On the public citation graph

MECAT: an ultra-fast mapping, error correction and de novo assembly tool for single-molecule sequencing reads

https://doi.org/10.1101/089250
0 signed · 76 inferred · view as graph

Inferred edges come from two machine sources: sweeps of open repository metadata (mostly SSRN and Zenodo), and a bulk OpenAlex citation snapshot. Every row below is labelled with the one it came from. Neither is a complete citation index — absence here is not evidence of absence.

Is this your work? Sign in with ORCID and put your name on the claims that are yours.
Claim with ORCID
Reference health. See whether every reference in this work resolves to a known work and none has been retracted — and get a dated CiteStamped badge you can embed.
See reference health

What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1007/978-3-662-44753-6_5openalex-snapshot
Efficient Local Alignment Discovery amongst Noisy Long Reads
inferredcites →https://doi.org/10.1007/bf01840446openalex-snapshot
AnO(ND) difference algorithm and its variations
inferredcites →https://doi.org/10.1016/0304-3975(92)90143-4openalex-snapshot
Approximate string-matching with q-grams and maximal matches
inferredcites →https://doi.org/10.1016/j.mib.2014.11.014openalex-snapshot
One chromosome, one contig: complete microbial genomes from long-read sequencing and assembly
inferredcites →https://doi.org/10.1016/j.ygeno.2010.03.001openalex-snapshot
Assembly algorithms for next-generation sequencing data
inferredcites →https://doi.org/10.1016/s0076-6879(10)72001-2openalex-snapshot
Real-Time DNA Sequencing from Single Polymerase Molecules
inferredcites →https://doi.org/10.1038/387s007openalex-snapshot
Overview of the yeast genome
inferredcites →https://doi.org/10.1038/42755openalex-snapshot
Erratum: Overview of the yeast genome
inferredcites →https://doi.org/10.1038/nature13907openalex-snapshot
Resolving the complexity of the human genome using single-molecule sequencing
inferredcites →https://doi.org/10.1038/nature20098openalex-snapshot
De novo assembly and phasing of a Korean human genome
inferredcites →https://doi.org/10.1038/nbt.2280openalex-snapshot
Hybrid error correction and de novo assembly of single-molecule sequencing reads
inferredcites →https://doi.org/10.1038/nbt.3238openalex-snapshot
Assembling large genomes with single-molecule sequencing and locality-sensitive hashing
inferredcites →https://doi.org/10.1038/nbt.3432openalex-snapshot
Haplotyping germline and cancer genomes with high-throughput linked-read sequencing
inferredcites →https://doi.org/10.1038/ncomms11307openalex-snapshot
Fast and sensitive mapping of nanopore sequencing reads with GraphMap
inferredcites →https://doi.org/10.1038/ng.1028openalex-snapshot
De novo assembly and genotyping of variants using colored de Bruijn graphs
inferredcites →https://doi.org/10.1038/nmeth.1527openalex-snapshot
Limitations of next-generation genome sequence assembly
inferredcites →https://doi.org/10.1038/nmeth.1923openalex-snapshot
Fast gapped-read alignment with Bowtie 2
inferredcites →https://doi.org/10.1038/nmeth.2474openalex-snapshot
Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data
inferredcites →https://doi.org/10.1038/nmeth.3290openalex-snapshot
Improved data analysis for the MinION nanopore sequencer
inferredcites →https://doi.org/10.1038/nmeth.3444openalex-snapshot
A complete bacterial genome assembled de novo using only nanopore sequencing data
inferredcites →https://doi.org/10.1038/nmeth.3865openalex-snapshot
A hybrid approach for de novo human genome sequence assembly and phasing
inferredcites →https://doi.org/10.1038/nmeth.4035openalex-snapshot
Phased diploid genome assembly with single-molecule real-time sequencing
inferredcites →https://doi.org/10.1038/nnano.2009.12openalex-snapshot
Continuous base identification for single-molecule nanopore DNA sequencing
inferredcites →https://doi.org/10.1038/nrg3367openalex-snapshot
Sequence assembly demystified
inferredcites →https://doi.org/10.1038/sdata.2014.45openalex-snapshot
Long-read, whole-genome shotgun sequence data for five model organisms
inferredcites →https://doi.org/10.1093/bioinformatics/bts649openalex-snapshot
PBSIM: PacBio reads simulator—toward accurate genome assembly
inferredcites →https://doi.org/10.1093/bioinformatics/btu392openalex-snapshot
proovread : large-scale high-accuracy PacBio correction through iterative short read consensus
inferredcites →https://doi.org/10.1093/bioinformatics/btu538openalex-snapshot
LoRDEC: accurate and efficient long read error correction
inferredcites →https://doi.org/10.1093/bioinformatics/btv688openalex-snapshot
hybrid SPA des : an algorithm for hybrid assembly of short and long reads
inferredcites →https://doi.org/10.1093/hmg/ddq416openalex-snapshot
A window into third-generation sequencing
inferredcites →https://doi.org/10.1093/nar/23.24.4992openalex-snapshot
A new DNA sequence assembly program
inferredcites →https://doi.org/10.1093/nar/gkn064openalex-snapshot
Empirical comparison of ab initio repeat finding programs
inferredcites →https://doi.org/10.1093/nar/gkn425openalex-snapshot
Substantial biases in ultra-short read data sets from high-throughput DNA sequencing
inferredcites →https://doi.org/10.1093/nar/gku210openalex-snapshot
RepARK—de novo creation of repeat libraries from whole-genome NGS reads
inferredcites →https://doi.org/10.1098/rsob.120093openalex-snapshot
The Saccharomyces cerevisiae W303-K6001 cross-platform genome sequence: insights into ancestry and physiology of a laboratory mutt
inferredcites →https://doi.org/10.1101/006395openalex-snapshot
Error correction and assembly complexity of single molecule sequencing reads
inferredcites →https://doi.org/10.1101/gr.101360.109openalex-snapshot
Assembly of large genomes using second-generation sequencing
inferredcites →https://doi.org/10.1101/gr.126599.111openalex-snapshot
Assemblathon 1: A competitive assessment of de novo short read assembly methods
inferredcites →https://doi.org/10.1101/gr.131383.111openalex-snapshot
GAGE: A critical evaluation of genome assemblies and assembly algorithms
inferredcites →https://doi.org/10.1101/gr.141515.112openalex-snapshot
Finished bacterial genomes from shotgun sequence data
inferredcites →https://doi.org/10.1101/gr.185579.114openalex-snapshot
The Release 6 reference sequence of the Drosophila melanogaster genome
inferredcites →https://doi.org/10.1101/gr.194201openalex-snapshot
SSAHA: A Fast Search Method for Large DNA Databases
inferredcites →https://doi.org/10.1101/gr.215087.116openalex-snapshot
Canu: scalable and accurate long-read assembly via adaptive k -mer weighting and repeat separation
inferredcites →https://doi.org/10.1101/gr.7.5.401openalex-snapshot
Human Whole-Genome Shotgun Sequencing
inferredcites →https://doi.org/10.1126/science.1139816openalex-snapshot
Sequence Finishing and Mapping of Drosophila melanogaster Heterochromatin
inferredcites →https://doi.org/10.1126/science.1162986openalex-snapshot
Real-Time DNA Sequencing from Single Polymerase Molecules
inferredcites →https://doi.org/10.1126/science.274.5287.546openalex-snapshot
Life with 6000 Genes
inferredcites →https://doi.org/10.1126/science.287.5461.2196openalex-snapshot
A Whole-Genome Assembly of Drosophila
inferredcites →https://doi.org/10.1126/science.aae0344openalex-snapshot
Long-read sequence assembly of the gorilla genome
inferredcites →https://doi.org/10.1186/1471-2105-11-1openalex-snapshot
Detection of gene pathways with predictive power for breast cancer prognosis
inferredcites →https://doi.org/10.1186/1471-2105-11-187openalex-snapshot
Artificial and natural duplicates in pyrosequencing reads of metagenomic data
inferredcites →https://doi.org/10.1186/1471-2105-11-21openalex-snapshot
Assembly complexity of prokaryotic genomes using short reads
inferredcites →https://doi.org/10.1186/1471-2105-13-1openalex-snapshot
GuiTope: an application for mapping random-sequence peptides to protein sequences
inferredcites →https://doi.org/10.1186/1471-2105-13-238openalex-snapshot
Mapping single molecule sequencing reads using basic local alignment with successive refinement (BLASR): application and theory
inferredcites →https://doi.org/10.1186/1471-2105-14-1openalex-snapshot
Mojo Hand, a TALEN design tool for genome editing applications
inferredcites →https://doi.org/10.1186/1471-2105-14-s5-s18openalex-snapshot
Optimal assembly for high throughput shotgun sequencing
inferredcites →https://doi.org/10.1186/2047-217x-3-1openalex-snapshot
CGtag: complete genomics toolkit and annotation in a cloud-based Galaxy
inferredcites →https://doi.org/10.1186/2047-217x-3-22openalex-snapshot
A reference bacterial genome dataset generated on the MinION™ portable single-molecule nanopore sequencer
inferredcites →https://doi.org/10.1186/gb-2002-3-12-research0084openalex-snapshot
The transposable elements of the Drosophila melanogaster euchromatin: a genomics perspective
inferredcites →https://doi.org/10.1186/gb-2002-3-2-reviews0003openalex-snapshot
Exploring prokaryotic diversity in the genomic era.
inferredcites →https://doi.org/10.1186/gb-2004-5-2-r12openalex-snapshot
Versatile and open software for comparing large genomes
inferredcites →https://doi.org/10.1186/gb-2008-9-1-r7openalex-snapshot
Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments
inferredcites →https://doi.org/10.1186/gb-2008-9-3-r55openalex-snapshot
Genome assembly forensics: finding the elusive mis-assembly
inferredcites →https://doi.org/10.1186/gb-2013-14-1-r1openalex-snapshot
Biogeography of the ecosystems of the healthy human body
inferredcites →https://doi.org/10.1186/gb-2013-14-5-r51openalex-snapshot
Characterizing and measuring bias in sequence data
inferredcites →https://doi.org/10.1186/gb-2013-14-9-r101openalex-snapshot
Reducing assembly complexity of microbial genomes with single-molecule sequencing
inferredcites →https://doi.org/10.1371/journal.pcbi.1003998openalex-snapshot
Extensive Error in the Number of Genes Inferred from Draft Genome Assemblies
inferredcites →https://doi.org/10.1371/journal.pone.0046679openalex-snapshot
Improving PacBio Long Read Accuracy by Short Read Alignment
inferredcites →https://doi.org/10.2217/pgs.12.72openalex-snapshot
Next-Generation Sequencing and Large Genome Assemblies
inferredcites →https://doi.org/10.6084/m9.figshare.963153.v1openalex-snapshot
Aligning sequence reads, clone sequences and assembly con*gs with BWA-MEM

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1007/978-1-4939-8724-5_13openalex-snapshot
From Short Reads to Chromosome-Scale Genome Assemblies
inferred← citeshttps://doi.org/10.1007/s40484-019-0166-9openalex-snapshot
Current challenges and solutions of de novo assembly
inferred← citeshttps://doi.org/10.1038/s41592-019-0669-3openalex-snapshot
Fast and accurate long-read assembly with wtdbg2
inferred← citeshttps://doi.org/10.1101/2020.02.01.930107openalex-snapshot
Fast and accurate assembly of Nanopore reads via progressive error correction and adaptive read selection
inferred← citeshttps://doi.org/10.3389/fmicb.2022.855666openalex-snapshot
Full-Length Genome of an Ogataea polymorpha Strain CBS4732 ura3Δ Reveals Large Duplicated Segments in Subtelomeric Regions
inferred← citeshttps://doi.org/10.3390/genes10010044openalex-snapshot
A Sequence-Based Novel Approach for Quality Evaluation of Third-Generation Sequencing Reads
Editorial review for independent work. ICSAC — the Institute for Complexity Science and Advanced Computing — runs a structured editorial panel for researchers publishing outside journals, and publishes on CiteStamp rails. Submission is free and goes through ORCID: icsacinstitute.org/submit.