viruses.Molecular biology and evolution · 2021Article
- Identification of stem cells from large cell populations with topological scoring.Molecular omics · 2021Article
- Applications of Topological Data Analysis in Oncology.Frontiers in artificial intelligence · 2021Review
- Identification of relevant genetic alterations in cancer using topological data analysis.Nature communications · 2020Article
- The shape of things to come: Topological data analysis and biology, from molecules to organisms.Developmental dynamics : an official publication of the American Association of Anatomists · 2020Review
- Interpatient Similarities in Cardiac Function: A Platform for Personalized Cardiovascular Medicine.JACC. Cardiovascular imaging · 2020Article
- Molecular phenotyping using networks, diffusion, and topology: soft tissue sarcoma.Scientific reports · 2019Article
- Article
- Pharmacogenomic landscape of patient-derived tumor cells informs precision oncology therapy.Nature genetics · 2018Article
- Gene Coexpression Network Comparison via Persistent Homology.International journal of genomics · 2018Article
- Single-cell topological RNA-seq analysis reveals insights into cellular differentiation and development.Nature biotechnology · 2017Article
- Enabling Precision Cardiology Through Multiscale Biology and Systems Medicine.JACC. Basic to translational science · 2017Review
- Identification of Topological Network Modules in Perturbed Protein Interaction Networks.Scientific reports · 2017Article
- Topological methods for genomics: present and future directions.Current opinion in systems biology · 2017Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 2 institutions in 1 country.
Funding
Abstract
Meiotic recombination is a fundamental evolutionary process driving diversity in eukaryotes. In mammals, recombination is known to occur preferentially at specific genomic regions. Using topological data analysis (TDA), a branch of applied topology that extracts global features from large data sets, we developed an efficient method for mapping recombination at fine scales. When compared to standard linkage-based methods, TDA can deal with a larger number of SNPs and genomes without incurring prohibitive computational costs. We applied TDA to 1,000 Genomes Project data and constructed high-resolution whole-genome recombination maps of seven human populations. Our analysis shows that recombination is generally under-represented within transcription start sites. However, the binding sites of specific transcription factors are enriched for sites of recombination. These include transcription factors that regulate the expression of meiosis- and gametogenesis-specific genes, cell cycle progression, and differentiation blockage. Additionally, our analysis identifies an enrichment for sites of recombination at repeat-derived loci matched by piwi-interacting RNAs.
Indexed as
Identifiers
What OpenQuestion holds
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.