Beifang Niu

发表

Comparative genomic and transcriptomic analyses uncover the molecular basis of high nitrogen use efficiency in the wheat cultivar Kenong 9204.

B. Niu, Bin Ma, Chengzhi Liang, 2022, Molecular plant.

Comprehensive molecular characterization of gastric adenocarcinoma

Steven J. M. Jones, Benjamin J. Raphael, Mark D. M. Leiserson, 2014, Nature.

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

Zhengwei Zhu, Sitao Wu, Limin Fu, 2012, Bioinform..

Ultrafast clustering algorithms for metagenomic sequence analysis

John C. Wooley, Sitao Wu, Beifang Niu, 2012, Briefings Bioinform..

Bioinformatics Applications Note Sequence Analysis Cd-hit Suite: a Web Server for Clustering and Comparing Biological Sequences

Ying Gao, Ying Huang, Limin Fu, 2022 .

Multiplatform Analysis of 12 Cancer Types Reveals Molecular Classification within and across Tissues of Origin

Benjamin J. Raphael, Joshua M. Stuart, Adam A. Margolin, 2014, Cell.

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

L. Ding, M. McLellan, M. Wendl, 2014, Bioinform..

Mutational landscape and significance across 12 major cancer types

Benjamin J. Raphael, Joshua F. McMichael, Christopher A. Miller, 2013, Nature.

Patterns and functional implications of rare germline variants across 12 cancer types

Li Ding, Benjamin J Raphael, Benjamin J. Raphael, 2015, Nature Communications.

Pan-Cancer Network Analysis Identifies Combinations of Rare Somatic Mutations across Pathways and Protein Complexes

Benjamin J. Raphael, Mark D. M. Leiserson, Gregory A. Ryslik, 2014, Nature Genetics.

Patterns of somatic structural variation in human cancer genomes

Nuno A. Fonseca, Gary D Bader, Benjamin J. Raphael, 2020, Nature.

Comprehensive review and evaluation of computational methods for identifying FLT3-internal tandem duplication in acute myeloid leukaemia

Ruilin Li, Beifang Niu, Haijing Luan, 2021, Briefings Bioinform..

Corrigendum: Proteogenomic integration reveals therapeutic targets in breast cancer xenografts

Sam Q. Sun, Adam D. Scott, Matthew A. Wyczalkowski, 2017, Nature Communications.

Proteogenomic integration reveals therapeutic targets in breast cancer xenografts

Li Ding, David Fenyö, Jason M Held, 2017, Nature Communications.

How Big Data and High-performance Computing Drive Brain Science

Haidong Zhu, Dan Zhao, Xuebin Chi, 2019, Genom. Proteom. Bioinform..

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

B. Niu, Jingxia Li, Chuanshu Huang, 2019, Advanced science.

Divergent viral presentation among human tumors and adjacent normal tissues

Matthew A. Wyczalkowski, Kimberly J. Johnson, L. Ding, 2016, Scientific Reports.

Gclust: A Parallel Clustering Tool for Microbial Genomic Data

Haidong Zhu, Dan Zhao, Rong He, 2019, Genom. Proteom. Bioinform..

Artificial and natural duplicates in pyrosequencing reads of metagenomic data

Limin Fu, Beifang Niu, Shulei Sun, 2010, BMC Bioinformatics.

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

B. Niu, Deqing Wang, Yang Yu, 2020, Frontiers in Genetics.

Protein-structure-guided discovery of functional mutations across 19 cancer types

Li Ding, Feng Chen, Michael C Wendl, 2016, Nature Genetics.

WebMGA: a customizable web server for fast metagenomic sequence analysis

Sitao Wu, Zhengwei Zhu, L. Fu, 2011, BMC Genomics.

Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples

Nuno A. Fonseca, Gary D Bader, Benjamin J. Raphael, 2020, Nature Communications.

Systematic Discovery of Complex Indels in Human Cancers

Joshua F. McMichael, Adam D. Scott, M. McLellan, 2015, Nature medicine.

Comprehensive fundamental somatic variant calling and quality management strategies for human cancer genomes

Danyang Yuan, Beifang Niu, Xiaohong Duan, 2020, Briefings Bioinform..

Prognostic Roles of ceRNA Network-Based Signatures in Gastrointestinal Cancers

B. Niu, Bairong Shen, Jiajia Chen, 2022, Frontiers in Oncology.

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

Zhengwei Zhu, Sitao Wu, Limin Fu, 2011, Bioinform..

RabbitTClust: enabling fast clustering analysis of millions of bacteria genomes with MinHash sketches

B. Schmidt, B. Niu, Weiguo Liu, 2022, bioRxiv.

GenomeVIP: a cloud platform for genomic variant discovery and interpretation

Benjamin J. Raphael, Adam D. Scott, Matthew A. Wyczalkowski, 2017, Genome research.