Publications by authors named "Beifang Niu"

29Publications

RabbitQC: High-speed scalable quality control for sequencing data.

Bioinformatics 2020 Aug 13. Epub 2020 Aug 13.

School of Software, Shandong University, Jinan, China.

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http://dx.doi.org/10.1093/bioinformatics/btaa719DOI Listing
August 2020

Red Blood Cells as Potential Repositories of MicroRNAs in the Circulatory System.

Front Genet 2020 3;11:442. Epub 2020 Jun 3.

Department of Blood Transfusion, The First Medical Center, Chinese PLA General Hospital, Beijing, China.

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http://dx.doi.org/10.3389/fgene.2020.00442DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7286224PMC
June 2020

HotSpot3D web server: an integrated resource for mutation analysis in protein 3D structures.

Bioinformatics 2020 Jun;36(12):3944-3946

Computer Network Information Center, Chinese Academy of Sciences.

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http://dx.doi.org/10.1093/bioinformatics/btaa258DOI Listing
June 2020

Gclust: A Parallel Clustering Tool for Microbial Genomic Data.

Genomics Proteomics Bioinformatics 2019 10 7;17(5):496-502. Epub 2020 Jan 7.

Computer Network Information Center, Chinese Academy of Sciences, Beijing 100190, China; University of Chinese Academy of Sciences, Beijing 100190, China; Guizhou University School of Medicine, Guiyang 550025, China. Electronic address:

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http://dx.doi.org/10.1016/j.gpb.2018.10.008DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7056916PMC
October 2019

How Big Data and High-performance Computing Drive Brain Science.

Genomics Proteomics Bioinformatics 2019 08 2;17(4):381-392. Epub 2019 Dec 2.

Computer Network Information Center, Chinese Academy of Sciences, Beijing 100190, China; University of Chinese Academy of Sciences, Beijing 100190, China; Guizhou University School of Medicine, Guiyang 550025, China. Electronic address:

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http://dx.doi.org/10.1016/j.gpb.2019.09.003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6943776PMC
August 2019

ATG7 Promotes Bladder Cancer Invasion via Autophagy-Mediated Increased ARHGDIB mRNA Stability.

Adv Sci (Weinh) 2019 Apr 22;6(8):1801927. Epub 2019 Feb 22.

Department of Environmental Medicine New York University School of Medicine New York NY 10010 USA.

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http://dx.doi.org/10.1002/advs.201801927DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6468970PMC
April 2019

Pan-cancer analysis of somatic mutations across 21 neuroendocrine tumor types.

Cell Res 2018 May 5;28(5):601-604. Epub 2018 Mar 5.

Shanghai Clinical Center for Endocrine and Metabolic Diseases, Shanghai Key Laboratory for Endocrine Tumors, Rui-Jin Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai, China.

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http://dx.doi.org/10.1038/s41422-018-0019-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5951840PMC
May 2018

MetaSpark: a spark-based distributed processing tool to recruit metagenomic reads to reference genomes.

Bioinformatics 2017 04;33(7):1090-1092

Computer Network Information Center of Chinese Academy of Sciences, Beijing, China.

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http://dx.doi.org/10.1093/bioinformatics/btw750DOI Listing
April 2017

MSIsensor: microsatellite instability detection using paired tumor-normal sequence data.

Bioinformatics 2014 Apr 25;30(7):1015-6. Epub 2013 Dec 25.

Departments of Genetics and Mathematics, The Genome Institute, Department of Genetics, Division of Statistical Genomics, Department of Medicine and Siteman Cancer Center, Washington University in St. Louis, MO 63108, USA.

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https://academic.oup.com/bioinformatics/article-lookup/doi/1
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http://dx.doi.org/10.1093/bioinformatics/btt755DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3967115PMC
April 2014

CD-HIT: accelerated for clustering the next-generation sequencing data.

Bioinformatics 2012 Dec 11;28(23):3150-2. Epub 2012 Oct 11.

Center for Research in Biological Systems, University of California San Diego, La Jolla, CA 92093, USA.

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https://academic.oup.com/bioinformatics/article-lookup/doi/1
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http://dx.doi.org/10.1093/bioinformatics/bts565DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3516142PMC
December 2012

MGAviewer: a desktop visualization tool for analysis of metagenomics alignment data.

Bioinformatics 2013 Jan 8;29(1):122-3. Epub 2012 Oct 8.

Center for Research in Biological Systems, University of California San Diego, La Jolla, CA 92093, USA.

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http://dx.doi.org/10.1093/bioinformatics/bts567DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3530914PMC
January 2013

Ultrafast clustering algorithms for metagenomic sequence analysis.

Brief Bioinform 2012 Nov 6;13(6):656-68. Epub 2012 Jul 6.

Center for Research in Biological Systems, University of California San Diego, USA.

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https://academic.oup.com/bib/article-lookup/doi/10.1093/bib/
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http://dx.doi.org/10.1093/bib/bbs035DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3504929PMC
November 2012

WebMGA: a customizable web server for fast metagenomic sequence analysis.

BMC Genomics 2011 Sep 7;12:444. Epub 2011 Sep 7.

Center for Research in Biological Systems, University of California San Diego, La Jolla, California 92093, USA.

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http://dx.doi.org/10.1186/1471-2164-12-444DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3180703PMC
September 2011

FR-HIT, a very fast program to recruit metagenomic reads to homologous reference genomes.

Bioinformatics 2011 Jun 19;27(12):1704-5. Epub 2011 Apr 19.

Center for Research in Biological Systems, University of California San Diego, La Jolla, CA, USA.

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http://dx.doi.org/10.1093/bioinformatics/btr252DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3106194PMC
June 2011

Artificial and natural duplicates in pyrosequencing reads of metagenomic data.

BMC Bioinformatics 2010 Apr 13;11:187. Epub 2010 Apr 13.

California Institute for Telecommunications and Information Technology, University of California San Diego, La Jolla, California 92093, USA.

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http://dx.doi.org/10.1186/1471-2105-11-187DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2874554PMC
April 2010

CD-HIT Suite: a web server for clustering and comparing biological sequences.

Bioinformatics 2010 Mar 6;26(5):680-2. Epub 2010 Jan 6.

California Institute for Telecommunications and Information Technology, University of California San Diego, La Jolla, CA, USA.

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http://dx.doi.org/10.1093/bioinformatics/btq003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2828112PMC
March 2010