ReviewNature reviews. Genetics2013
Sequence assembly demystified.
Review in Nature reviews. Genetics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 192 papers, 1 of them a synthesis that pooled it.
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
192 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Vertical lossless genomic data compression tools for assembled genomes: A systematic literature review.PloS one · 2020Pooled it
- Review
- LORA: a polymorphic multi-sample long read assembly pipeline.NAR genomics and bioinformatics · 2026Article
- GapSense: Similarity Estimation-Based Gap Filler with TGS-Reads for Genome Assemblies.Interdisciplinary sciences, computational life sciences · 2026Article
- From contiguity to accuracy: Validation-centered perspectives on bacterial genome assembly.Journal of microbiology (Seoul, Korea) · 2026Review
- Mitogenome characteristics of two Tetragonula stingless bees (Hymenoptera: Apidae) from Hainan, China.Journal of insect science (Online) · 2026Article
- Interpreting antimicrobial resistance from bacterial whole-genome sequencing: prediction tools, database fragmentation, analytical trade-offs, and harmonized reporting.Frontiers in microbiology · 2026Review
- From fragmentation to resolution: high-fidelity genome assembly of zancudomyces culisetae through comparative insights from PacBio, Nanopore, and Illumina sequencing.G3 (Bethesda, Md.) · 2025Article
- Advance in the assembly of the plant mitochondrial genomes using high-throughput DNA sequencing data of total cellular DNAs.Plant biotechnology journal · 2025Review
- Prior knowledge on context-driven DNA fragmentation probabilities can improve de novo genome assembly algorithms.BMC bioinformatics · 2025Article
- Leveraging illumina iSeq100 for whole genome sequencing of Salmonella Typhi for a resource-limited setting.Scientific reports · 2025Article
- KPop: accurate and scalable comparative analysis of microbial genomes by sequence embeddings.Genome biology · 2025Article
- CloseRead: a tool for assessing assembly errors in immunoglobulin loci applied to vertebrate long-read genome assemblies.Genome biology · 2025Article
- Nodules-associated Klebsiella oxytoca complex: genomic insights into plant growth promotion and health risk assessment.BMC microbiology · 2025Article
- The Role of Artificial Intelligence and Machine Learning Models in Antimicrobial Stewardship in Public Health: A Narrative Review.Antibiotics (Basel, Switzerland) · 2025Review
- Gut metatranscriptomics based de novo assembly reveals microbial signatures predicting immunotherapy outcomes in non-small cell lung cancer.Journal of translational medicine · 2024Article
- Data-Driven Approaches in Antimicrobial Resistance: Machine Learning Solutions.Antibiotics (Basel, Switzerland) · 2024Article
- MHConstructor: a high-throughput, haplotype-informed solution to the MHC assembly challenge.Genome biology · 2024Article
- Hybrid assembly and comparative genomics unveil insights into the evolution and biology of the red-legged partridge.Scientific reports · 2024Article
- ULTRA-Effective Labeling of Repetitive Genomic Sequence.bioRxiv : the preprint server for biology · 2024Article
132 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
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Advances in sequencing technologies and increased access to sequencing services have led to renewed interest in sequence and genome assembly. Concurrently, new applications for sequencing have emerged, including gene expression analysis, discovery of genomic variants and metagenomics, and each of these has different needs and challenges in terms of assembly. We survey the theoretical foundations that underlie modern assembly and highlight the options and practical trade-offs that need to be considered, focusing on how individual features address the needs of specific applications. We also review key software and the interplay between experimental design and efficacy of assembly.
Indexed as
Identifiers
23358380What 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.