Bing Zhang - Publications

Affiliations: 
North Carolina State University, Raleigh, NC 
Area:
Condensed matter physics, polymer, computation

87 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 Liu Y, Yang T, Zhang B, Williams T, Lin YT, Li L, Zhou Y, Lu W, Kim SH, Chen LQ, Bernholc J, Wang Q. Structural Insight in the Interfacial Effect in Ferroelectric Polymer Nanocomposites. Advanced Materials (Deerfield Beach, Fla.). e2005431. PMID 33150671 DOI: 10.1002/adma.202005431  0.437
2020 Gillette MA, Satpathy S, Cao S, Dhanasekaran SM, Vasaikar SV, Krug K, Petralia F, Li Y, Liang WW, Reva B, Krek A, Ji J, Song X, Liu W, Hong R, ... ... Zhang B, et al. Proteogenomic Characterization Reveals Therapeutic Vulnerabilities in Lung Adenocarcinoma. Cell. 182: 200-225.e35. PMID 32649874 DOI: 10.1016/J.Cell.2020.06.013  0.308
2020 Liu Y, Zhang B, Xu W, Haibibu A, Han Z, Lu W, Bernholc J, Wang Q. Chirality-induced relaxor properties in ferroelectric polymers. Nature Materials. PMID 32601482 DOI: 10.1038/S41563-020-0724-6  0.481
2020 Odom GJ, Ban Y, Colaprico A, Liu L, Silva TC, Sun X, Pico AR, Zhang B, Wang L, Chen X. PathwayPCA: an R/Bioconductor Package for Pathway Based Integrative Analysis of Multi-Omics Data. Proteomics. e1900409. PMID 32430990 DOI: 10.1002/Pmic.201900409  0.316
2020 Wen B, Li K, Zhang Y, Zhang B. Cancer neoantigen prioritization through sensitive and reliable proteogenomics analysis. Nature Communications. 11: 1759. PMID 32273506 DOI: 10.1038/S41467-020-15456-W  0.302
2020 Dou Y, Kawaler EA, Cui Zhou D, Gritsenko MA, Huang C, Blumenberg L, Karpova A, Petyuk VA, Savage SR, Satpathy S, Liu W, Wu Y, Tsai CF, Wen B, Li Z, ... ... Zhang B, et al. Proteogenomic Characterization of Endometrial Carcinoma. Cell. PMID 32059776 DOI: 10.1016/J.Cell.2020.01.026  0.332
2020 Satpathy S, Jaehnig EJ, Krug K, Kim BJ, Saltzman AB, Chan DW, Holloway KR, Anurag M, Huang C, Singh P, Gao A, Namai N, Dou Y, Wen B, Vasaikar SV, ... ... Zhang B, et al. Microscaled proteogenomic methods for precision oncology. Nature Communications. 11: 532. PMID 31988290 DOI: 10.1038/S41467-020-14381-2  0.341
2020 Kennedy JJ, Chowdhury S, Savage SR, Hou X, Huntoon CJ, Ivey RG, Yu Q, Lin C, Huang D, Zhao L, Voytovich UJ, Schoenherr RM, Shire Z, Skates SJ, Whiteaker JR, ... ... Zhang B, et al. Abstract PR02: Proteogenomic approach to identify mechanisms of platinum refractoriness in high-grade serous ovarian cancers Clinical Cancer Research. 26. DOI: 10.1158/1557-3265.Ovca19-Pr02  0.344
2020 Satpathy S, Jaehnig E, Karsten K, Kim B, Saltzman A, Chan D, Holloway K, Anurag M, Huang C, Singh P, Gao A, Namai N, Dou Y, Wen B, Vasaikar S, ... ... Zhang B, et al. Abstract GS2-05: Microscaled proteogenomic methods for precision oncology Cancer Research. 80. DOI: 10.1158/1538-7445.Sabcs19-Gs2-05  0.361
2020 Kawaler EA, Dou Y, Zhou DC, Gritsenko MA, Rodland KD, Ding L, Zhang B, Liu T, Fenyö D. Abstract 6580: Proteogenomic characterization of endometrial carcinoma Cancer Research. 80: 6580-6580. DOI: 10.1158/1538-7445.Am2020-6580  0.369
2020 Lei JT, Jaehnig E, Zhang B. Abstract 4385: Proteogenomics-driven synthetic lethality discovery to predict targetable protein dependencies induced by somatic deletions Cancer Research. 80: 4385-4385. DOI: 10.1158/1538-7445.Am2020-4385  0.373
2019 Clark DJ, Dhanasekaran SM, Petralia F, Pan J, Song X, Hu Y, da Veiga Leprevost F, Reva B, Lih TM, Chang HY, Ma W, Huang C, Ricketts CJ, Chen L, Krek A, ... ... Zhang B, et al. Integrated Proteogenomic Characterization of Clear Cell Renal Cell Carcinoma. Cell. 179: 964-983.e31. PMID 31675502 DOI: 10.1016/J.Cell.2019.10.007  0.324
2019 Thangavel H, Angelis C, Vasaikar S, Bhat R, Jolly MK, Nagi C, Creighton CJ, Chen F, Dobrolecki LE, George JT, Kumar T, Abdulkareem NM, Mao S, Nardone A, Rimawi M, ... ... Zhang B, et al. A CTC-Cluster-Specific Signature Derived from OMICS Analysis of Patient-Derived Xenograft Tumors Predicts Outcomes in Basal-Like Breast Cancer. Journal of Clinical Medicine. 8. PMID 31652963 DOI: 10.3390/Jcm8111772  0.325
2019 Savage SR, Shi Z, Liao Y, Zhang B. Graph algorithms for condensing and consolidating gene set analysis results. Molecular & Cellular Proteomics : McP. PMID 31142576 DOI: 10.1074/Mcp.Tir118.001263  0.32
2019 Vasaikar S, Huang C, Wang X, Petyuk VA, Savage SR, Wen B, Dou Y, Zhang Y, Shi Z, Arshad OA, Gritsenko MA, Zimmerman LJ, McDermott JE, Clauss TR, Moore RJ, ... ... Zhang B, et al. Proteogenomic Analysis of Human Colon Cancer Reveals New Therapeutic Opportunities. Cell. PMID 31031003 DOI: 10.1016/J.Cell.2019.03.030  0.334
2019 Wen B, Wang X, Zhang B. PepQuery enables fast, accurate, and convenient proteomic validation of novel genomic alterations. Genome Research. PMID 30610011 DOI: 10.1101/Gr.235028.118  0.341
2019 Cho KC, Hruban R, Zhang H, Huang C, Zhang B, Zhou DC, Ding L, Boja E. Abstract A60: Integrated proteogenomic characterization of pancreatic ductal adenocarcinoma Cancer Research. 79. DOI: 10.1158/1538-7445.Panca19-A60  0.366
2019 Zhang B, Vasaikar S, Huang C, Wang X, Petyuk VA, Savage SR, Wen B, Dou Y, Zhang Y, Shi Z, Arshad OA, Gritsenko MA, Zimmerman LJ, McDermott JE, Clauss TR, et al. Abstract LB-006: Proteogenomic characterization of human colon cancer reveals new therapeutic opportunities Cancer Research. 79. DOI: 10.1158/1538-7445.Am2019-Lb-006  0.36
2019 Liu Y, Zhang B, Haibibu A, Xu W, Han Z, Lu W, Bernholc J, Wang Q. Insights into the Morphotropic Phase Boundary in Ferroelectric Polymers from the Molecular Perspective Journal of Physical Chemistry C. 123: 8727-8730. DOI: 10.1021/Acs.Jpcc.9B01220  0.491
2018 Zhang B, Whiteaker JR, Hoofnagle AN, Baird GS, Rodland KD, Paulovich AG. Clinical potential of mass spectrometry-based proteogenomics. Nature Reviews. Clinical Oncology. PMID 30487530 DOI: 10.1038/S41571-018-0135-7  0.324
2018 Liu Y, Aziguli H, Zhang B, Xu W, Lu W, Bernholc J, Wang Q. Ferroelectric polymers exhibiting behaviour reminiscent of a morphotropic phase boundary. Nature. 562: 96-100. PMID 30283102 DOI: 10.1038/S41586-018-0550-Z  0.493
2018 Nguyen TM, Kabotyanski EB, Dou Y, Reineke LC, Zhang P, Zhang XH, Malovannaya A, Jung SY, Mo Q, Roarty KP, Chen Y, Zhang B, Neilson JR, Lloyd RE, Perou CM, et al. FGFR1-activated Translation of WNT Pathway Components with Structured 5' UTRs is Vulnerable to Inhibition of EIF4A-dependent Translation Initiation. Cancer Research. PMID 29844125 DOI: 10.1158/0008-5472.Can-18-0631  0.301
2018 Aebersold R, Agar JN, Amster IJ, Baker MS, Bertozzi CR, Boja ES, Costello CE, Cravatt BF, Fenselau C, Garcia BA, Ge Y, Gunawardena J, Hendrickson RC, Hergenrother PJ, Huber CG, ... ... Zhang B, et al. How many human proteoforms are there? Nature Chemical Biology. 14: 206-214. PMID 29443976 DOI: 10.1038/Nchembio.2576  0.331
2018 Menschaert G, Wang X, Jones AR, Ghali F, Fenyö D, Olexiouk V, Zhang B, Deutsch EW, Ternent T, Vizcaíno JA. The proBAM and proBed standard formats: enabling a seamless integration of genomics and proteomics data. Genome Biology. 19: 12. PMID 29386051 DOI: 10.1186/S13059-017-1377-X  0.317
2017 Vasaikar SV, Straub P, Wang J, Zhang B. LinkedOmics: analyzing multi-omics data within and across 32 cancer types. Nucleic Acids Research. PMID 29136207 DOI: 10.1093/Nar/Gkx1090  0.355
2017 Wang J, Mouradov D, Wang X, Jorissen RN, Chambers MC, Zimmerman LJ, Vasaikar S, Love CG, Li S, Lowes K, Leuchowius KJ, Jousset H, Weinstock J, Yau C, Mariadason J, ... ... Zhang B, et al. Colorectal cancer cell line proteomes are representative of primary tumors and predict drug sensitivity. Gastroenterology. PMID 28625833 DOI: 10.1053/J.Gastro.2017.06.008  0.308
2017 Wang J, Vasaikar S, Shi Z, Greer M, Zhang B. WebGestalt 2017: a more comprehensive, powerful, flexible and interactive gene set enrichment analysis toolkit. Nucleic Acids Research. PMID 28472511 DOI: 10.1093/Nar/Gkx356  0.324
2017 Ruggles KV, Krug K, Wang X, Clauser KR, Wang J, Payne SH, Fenyö D, Zhang B, Mani DR. Methods, tools and current perspectives in proteogenomics. Molecular & Cellular Proteomics : McP. PMID 28456751 DOI: 10.1074/Mcp.Mr117.000024  0.337
2016 Zhang M, Wang B, Xu J, Wang X, Xie L, Zhang B, Li Y, Li J. CanProVar 2.0: An Updated Database of Human Cancer Proteome Variation. Journal of Proteome Research. PMID 27977206 DOI: 10.1021/Acs.Jproteome.6B00505  0.361
2016 Dou Y, Cha DJ, Franklin JL, Higginbotham JN, Jeppesen DK, Weaver AM, Prasad N, Levy S, Coffey RJ, Patton JG, Zhang B. Circular RNAs are down-regulated in KRAS mutant colon cancer cells and can be transferred to exosomes. Scientific Reports. 6: 37982. PMID 27892494 DOI: 10.1038/Srep37982  0.305
2016 Wang J, Ma Z, Carr SA, Mertins P, Zhang H, Zhang Z, Chan DW, Ellis MJ, Townsend RR, Smith RD, McDermott JE, Chen X, Paulovich AG, Boja ES, Mesri M, ... ... Zhang B, et al. Proteome profiling outperforms transcriptome profiling for co-expression based gene function prediction. Molecular & Cellular Proteomics : McP. PMID 27836980 DOI: 10.1074/Mcp.M116.060301  0.355
2016 Zhang H, Liu T, Zhang Z, Payne SH, Zhang B, McDermott JE, Zhou JY, Petyuk VA, Chen L, Ray D, Sun S, Yang F, Chen L, Wang J, Shah P, ... ... Zhang B, et al. Integrated Proteogenomic Characterization of Human High-Grade Serous Ovarian Cancer. Cell. PMID 27372738 DOI: 10.1016/J.Cell.2016.05.069  0.365
2016 Mertins P, Mani DR, Ruggles KV, Gillette MA, Clauser KR, Wang P, Wang X, Qiao JW, Cao S, Petralia F, Kawaler E, Mundt F, Krug K, Tu Z, Lei JT, ... ... Zhang B, et al. Proteogenomics connects somatic mutations to signalling in breast cancer. Nature. 534: 55-62. PMID 27251275 DOI: 10.1038/Nature18003  0.329
2016 Mertins P, Mani, Ruggles K, Gillette M, Clauser K, Wang P, Wang X, Qiao J, Cao S, Petralia F, Mundt F, Tu Z, Lei J, Gatza M, Wilkerson M, ... ... Zhang B, et al. Abstract IA29: Proteogenomic and phosphoproteomic analysis of breast cancer Molecular Cancer Research. 14. DOI: 10.1158/1557-3125.Advbc15-Ia29  0.363
2015 Liu Q, Zhang B. Integrative omics analysis reveals post-transcriptionally enhanced protective host response in colorectal cancers with microsatellite instability. Journal of Proteome Research. PMID 26680540 DOI: 10.1021/Acs.Jproteome.5B00847  0.316
2015 Wang X, Slebos RJ, Chambers MC, Tabb DL, Liebler DC, Zhang B. proBAMsuite, a bioinformatics framework for genome-based representation and analysis of proteomics data. Molecular & Cellular Proteomics : McP. PMID 26657539 DOI: 10.1074/Mcp.M115.052860  0.341
2015 Qian J, Zou Y, Wang J, Zhang B, Massion PP. Global gene expression profiling reveals a suppressed immune response pathway associated with 3q amplification in squamous carcinoma of the lung. Genomics Data. 5: 272-4. PMID 26484266 DOI: 10.1016/J.Gdata.2015.06.014  0.315
2015 Abraham PE, Wang X, Ranjan P, Nookaew I, Zhang B, Tuskan GA, Hettich RL. Integrating mRNA and Protein Sequencing Enables the Detection and Quantitative Profiling of Natural Protein Sequence Variants of Populus trichocarpa. Journal of Proteome Research. PMID 26483142 DOI: 10.1021/Acs.Jproteome.5B00823  0.334
2015 Hu Z, Scott HS, Qin G, Zheng G, Chu X, Xie L, Adelson DL, Oftedal BE, Venugopal P, Babic M, Hahn CN, Zhang B, Wang X, Li N, Wei C. Revealing Missing Human Protein Isoforms Based on Ab Initio Prediction, RNA-seq and Proteomics. Scientific Reports. 5: 10940. PMID 26156868 DOI: 10.1038/Srep10940  0.341
2015 Slebos RJ, Wang X, Wang X, Zhang B, Tabb DL, Liebler DC. Proteomic analysis of colon and rectal carcinoma using standard and customized databases. Scientific Data. 2: 150022. PMID 26110064 DOI: 10.1038/Sdata.2015.22  0.338
2015 French CL, Ye F, Revetta F, Zhang B, Coffey RJ, Washington MK, Deane NG, Beauchamp RD, Weaver AM. Linking patient outcome to high throughput protein expression data identifies novel regulators of colorectal adenocarcinoma aggressiveness. F1000research. 4: 99. PMID 26097693 DOI: 10.12688/F1000Research.6388.1  0.365
2015 Sun H, Chen C, Lian B, Zhang M, Wang X, Zhang B, Li Y, Yang P, Xie L. Identification of HPV integration and gene mutation in HeLa cell line by integrated analysis of RNA-Seq and MS/MS data. Journal of Proteome Research. 14: 1678-86. PMID 25698088 DOI: 10.1021/Pr500944C  0.32
2015 Zhu J, Shi Z, Wang J, Zhang B. Empowering biologists with multi-omics data: colorectal cancer as a paradigm. Bioinformatics (Oxford, England). 31: 1436-43. PMID 25527095 DOI: 10.1093/Bioinformatics/Btu834  0.331
2015 Mertins P, Mani, Clauser K, Gillette M, Wang P, Qiao J, Fenyo D, Ruggles K, Davies S, Zhang B, Gatza M, Wang S, Yan P, Lin C, McLellan M, et al. Abstract SY44-02: Proteogenomic and phosphoproteomic analysis of breast cancer Cancer Research. 75. DOI: 10.1158/1538-7445.Am2015-Sy44-02  0.351
2014 Tripathi MK, Deane NG, Zhu J, An H, Mima S, Wang X, Padmanabhan S, Shi Z, Prodduturi N, Ciombor KK, Chen X, Washington MK, Zhang B, Beauchamp RD. Nuclear factor of activated T-cell activity is associated with metastatic capacity in colon cancer. Cancer Research. 74: 6947-57. PMID 25320007 DOI: 10.1158/0008-5472.Can-14-1592  0.336
2014 Wang X, Liu Q, Zhang B. Leveraging the complementary nature of RNA-Seq and shotgun proteomics data. Proteomics. 14: 2676-87. PMID 25266668 DOI: 10.1002/Pmic.201400184  0.319
2014 Zhang B, Wang J, Wang X, Zhu J, Liu Q, Shi Z, Chambers MC, Zimmerman LJ, Shaddox KF, Kim S, Davies SR, Wang S, Wang P, Kinsinger CR, Rivers RC, et al. Proteogenomic characterization of human colon and rectal cancer. Nature. 513: 382-7. PMID 25043054 DOI: 10.1038/Nature13438  0.372
2014 Wang X, Zhang B. Integrating genomic, transcriptomic, and interactome data to improve Peptide and protein identification in shotgun proteomics. Journal of Proteome Research. 13: 2715-23. PMID 24792918 DOI: 10.1021/Pr500194T  0.349
2014 Codreanu SG, Ullery JC, Zhu J, Tallman KA, Beavers WN, Porter NA, Marnett LJ, Zhang B, Liebler DC. Alkylation damage by lipid electrophiles targets functional protein systems. Molecular & Cellular Proteomics : McP. 13: 849-59. PMID 24429493 DOI: 10.1074/Mcp.M113.032953  0.312
2014 Ye R, Carneiro AM, Han Q, Airey D, Sanders-Bush E, Zhang B, Lu L, Williams R, Blakely RD. Quantitative trait loci mapping and gene network analysis implicate protocadherin-15 as a determinant of brain serotonin transporter expression. Genes, Brain, and Behavior. 13: 261-75. PMID 24405699 DOI: 10.1111/Gbb.12119  0.324
2014 Halvey PJ, Wang X, Wang J, Bhat AA, Dhawan P, Li M, Zhang B, Liebler DC, Slebos RJ. Proteogenomic analysis reveals unanticipated adaptations of colorectal tumor cells to deficiencies in DNA mismatch repair. Cancer Research. 74: 387-97. PMID 24247723 DOI: 10.1158/0008-5472.Can-13-2488  0.377
2013 Zhu J, Wang J, Shi Z, Franklin JL, Deane NG, Coffey RJ, Beauchamp RD, Zhang B. Deciphering genomic alterations in colorectal cancer through transcriptional subtype-based network analysis. Plos One. 8: e79282. PMID 24260186 DOI: 10.1371/Journal.Pone.0079282  0.338
2013 Wang X, Zhang B. customProDB: an R package to generate customized protein databases from RNA-Seq data for proteomics search Bioinformatics. 29: 3235-3237. PMID 24058055 DOI: 10.1093/Bioinformatics/Btt543  0.34
2013 Liu Q, Ullery J, Zhu J, Liebler DC, Marnett LJ, Zhang B. RNA-seq data analysis at the gene and CDS levels provides a comprehensive view of transcriptome responses induced by 4-hydroxynonenal. Molecular Biosystems. 9: 3036-46. PMID 24056865 DOI: 10.1039/C3Mb70114J  0.31
2013 Wang J, Qian J, Hoeksema MD, Zou Y, Espinosa AV, Rahman SM, Zhang B, Massion PP. Integrative genomics analysis identifies candidate drivers at 3q26-29 amplicon in squamous cell carcinoma of the lung. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. 19: 5580-90. PMID 23908357 DOI: 10.1158/1078-0432.Ccr-13-0594  0.314
2013 Chen YY, Chambers MC, Li M, Ham AJ, Turner JL, Zhang B, Tabb DL. IDPQuantify: combining precursor intensity with spectral counts for protein and peptide quantification. Journal of Proteome Research. 12: 4111-21. PMID 23879310 DOI: 10.1021/Pr400438Q  0.309
2013 Shi Z, Wang J, Zhang B. NetGestalt: integrating multidimensional omics data over biological networks. Nature Methods. 10: 597-8. PMID 23807191 DOI: 10.1038/Nmeth.2517  0.335
2013 Wang J, Duncan D, Shi Z, Zhang B. WEB-based GEne SeT AnaLysis Toolkit (WebGestalt): update 2013. Nucleic Acids Research. 41: W77-83. PMID 23703215 DOI: 10.1093/Nar/Gkt439  0.335
2013 Ciombor KK, Deane NG, Lewis KB, Chen X, Zhang B, Washington MK, Shi C, Beauchamp RD. Colorectal cancer gene expression profiling using nanostring nCounter analysis. Journal of Clinical Oncology. 31: 3555-3555. DOI: 10.1200/Jco.2013.31.15_Suppl.3555  0.33
2013 Tripathi MK, Mima S, Shi Z, Prodduturi N, Jing Z, Ciombor KK, Chen X, Deane N, Beauchamp RD, Zhang B. Abstract B101: NFAT regulates a gene expression program associated with invasiveness and poor prognosis in colorectal cancer Cancer Research. 73. DOI: 10.1158/1538-7445.Tim2013-B101  0.334
2012 Sousa JF, Ham AJ, Whitwell C, Nam KT, Lee HJ, Yang HK, Kim WH, Zhang B, Li M, LaFleur B, Liebler DC, Goldenring JR. Proteomic profiling of paraffin-embedded samples identifies metaplasia-specific and early-stage gastric cancer biomarkers. The American Journal of Pathology. 181: 1560-72. PMID 22944598 DOI: 10.1016/J.Ajpath.2012.07.027  0.304
2012 Wang X, Slebos RJ, Wang D, Halvey PJ, Tabb DL, Liebler DC, Zhang B. Protein identification using customized protein sequence databases derived from RNA-Seq data. Journal of Proteome Research. 11: 1009-17. PMID 22103967 DOI: 10.1021/Pr200766Z  0.351
2012 Tripathi MK, Mima S, Freeman TJ, Weaver C, Deane NG, Zhang B, Beauchamp RD. Abstract 499: NFATc1 is a novel invasion promoter in colorectal cancer Cancer Research. 72: 499-499. DOI: 10.1158/1538-7445.Am2012-499  0.323
2012 Shi Z, Wang J, Zhang B. Abstract 3976: NetGestalt: A web application for the integration of multidimensional omics data within a network context Cancer Research. 72: 3976-3976. DOI: 10.1158/1538-7445.Am2012-3976  0.362
2011 Zhang B, Shi Z, Duncan DT, Prodduturi N, Marnett LJ, Liebler DC. Relating protein adduction to gene expression changes: a systems approach. Molecular Biosystems. 7: 2118-27. PMID 21594272 DOI: 10.1039/C1Mb05014A  0.366
2011 Lu H, Wang X, Pullen M, Guan H, Chen H, Sahu S, Zhang B, Chen H, Williams RW, Geisert EE, Lu L, Jablonski MM. Genetic dissection of the Gpnmb network in the eye. Investigative Ophthalmology & Visual Science. 52: 4132-42. PMID 21398278 DOI: 10.1167/Iovs.10-6493  0.323
2011 Li J, Su Z, Ma ZQ, Slebos RJ, Halvey P, Tabb DL, Liebler DC, Pao W, Zhang B. A bioinformatics workflow for variant peptide detection in shotgun proteomics. Molecular & Cellular Proteomics : McP. 10: M110.006536. PMID 21389108 DOI: 10.1074/Mcp.M110.006536  0.347
2011 Angel PM, Nusinow D, Brown CB, Violette K, Barnett JV, Zhang B, Baldwin HS, Caprioli RM. Networked-based characterization of extracellular matrix proteins from adult mouse pulmonary and aortic valves. Journal of Proteome Research. 10: 812-23. PMID 21133377 DOI: 10.1021/Pr1009806  0.308
2010 Shi Z, Derow CK, Zhang B. Co-expression module analysis reveals biological processes, genomic gain, and regulatory mechanisms associated with breast cancer progression. Bmc Systems Biology. 4: 74. PMID 20507583 DOI: 10.1186/1752-0509-4-74  0.343
2010 Li J, Ma Z, Slebos RJC, Tabb DL, Liebler DC, Zhang B. Enabling proteomics-based identification of human cancer variations Bmc Bioinformatics. 11: 29. DOI: 10.1186/1471-2105-11-S4-P29  0.347
2010 Marnett LJ, Jacobs A, Vila A, McGrath C, Boiani M, Ullery J, Tallman K, Porter NA, Zhang B, Liebler DC. Systems Approaches to Establishing the Relationship Between Protein Modification and Cellular Responses by Lipid Electrophiles Free Radical Biology and Medicine. 49: S8. DOI: 10.1016/J.Freeradbiomed.2010.10.677  0.358
2009 Unell M, Abraham PE, Shah M, Zhang B, Rückert C, VerBerkmoes NC, Jansson JK. Impact of phenolic substrate and growth temperature on the Arthrobacter chlorophenolicus proteome. Journal of Proteome Research. 8: 1953-64. PMID 19714879 DOI: 10.1021/Pr800897C  0.315
2009 Li J, Zimmerman LJ, Park BH, Tabb DL, Liebler DC, Zhang B. Network-assisted protein identification and data interpretation in shotgun proteomics. Molecular Systems Biology. 5: 303. PMID 19690572 DOI: 10.1038/Msb.2009.54  0.346
2009 Ball HL, Zhang B, Riches JJ, Gandhi R, Li J, Rommens JM, Myers JS. Shwachman-Bodian Diamond syndrome is a multi-functional protein implicated in cellular stress responses. Human Molecular Genetics. 18: 3684-95. PMID 19602484 DOI: 10.1093/Hmg/Ddp316  0.303
2009 Gerlee P, Lundh T, Zhang B, Anderson AR. Gene divergence and pathway duplication in the metabolic network of yeast and digital organisms. Journal of the Royal Society, Interface / the Royal Society. 6: 1233-45. PMID 19324678 DOI: 10.1098/Rsif.2008.0514  0.306
2009 Chourey K, Thompson MR, Shah M, Zhang B, Verberkmoes NC, Thompson DK, Hettich RL. Comparative temporal proteomics of a response regulator (SO2426)-deficient strain and wild-type Shewanella oneidensis MR-1 during chromate transformation. Journal of Proteome Research. 8: 59-71. PMID 19118451 DOI: 10.1021/Pr800776D  0.318
2008 Wang L, Zhang B, Wolfinger RD, Chen X. An integrated approach for the analysis of biological pathways using mixed models. Plos Genetics. 4: e1000115. PMID 18852846 DOI: 10.1371/Journal.Pgen.1000115  0.315
2008 Chen X, Wang L, Smith JD, Zhang B. Supervised principal component analysis for gene set enrichment of microarray data with continuous or survival outcomes. Bioinformatics (Oxford, England). 24: 2474-81. PMID 18753155 DOI: 10.1093/Bioinformatics/Btn458  0.306
2008 Wilmes P, Andersson AF, Lefsrud MG, Wexler M, Shah M, Zhang B, Hettich RL, Bond PL, VerBerkmoes NC, Banfield JF. Community proteogenomics highlights microbial strain-variant protein expression within activated sludge performing enhanced biological phosphorus removal. The Isme Journal. 2: 853-64. PMID 18449217 DOI: 10.1038/Ismej.2008.38  0.334
2008 Zhang B, Park BH, Karpinets T, Samatova NF. From pull-down data to protein interaction networks and complexes with biological relevance. Bioinformatics (Oxford, England). 24: 979-86. PMID 18304937 DOI: 10.1093/Bioinformatics/Btn036  0.335
2008 Pan C, Oda Y, Lankford PK, Zhang B, Samatova NF, Pelletier DA, Harwood CS, Hettich RL. Characterization of anaerobic catabolism of p-coumarate in Rhodopseudomonas palustris by integrating transcriptomics and quantitative proteomics. Molecular & Cellular Proteomics : McP. 7: 938-48. PMID 18156135 DOI: 10.1074/Mcp.M700147-Mcp200  0.322
2007 Zhang B, Chambers MC, Tabb DL. Proteomic parsimony through bipartite graph analysis improves accuracy and transparency. Journal of Proteome Research. 6: 3549-57. PMID 17676885 DOI: 10.1021/Pr070230D  0.319
2006 Zhang B, VerBerkmoes NC, Langston MA, Uberbacher E, Hettich RL, Samatova NF. Detecting differential and correlated protein expression in label-free shotgun proteomics. Journal of Proteome Research. 5: 2909-18. PMID 17081042 DOI: 10.1021/Pr0600273  0.318
2005 Baldwin NE, Chesler EJ, Kirov S, Langston MA, Snoddy JR, Williams RW, Zhang B. Computational, integrative, and comparative methods for the elucidation of genetic coexpression networks. Journal of Biomedicine & Biotechnology. 2005: 172-80. PMID 16046823 DOI: 10.1155/Jbb.2005.172  0.325
2004 Urs S, Smith C, Campbell B, Saxton AM, Taylor J, Zhang B, Snoddy J, Jones Voy B, Moustaid-Moussa N. Gene expression profiling in human preadipocytes and adipocytes by microarray analysis. The Journal of Nutrition. 134: 762-70. PMID 15051823 DOI: 10.1093/Jn/134.4.762  0.324
2002 Ramonell KM, Zhang B, Ewing RM, Chen Y, Xu D, Stacey G, Somerville S. Microarray analysis of chitin elicitation in Arabidopsis thaliana. Molecular Plant Pathology. 3: 301-11. PMID 20569338 DOI: 10.1046/J.1364-3703.2002.00123.X  0.313
2002 Zhang B, Ramonell K, Somerville S, Stacey G. Characterization of early, chitin-induced gene expression in Arabidopsis. Molecular Plant-Microbe Interactions : Mpmi. 15: 963-70. PMID 12236603 DOI: 10.1094/Mpmi.2002.15.9.963  0.332
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