SELECTED PUBLICATIONS

 Books 

Edwin Wang (ed), Cancer Systems Biology, CRC Press, 2010(The first book of the cancer systems biology field), In AmazonCRC PressWikiGoogle Book 

Selected Research Articles

Shanwu Gao, Chabane Tibiche, Jinfeng Zou, Naif Zaman, Mark Trifiro, Maureen O?Connor-McCourt, and Edwin Wang, Identification and Construction of Combinatory Cancer Hallmark-Based Gene Signature Sets to Predict Recurrence and Chemotherapy Benefit in Stage II Colorectal Cancer, JAMA Oncology2:37-45, 2016,  on-lineSupplemental Materials  (JAMA, NEJM and Lancet are the 3 top clinical journals)Reuters NewsPMID: 26502222

Zaman N. . Edwin Wang, Signaling network assessment of mutations and copy number variations predict breast cancer subtype-specific drug targets, Cell Reports (a new Cell sister journal), 5:216-223, 2013, Paper in Cell Press, PMID: 24075989 

Li L., Fu C., Tibiche C., Kaneko T., Schiller M., Li S., Wang, EdwinThe human phosphotyrosine signaling network: evolution and hotspots of hijacking in cancer, Genome Research, 22:1222-30, 2012, Paper in Genome ResHighlighted in 7th Annual RECOMB Systems Biology, 2011, PMID: 22194470

 Li. J., Lenferink, AE., Cantin, C., Purisima EO., O'Connor-McCourt, MD., and Edwin Wang, Identification of high quality cancer prognostic markers and metastasis network modules, Nature Communications1:34, 2010, Paper in Nature Communications. GEN's Tech Tips: Protein Biomarker Discovery, 2010. Commentary,NRC HighlightsPMID: 20975711

Cui Q, Ma Y, Jaramillo M, Bari H, Awan A, Yang S, Zhang S, Liu L, Lu M, O'Connor-McCourt M, Purisima EO, Edwin Wang, A map of human cancer signaling, (Nature/EMBO) Molecular Systems Biology3:152, 2007, Paper in Molecular Systems Biology (MSB)Highlighted in Genome Technology Magazine (PDF),  Highlight Track in 16th International Conference of ISMB, 2008, NRC Highlights PMID:16969338

Cui Q, Yu Z, Purisima EO, Wang Edwin, MicroRNA regulation and cross-species variation of gene expression, Trends Genet.23:372-375, 2007, PDFPaper in Cell Press

Cui Q, Yu Z, Purisima EO, Wang Edwin, Principles of microRNA regulation of a human cellular signaling network, (Nature/EMBO) Molecular Systems Biology, 2:46, 2006Paper in Molecular Systems Biology (MSB) PMID:16969338

Edwin Wang*, Purisima E., Network motifs are enriched with transcription factors whose transcripts have short half-lives, Trends Genet. 21:492-495, 2005, PDFPaper in Cell Press 

Selected Visionary Essays 

Edwin Wang* et al., Predictive Genomics: A cancer hallmark network framework for predicting tumor clinical phenotypes using genome sequencing data, Seminars in Cancer Biology (Invited review), 2014, PDF, PMID: 24747696

Edwin Wang* et al., Cancer systems biology in the genome sequencing era: Part 1, dissecting and modeling of tumor clones and their networks, Seminars in Cancer Biology (Invited Review), 23:279-285,2013, PDF, PMID: 23791722 

Edwin Wang* et al., Cancer systems biology in the genome sequencing era: Part 2, evolutionary dynamics of tumor clonal networks and drug resistance, Seminars in Cancer Biology (Invited Review), 23:286-292,2013, PDF, PMID: 23792107 

Edwin Wang, A roadmap of cancer systems biology, In Edwin Wang (ed), Cancer Systems Biology, CRC Press, 2010, PDFNature Precedings, 2010 

 More Publications

Research Articles and Reviews 

Zou and Wang, eTumorRisk, an algorithm predicts cancer risk based on co-mutated gene networks in an individual's germline genome, doi: https://doi.org/10.1101/393090, 2018, paper online 

Milanese et al., Germline genomic landscapes of breast cancer patients predict clinical outcomes,     doi: https://doi.org/10.1101/312355, 2018, paper online  

Milanese et al., eTumorMetastatsis, a network-based algorithm predicts clinical outcomes using whole-exome sequencing data of cancer patientsdoi: https://doi.org/10.1101/268680, 2018, paper online  

Zou and Wang, eTumorType, an algorithm of discriminating cancer types for circulating tumor cells or cell-free DNAs in blood,  Genomics, Proteomics Bioinformatics,  15:130-140, 2017, paper online

McGee et al., Network analysis reveals a singling regulatory loop in the PIK3CA-mutated breast cancer predicting survival outcome,  Genomics, Proteomics Bioinformatics,  15:121-129, 2017, paper online

Wang et al., Disease biomarkers for precision medicine: challenges and future opportunities,  Genomics, Proteomics Bioinformatics,  15:57-58, 2017, paper online

Han et al., Gene Regulatory network rewiring in the immune cells associated with cancer, Genes, 8:308, 2017, paper online  

You et al., The multivalent histone binder BRPF1 is essential for development of fetal hematopoietic stem cells, J Clinical Investigations (JCI), in press, 2016

Gao et al., Identification and construction of combinatory cancer-hallmark-based gene signature sets that predict recurrence and chemotherapy benefit in stage II colorectal cancerJAMA Oncology, On-line (PDF)Supplemental Material2015

Schweitzer et al., Characterization of the NPC1L1 gene and proteome from an exceptional responder to ezetimibe,  Atherosclerosis, online published, 2015

Phuong et al., Molecular Characterization of the Vasculature of Patients with Infiltrating Ductal Carcinoma Generates a Gene Signature Predictive of Breast Cancer Survival, Journal of Cancer Biology and Research, 2015

You et al., The lysine acetylation activator Brpf1 governs dentate gyrus development through neural progenitors and stem cells, PLoS Genetics, 11: e1005034, 2015

Hill et al., Glycoproteomic Comparison of Clinical Triple-Negative and Luminal Breast Tumors, J. Proteome Res, 14: 1376-1388, 2015

 You et al., The chromatin regulator Brpf1 regulates embryo development and cell proliferation, J. Biol Chem, in press, 2015

 You et al., Deficiency of the multivalent chromatin regulator Brpf1 causes abnormal brain development, J. Biol Chem, 290: 7114-7129, 2015

 Edwin Wang* et al., Predictive Genomics: A cancer hallmark network framework for predicting tumor clinical phenotype using genome sequencing data, Seminar in Cancer Biology (Invited review), 2014, PDF,

 Masoudi-Nejad and Edwin Wang, Cancer modeling and network biology: Accelerating toward personalized medicine, Seminar in Cancer Biology (Invited review), 2014

 Masoudi-Nejad, .. and Edwin Wang, Cancer systems biology and modeling: Microscopic scale and multiscale approaches, Seminar in Cancer Biology (Invited review), 2014

Zaman et al., Proteomic-Coupled-Network Analysis of T877A-Androgen Receptor Interactomes Can Predict Clinical Prostate Cancer Outcomes between White (Non-Hispanic) and African-American Groups, PLoS One, e113190 2014

Zaman N. …. Edwin Wang*, Signaling network assessment of mutations and copy number variations predict breast cancer subtype-specific drug targets, Cell Reports (a new Cell sister journal), 5:216-223, 2013, Paper in Cell Press,

 Edwin Wang* et al., Cancer systems biology in the genome sequencing era: Part 1, dissecting and modeling of tumor clones and their networks, Seminar in Cancer Biology (Invited Review), 23:279-285, 2013, PDF, PMID:23791722

  Edwin Wang* et al., Cancer systems biology in the genome sequencing era: Part 2, evolutionary dynamics of tumor clonal networks and drug resistance, Seminar in Cancer Biology (Invited Review), 23:286-292, 2013, PDF, PMID:23792107

  Edwin Wang, Understanding genomic alterations in cancer genomes using an integrative network approach, Cancer Letters (Invited Review), 340: 261-9, 2013,PDFPMID:23266571 

Cohen,.. Edwin Wang, .. et al., A Mass spectrometry-based plasma protein panel targeting the tumor microenvironment in patients with breast cancer, J. Proteomics81:135-47, 2013, paper link,

Li L., Fu C., Tibiche C., Kaneko T., Schiller M., Li S., Edwin WangThe human phosphotyrosine signaling network: evolution and hotspots of hijacking in cancer, Genome Research22:1222-30, 2012, Paper in Genome Res

 Qiu C, Wang D, Edwin Wang and Cui Q., An upstream interacting context based framework for the computational inference of microRNA functions, Mol Biosyst, 8:1492-8, 2012

Ren, .. Edwin Wang, .. et al, Target of rapamycin signaling regulates metabolism, growth, and life span in Arabidopsis, Plant Cell, 24:2850-74, 2012 

Paliouuras, .. Edwin Wang.. et al., Dynamic rewiring of the Androgen Receptor interaction networks correlates with prosate cancer clinical outcomes, Integrative Biology, 3:1020-1032, 2011, PDF,PMID:21901193

Xiang, .. Edwin Wang, .. et al, POPCORN functions in the auxin pathway to regulate embryonic body plan and meristem organization in arabidopsis, Plant Cell23:4348-67, 2011

 Cloutier M and Wang Edwin, Dynamic modeling and analysis of cancer cellular network motifs, Integrative Biology, (Invited review) 3:724-732, 2011, PDF, PMID:21674097

Hill, .. Edwin Wang, .. et al., Identification of vascular breast tumor markers by laser capture microdissection and label-free LC-MS, Journal of Proteome Research, 10:2479-2493, 2011, paper link,

 Xiang, .. Edwin Wang, .. et al., Genome-wide analysis reveals gene expression and metabolic network dynamics during embryo development in Arabidopsis, Plant Physiol, 156:346-356, 2011

 Venglat P… Edwin Wang, .. et al., Gene expression analysis of flax seed development, BMC Plant Biology, 11: 74, 2011

Li and Wang, A Multiple Survival Screening algorithm (MSS) for identifying high-quality cancer prognostic markers (Protocol),doi:10.1038/protex.2011.211, 2011

Li. J., Lenferink, AE., Cantin, C., Purisima EO., O’Connor-McCourt, MD., and Edwin Wang, Identification of high quality cancer prognostic markers and metastasis network modules, Nature Communications, 1:34, 2010, Paper in Nature Communications

Qiu C., Wang J., Yao P., Edwin Wang, Cui Q., microRNA evolution in a human transcription factor and microRNA regulatory network, BMC Systems Biology, 4:90, 2010 (Highly Accessed noted by the journal website),

Lenferink, AE., Cantin, C., Nantel, A., Edwin Wang, Durocher, Y., Banville, M., Collins, C., Wilson, MR., O’Connor-McCourt, MD., Transcriptome profiling of a TGF-beta-induced epithelial-to-mesenchymal transition reveals extracellular clusterin as a target for therapeutic antibodies, Oncogene, 29:831–844, 2010

Fu, C., Li, J., Edwin Wang, Signaling network analysis of ubiquitin-mediated proteins suggests correlations between the 26S proteasome and tumor progression, Molecular BioSystems, 5:1809-1816, 2009, paper link, PMID:19593471

 Cui, Q., Purisima EO., Wang, Edwin, Protein evolution on a human signaling network, BMC Systems Biology, 3:21, 2009 (Highly Accessed noted by the journal website), paper in BMC Systems Biology

 Wang D, Lu M, Miao J, Li T, Wang Edwin, Cui Q, Cepred: Predicting the co-expression patterns of the human intronic microRNAs with their host genes. PLoS ONE 4: e4421, 2009

 Yang, H., Xiang, D., Venglat, SP., Cao, Y., Wang, Edwin, Selvaraj, G., and Datla, R.PolA2 is required for embryo development in Arabidopsis, Botany, 87:626-634, 2009 

 Tibiche, C. and Edwin Wang, MicroRNA regulatory patterns on the human metabolic network, The Open Systems Biology Journal, 1:1-8, 2008, Paper in the Systems Biology Journal

Cui Q, Ma Y, Jaramillo M, Bari H, Awan A, Yang S, Zhang S, Liu L, Lu M, O'Connor-McCourt M, Purisima EO, Edwin Wang, A map of human cancer signaling, (Nature/EMBO) Molecular Systems Biology, 3:152, 2007, Paper in Molecular Systems Biology (MSB) 

 Awan A, Bari H, Yan F, Moksong S, Yang S, Chowdhury S, Cui Q, Yu Z, Purisima EO, Edwin Wang, Regulatory network motifs and hotspots of cancer genes in a mammalian cellular signaling network, IET Systems Biology, 1:292-297, 2007, PDF

Cui Q, Yu Z, Purisima EO, Edwin Wang, MicroRNA regulation and cross-species variation of gene expression, Trends Genet., 23:372-375, 2007, PDFPaper in Cell Press

Edwin Wang*, Lenferink A, O'Connor-McCourt M., Cancer systems biology: exploring cancer-associated genes on cellular networks (invited review), Cellular and Molecular Life Sciences (CMLS), 64:1752-1762, 2007, PDF

Yu Z, Jian Z, Shen SH, Purisima E, Edwin Wang, Global analysis of microRNA target gene expression reveals that miRNA targets are lower expressed in mature mouse and Drosophila tissues than in the embryos, Nuclei Acids Research35:152-164, 2007 (Selected by Faculty of Biology 1000), Paper in the journal 

Yu Z, Li Z, Jolicoeur N, Zhang L, Fortin Y, Edwin Wang, Shen SH., Aberrant allele frequencies of the SNPs located in microRNA target sites are potentially associated with human cancers, Nuclei Acids Research, 35:4535-4541, 2007, Paper in the journal

Cui Q, Yu Z, Pan Y, Purisima EO, Edwin Wang, MicroRNAs preferentially target the genes with high transcriptional regulation complexity,Biochem Biophys Res Commun., 352:733-738, 2007, PDF

Cui Q, Yu Z, Purisima EO, Edwin Wang, Principles of microRNA regulation of a human cellular signaling network, (Nature/EMBO) Molecular Systems Biology, 2:46, 2006, Paper in Molecular Systems Biology (MSB) 

Edwin Wang*, Purisima E., Network motifs are enriched with transcription factors whose transcripts have short half-lives, Trends Genet.21:492-495, 2005, PDFPaper in Cell Press 

Braun, B.... Edwin Wang ...et al., 2005, A human-curated annotation of the Candida albicans genome, PLoS Genet. 1: e1, 2005