Yuji Zhang. Ph.D.
Yuji Zhang. Ph.D.
Associate Professor, The University of Maryland Greenebaum Comprehensive Cancer Center
Verified email at som.umaryland.edu - Homepage
Title
Cited by
Cited by
Year
Calculating sample size estimates for RNA sequencing data
SN Hart, TM Therneau, Y Zhang, GA Poland, JP Kocher
Journal of computational biology 20 (12), 970-978, 2013
1512013
APOBEC3B upregulation and genomic mutation patterns in serous ovarian carcinoma
B Leonard, SN Hart, MB Burns, MA Carpenter, NA Temiz, A Rathore, ...
Cancer research 73 (24), 7222-7231, 2013
1242013
TREAT: a bioinformatics tool for variant annotations and visualizations in targeted and exome sequencing data
YW Asmann, S Middha, A Hossain, S Baheti, Y Li, HS Chai, Z Sun, ...
Bioinformatics 28 (2), 277-278, 2011
662011
MACE: model based analysis of ChIP-exo
L Wang, J Chen, C Wang, L Uusküla-Reimand, K Chen, A Medina-Rivera, ...
Nucleic acids research 42 (20), e156-e156, 2014
562014
Induction of an inflammatory loop by interleukin-1β and tumor necrosis factor-α involves NF-kB and STAT-1 in differentiated human neuroprogenitor cells
S Pugazhenthi, Y Zhang, R Bouchard, G Mahaffey
PloS one 8 (7), e69585, 2013
562013
Regulation of c-Myc expression by the histone demethylase JMJD1A is essential for prostate cancer cell growth and survival
L Fan, G Peng, N Sahgal, L Fazli, M Gleave, Y Zhang, A Hussain, J Qi
Oncogene 35 (19), 2441, 2016
552016
Cardiac transcriptome and dilated cardiomyopathy genes in zebrafish
YH Shih, Y Zhang, Y Ding, CA Ross, H Li, TM Olson, X Xu
Circulation: Cardiovascular Genetics 8 (2), 261-269, 2015
542015
Reverse engineering module networks by PSO-RNN hybrid modeling
Y Zhang, J Xuan, BG de los Reyes, R Clarke, HW Ressom
BMC genomics 10 (1), S15, 2009
462009
Identification of candidate genes for prostate cancer-risk SNPs utilizing a normal prostate tissue eQTL data set
SN Thibodeau, AJ French, SK McDonnell, J Cheville, S Middha, ...
Nature communications 6, 8653, 2015
442015
SAAP-RRBS: streamlined analysis and annotation pipeline for reduced representation bisulfite sequencing
Z Sun, S Baheti, S Middha, R Kanwar, Y Zhang, X Li, AS Beutler, E Klee, ...
Bioinformatics 28 (16), 2180-2181, 2012
442012
Network motif-based identification of transcription factor-target gene relationships by integrating multi-source biological data
Y Zhang, J Xuan, BG de los Reyes, R Clarke, HW Ressom
BMC bioinformatics 9 (1), 203, 2008
402008
Network motif-based identification of breast cancer susceptibility genes
Y Zhang, J Xuan, G Benilo, R Clarke, HW Ressom
2008 30th Annual International Conference of the IEEE Engineering in …, 2008
312008
Inference of gene regulatory networks from time course gene expression data using neural networks and swarm intelligence
HW Ressom, Y Zhang, J Xuan, Y Wang, R Clarke
2006 IEEE Symposium on Computational Intelligence and Bioinformatics and …, 2006
302006
Network-based analysis reveals distinct association patterns in a semantic MEDLINE-based drug-disease-gene network
Y Zhang, C Tao, G Jiang, AA Nair, J Su, CG Chute, H Liu
Journal of biomedical semantics 5 (1), 33, 2014
282014
Research Resource: Whole Transcriptome RNA Sequencing Detects Multiple 1α,25-Dihydroxyvitamin D3-Sensitive Metabolic Pathways in Developing Zebrafish
TA Craig, Y Zhang, MS McNulty, S Middha, H Ketha, RJ Singh, AT Magis, ...
Molecular endocrinology 26 (9), 1630-1642, 2012
272012
Identification of aberrant pathways and network activities from high-throughput data
J Wang, Y Zhang, C Marian, HW Ressom
Briefings in Bioinformatics, 2012
272012
Impact of library preparation on downstream analysis and interpretation of RNA-Seq data: comparison between Illumina PolyA and NuGEN Ovation protocol
Z Sun, YW Asmann, A Nair, Y Zhang, L Wang, KR Kalari, AV Bhagwate, ...
PloS one 8 (8), e71745, 2013
212013
Network-based analysis of vaccine-related associations reveals consistent knowledge with the vaccine ontology
Y Zhang, C Tao, Y He, P Kanjamala, H Liu
Journal of biomedical semantics 4 (1), 33, 2013
202013
Reconstruction of gene regulatory modules in cancer cell cycle by multi-source data integration
Y Zhang, J Xuan, G Benildo, R Clarke, HW Ressom
PLoS One 5 (4), e10268, 2010
192010
Module-based breast cancer classification
Y Zhang, J Xuan, R Clarke, HW Ressom
International journal of data mining and bioinformatics 7 (3), 284, 2013
162013
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