ArticleNatural computing2022
Computational graph pangenomics: a tutorial on data structures and their applications.
Article in Natural computing, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 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
28 citing papers in PubMed, 65 citations in OpenAlex.
- De Bruijn graphs for pangenomics: in-depth performance benchmarking of de Bruijn graph-based tools for read mapping.Briefings in bioinformatics · 2026Article
- Approaches to Studying Viral Pangenome Variation Graphs.Genomics, proteomics & bioinformatics · 2026Review
- Using pangenome variation graphs to improve mutation detection in a large DNA virus.Microbial genomics · 2026Article
- Pattern matching with Elastic-Degenerate strings and Elastic-Founder graphs.Algorithms for molecular biology : AMB · 2026Article
- Article
- Pangenome-based genome inference using integer programming.Genome research · 2025Article
- Panaln: indexing pangenome for read alignment.Bioinformatics (Oxford, England) · 2025Article
- Exploiting uniqueness: seed-chain-extend alignment on elastic founder graphs.Bioinformatics (Oxford, England) · 2025Article
- Pairwise graph edit distance characterizes the impact of the construction method on pangenome graphs.Bioinformatics (Oxford, England) · 2025Article
- AlfaPang: alignment free algorithm for pangenome graph construction.Algorithms for molecular biology : AMB · 2025Article
- Generating multiple alignments on a pangenomic scale.Bioinformatics (Oxford, England) · 2025Article
- Haplotype Matching with GBWT for Pangenome Graphs.bioRxiv : the preprint server for biology · 2025Article
- Algorithms for Short-Read Viral Haplotype Reconstruction: Challenges, Solutions, and Perspectives.Methods in molecular biology (Clifton, N.J.) · 2025Review
- Differential quantification of alternative splicing events on spliced pangenome graphs.PLoS computational biology · 2024Article
- PangeBlocks: customized construction of pangenome graphs via maximal blocks.BMC bioinformatics · 2024Article
- Constructing and personalizing population pangenome graphs.Nature methods · 2024Article
- Integer programming framework for pangenome-based genome inference.bioRxiv : the preprint server for biology · 2024Article
- When less is more: sketching with minimizers in genomics.Genome biology · 2024Review
- Seven quick tips for gene-focused computational pangenomic analysis.BioData mining · 2024Article
- RecGraph: recombination-aware alignment of sequences to variation graphs.Bioinformatics (Oxford, England) · 2024Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
7 authors at 4 institutions in 3 countries.
Funding
Abstract
Computational pangenomics is an emerging research field that is changing the way computer scientists are facing challenges in biological sequence analysis. In past decades, contributions from combinatorics, stringology, graph theory and data structures were essential in the development of a plethora of software tools for the analysis of the human genome. These tools allowed computational biologists to approach ambitious projects at population scale, such as the 1000 Genomes Project. A major contribution of the 1000 Genomes Project is the characterization of a broad spectrum of genetic variations in the human genome, including the discovery of novel variations in the South Asian, African and European populations-thus enhancing the catalogue of variability within the reference genome. Currently, the need to take into account the high variability in population genomes as well as the specificity of an individual genome in a personalized approach to medicine is rapidly pushing the abandonment of the traditional paradigm of using a single reference genome. A graph-based representation of multiple genomes, or
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.