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Paper · 18660515

Substantial biases in ultra-short read data sets from high-throughput DNA sequencing.

Dohm JC and 3 others. Nucleic Acids Res, 2008. Cited by 759 papers, by iCite.

11 sourcespapers-2026-11-12-0.1.0

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ConductScience Library. Substantial biases in ultra-short read data sets from high-throughput DNA sequencing. Papers, record 18660515. Release papers-2026-11-12-0.1.0, 12 Nov 2026. https://conductscience.org/library/papers/18660515

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Paper

PubMed's record of the paper, with iCite's citation figures. No abstract is shown.

Title
Substantial biases in ultra-short read data sets from high-throughput DNA sequencing.
PubMed
Journal
Nucleic Acids Res
PubMed
Year
2008
PubMed
Publication types
Evaluation Study, Journal Article
PubMed
Citations, by iCite
759
iCite
Relative citation ratio, by iCite
15.4
iCite
Revised in PubMed
2022-05-24
PubMed

Authors4

The authors in the order PubMed's record lists them, with the ORCID iDs it states.

OrderAuthorForenameKindORCID iD
1Dohm JCJuliane C
2Lottaz CClaudio
3Borodina TTatiana
4Himmelbauer HHeinz

Source PubMed

Topics7

NLM's MeSH indexing of the paper, its major topics first.

MeSH termMajor
Sequence Analysis, DNAMajor topic
Base Composition
Beta vulgaris
DNA
Helicobacter
Sequence Deletion
Software

Source PubMed

Grants0

Each grant PubMed's record writes, matched to the NIH project NIH's grant and paper links name for this paper, and each of those links the record does not write.

None in this release.

Trials0

The trials whose ClinicalTrials.gov record lists the paper, and the trial numbers the paper's PubMed record names.

None in this release.

Comments and corrections0

PubMed's comments and corrections, NLM's own indexing: retractions first, then expressions of concern, errata and updates, and comments last.

None in this release.

References20

The papers the reference list in PubMed's record names, those in our copy of PubMed, in the list's order.

OrderPMIDTitleJournalYearIn PapersSource
116,840,527Sequence biases in large scale gene expression profiling data.Nucleic Acids Res2006https://conductscience.org/library/papers/16840527PubMed
23,472,723Specific enzymatic amplification of DNA in vitro: the polymerase chain reaction.Cold Spring Harb Symp Quant Biol1986https://conductscience.org/library/papers/3472723PubMed
311,410,683Identification and prevention of a GC content bias in SAGE libraries.Nucleic Acids Res2001https://conductscience.org/library/papers/11410683PubMed
47,753,634PCR bias in amplification of androgen receptor alleles, a trinucleotide repeat marker used in clonality studies.Nucleic Acids Res1995https://conductscience.org/library/papers/7753634PubMed
516,840,528Multiplex sequencing of paired-end ditags (MS-PET): a strategy for the ultra-high-throughput analysis of transcriptomes and genomes.Nucleic Acids Res2006https://conductscience.org/library/papers/16840528PubMed
616,789,826Who ate whom? Adaptive Helicobacter genomic changes that accompanied a host jump from early humans to large felines.PLoS Genet2006https://conductscience.org/library/papers/16789826PubMed
717,659,080Accuracy and quality of massively parallel DNA pyrosequencing.Genome Biol2007https://conductscience.org/library/papers/17659080PubMed
817,556,586Polony multiplex analysis of gene expression (PMAGE) in mouse hypertrophic cardiomyopathy.Science2007https://conductscience.org/library/papers/17556586PubMed
917,062,153Sequencing Medicago truncatula expressed sequenced tags using 454 Life Sciences technology.BMC Genomics2006https://conductscience.org/library/papers/17062153PubMed
10271,968DNA sequencing with chain-terminating inhibitors.Proc Natl Acad Sci U S A1977https://conductscience.org/library/papers/271968PubMed

1 to 10 of 20

See all 20 references

Cited by579

The papers in our copy of PubMed whose reference list names this one, newest first. iCite, which reads more sources, counts 759 citations.

PMIDTitleJournalYearIn PapersSource
42,696,744Improving Long-Read Somatic Structural Variant Calling with Pangenome and De Novo Personal Genome Assembly.Cancer Res Commun2026https://conductscience.org/library/papers/42696744PubMed
42,349,238Comparison of nanopore sequencing, MethylationEPIC array, and EM-Seq for DNA methylation detection.Comput Biol Chem2026https://conductscience.org/library/papers/42349238PubMed
42,153,723Comparison of a long-read amplicon sequencing approach to short-read amplicons for microbiome analysis.Microbiol Spectr2026https://conductscience.org/library/papers/42153723PubMed
42,057,709Pervasive suppressors halt the spread of selfish Segregation Distorter in a natural population.Genetics2026https://conductscience.org/library/papers/42057709PubMed
41,951,678De-novo assembly of 82 bacterial genomes using Nanopore sequencing and prediction of biosynthetic capacity.Sci Data2026https://conductscience.org/library/papers/41951678PubMed
41,691,043A practical guide to targeted single-cell RNA sequencing technologies.Commun Biol2026https://conductscience.org/library/papers/41691043PubMed
41,488,053Methods for telomere length measurement: an update on current technologies and emerging approaches.Front Mol Biosci2025https://conductscience.org/library/papers/41488053PubMed
41,365,900Hierarchical core-shell DNA condensates enable programmable information storage and encryption.Nat Commun2025https://conductscience.org/library/papers/41365900PubMed
41,298,355Genomic GC bias correction improves species abundance estimation from metagenomic data.Nat Commun2025https://conductscience.org/library/papers/41298355PubMed
41,279,411Improving long-read somatic structural variant calling with pangenome and de novo personal genome assembly.bioRxiv2025https://conductscience.org/library/papers/41279411PubMed

1 to 10 of 579

See all 579 cited by

Genes0

The genes the Gene search release ties to the paper: Swiss-Prot's references first, then PubTator's text mining.

None in this release.

Drugs0

The drugs whose trials, in the Pipelines release, list the paper.

None in this release.

Data0

The data bank entries PubMed's record names. Trial numbers are under Trials.

None in this release.

Data dates

The date of each source this release read.

PubMed
2026-11-06
PubMed
iCite
2026-11-05
iCite
PMC's ID file
2026-11-05
PMC's ID file
NIH RePORTER's grant and paper links
2026-11-01
NIH RePORTER's grant and paper links
Trials
2026-11-12
Gene search
2026-11-11
Pipelines
2026-09-18

Sources 11

  • ChEMBL, through Open TargetsCC BY-SA 3.0
  • ClinicalTrials.govNo license stated
  • HGNCCC0
  • iCiteCC BY 4.0
  • NCBI GenePublic domain (US government)
  • NIH RePORTER's grant and paper linksPublic domain
  • Open TargetsCC0 1.0
  • PMC's ID filePublic domain (US government)
  • PubMedNLM's terms
  • PubTator 3Public domain
  • UniProtCC BY 4.0
Each source's terms
  • ChEMBL, through Open TargetsCC BY-SA 3.0, for the parts from ChEMBL. Read on 8 Nov 2026 at https://platform-docs.opentargets.org/licence
  • ClinicalTrials.govnone stated
  • HGNCCC0: https://www.genenames.org/about/license/
  • iCiteCC BY 4.0
  • NCBI GeneNone named for the file. NCBI says information created by or for the US government on its site is in the public domain, and asks that NLM be acknowledged: https://www.ncbi.nlm.nih.gov/home/about/policies/
  • NIH RePORTER's grant and paper linksPublic domain (NIH RePORTER)
  • Open TargetsCC0 1.0. Open Targets asks that users cite its latest paper: Buniello et al. 2025, Open Targets Platform: facilitating therapeutic hypotheses building in drug discovery, Nucleic Acids Research 53(D1):D1467, PMID 39657122. Read on 8 Nov 2026 at https://platform-docs.opentargets.org/licence
  • PMC's ID fileNone named for the file. NCBI says information created by or for the US government on its site is in the public domain, and asks that NLM be acknowledged: https://www.ncbi.nlm.nih.gov/home/about/policies/
  • PubMedNLM's terms
  • PubTator 3Public domain
  • UniProtCC BY 4.0. UniProt's licence file: "All databases and documents in the UniProt FTP directory may be copied and redistributed freely, without advance permission, provided that this copyright statement is reproduced with each copy." UniProt asks that users cite its latest paper: The UniProt Consortium, UniProt: the Universal Protein Knowledgebase in 2025, Nucleic Acids Research 53:D609-D617, https://doi.org/10.1093/nar/gkae1010. Read on 9 Nov 2026 at https://www.uniprot.org/help/license

ClinicalTrials.gov's data carry an international copyright outside the United States: https://clinicaltrials.gov/about-site/terms-conditions.

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