美国国立医学图书馆生物信息学数据库（NCBI BLAST）中被误解的参数影响生物信息学工作流程的正确性。 - Suppr

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Misunderstood parameter of NCBI BLAST impacts the correctness of bioinformatics workflows.

作者信息

Shah Nidhi, Nute Michael G, Warnow Tandy, Pop Mihai

机构信息

Department of Computer Science, University of Maryland College Park, MD, USA.

Department of Statistics, University of Illinois Urbana-Champaign, Champaign, IL, USA.

出版信息

Bioinformatics. 2019 May 1;35(9):1613-1614. doi: 10.1093/bioinformatics/bty833.

DOI:10.1093/bioinformatics/bty833

PMID:30247621

Abstract

摘要

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Misunderstood parameter of NCBI BLAST impacts the correctness of bioinformatics workflows.

作者信息

Shah Nidhi, Nute Michael G, Warnow Tandy, Pop Mihai

机构信息

Department of Computer Science, University of Maryland College Park, MD, USA.

Department of Statistics, University of Illinois Urbana-Champaign, Champaign, IL, USA.

出版信息

Bioinformatics. 2019 May 1;35(9):1613-1614. doi: 10.1093/bioinformatics/bty833.

DOI:10.1093/bioinformatics/bty833

PMID:30247621

Abstract

摘要

相似文献

Misunderstood parameter of NCBI BLAST impacts the correctness of bioinformatics workflows.

Bioinformatics. 2019 May 1;35(9):1613-1614. doi: 10.1093/bioinformatics/bty833.

Reply to the paper: Misunderstood parameters of NCBI BLAST impacts the correctness of bioinformatics workflows.

Bioinformatics. 2019 Aug 1;35(15):2699-2700. doi: 10.1093/bioinformatics/bty1026.

Commonly misunderstood parameters of NCBI BLAST and important considerations for users.

Bioinformatics. 2019 Aug 1;35(15):2697-2698. doi: 10.1093/bioinformatics/bty1018.

Classification of bioinformatics workflows using weighted versions of partitioning and hierarchical clustering algorithms.

BMC Bioinformatics. 2015 Mar 3;16:68. doi: 10.1186/s12859-015-0508-1.

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BMC Bioinformatics. 2005 Apr 7;6:87. doi: 10.1186/1471-2105-6-87.

Biowep: a workflow enactment portal for bioinformatics applications.

BMC Bioinformatics. 2007 Mar 8;8 Suppl 1(Suppl 1):S19. doi: 10.1186/1471-2105-8-S1-S19.

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Bioinformatics. 2018 Nov 15;34(22):3917-3920. doi: 10.1093/bioinformatics/bty439.

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J Biomed Inform. 2015 Aug;56:239-64. doi: 10.1016/j.jbi.2015.05.014. Epub 2015 Jun 14.

Using BLAST for performing sequence alignment.

Curr Protoc Hum Genet. 2007 Jan;Chapter 6:Unit 6.8. doi: 10.1002/0471142905.hg0608s52.

Managing Complex Workflows in Bioinformatics: An Interactive Toolkit With GPU Acceleration.

IEEE Trans Nanobioscience. 2018 Jul;17(3):199-208. doi: 10.1109/TNB.2018.2837122. Epub 2018 May 16.

引用本文的文献

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Appl Plant Sci. 2025 Jun 3;13(4):e70009. doi: 10.1002/aps3.70009. eCollection 2025 Jul-Aug.

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PhytoKeys. 2025 Jan 16;251:87-118. doi: 10.3897/phytokeys.251.136373. eCollection 2025.

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bioRxiv. 2023 Sep 11:2023.09.08.556703. doi: 10.1101/2023.09.08.556703.

No evidence that mutations in SARS-CoV-2 variants of concern derive from homologous fragments in gut microbiota.

J Virol. 2024 Dec 17;98(12):e0146824. doi: 10.1128/jvi.01468-24. Epub 2024 Nov 4.

Identification of non-model mammal species using the MinION DNA sequencer from Oxford Nanopore.

PeerJ. 2024 Sep 25;12:e17887. doi: 10.7717/peerj.17887. eCollection 2024.

SigAlign: an alignment algorithm guided by explicit similarity criteria.

Nucleic Acids Res. 2024 Aug 27;52(15):8717-8733. doi: 10.1093/nar/gkae607.

Genome-wide identification, stress- and hormone-responsive expression characteristics, and regulatory pattern analysis of Scutellaria baicalensis SbSPLs.

Plant Mol Biol. 2024 Feb 16;114(2):20. doi: 10.1007/s11103-023-01410-z.

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G3 (Bethesda). 2023 Jul 5;13(7). doi: 10.1093/g3journal/jkad098.