Wenyi Wang

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Wenyi Wang

Professor

 https://orcid.org/0000-0003-0617-9438
    Calculated based on number of publications stored in Pure and citations from Scopus
    20042024

    Research activity per year

    Search results

    • 2020

      Divergent mutational processes distinguish hypoxic and normoxic tumours

      PCAWG Consortium, Dec 1 2020, In: Nature communications. 11, 1, 737.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      79 Scopus citations

    • Genomic footprints of activated telomere maintenance mechanisms in cancer

      PCAWG-Structural Variation Working Group & PCAWG Consortium, Dec 1 2020, In: Nature communications. 11, 1, 733.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      70 Scopus citations

    • High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations

      PCAWG Transcriptome Working Group, PCAWG-Structural Variation Working Group & PCAWG Consortium, Dec 1 2020, In: Nature communications. 11, 1, 736.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      46 Scopus citations

    • Immuno-genomic landscape of osteosarcoma

      Wu, C. C., Beird, H. C., Andrew Livingston, J., Advani, S., Mitra, A., Cao, S., Reuben, A., Ingram, D., Wang, W. L., Ju, Z., Hong Leung, C., Lin, H., Zheng, Y., Roszik, J., Wang, W., Patel, S., Benjamin, R. S., Somaiah, N., Conley, A. P., Mills, G. B., & 6 othersHwu, P., Gorlick, R., Lazar, A., Daw, N. C., Lewis, V. & Futreal, P. A., Dec 1 2020, In: Nature communications. 11, 1, 1008.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      132 Scopus citations

    • Inferring structural variant cancer cell fraction

      PCAWG Evolution and Heterogeneity Working Group & PCAWG Consortium, Dec 1 2020, In: Nature communications. 11, 1, 730.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      27 Scopus citations

    • Integrative pathway enrichment analysis of multivariate omics data

      PCAWG Drivers and Functional Interpretation Working Group & PCAWG Consortium, Dec 1 2020, In: Nature communications. 11, 1, 735.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      94 Scopus citations

    • Pan-cancer analysis of whole genomes

      The ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium, Feb 6 2020, In: Nature. 578, 7793, p. 82-93 12 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      1547 Scopus citations

    • Pathway and network analysis of more than 2500 whole cancer genomes

      PCAWG Drivers and Functional Interpretation Working Group & PCAWG Consortium, Dec 1 2020, In: Nature communications. 11, 1, 729.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      62 Scopus citations

    • Penetrance estimates over time to first and second primary cancer diagnosis in families with Li-Fraumeni syndrome: A single institution perspective

      Shin, S. J., Dodd-Eaton, E. B., Gao, F., Bojadzieva, J., Chen, J., Kong, X., Amos, C. I., Ning, J., Strong, L. C. & Wang, W., Jan 15 2020, In: Cancer Research. 80, 2, p. 347-353 7 p.

      Research output: Contribution to journal › Review article › peer-review

      Open Access
      4 Scopus citations

    • Penetrance of different cancer types in families with Li-Fraumeni syndrome: A validation study using multicenter cohorts

      Shin, S. J., Dodd-Eaton, E. B., Peng, G., Bojadzieva, J., Chen, J., Amos, C. I., Frone, M. N., Khincha, P. P., Mai, P. L., Savage, S. A., Ballinger, M. L., Thomas, D. M., Yuan, Y., Strong, L. C. & Wang, W., Jan 15 2020, In: Cancer Research. 80, 2, p. 354-360 7 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      17 Scopus citations

    • Reconstructing evolutionary trajectories of mutation signature activities in cancer using TrackSig

      PCAWG Evolution and Heterogeneity Working Group & PCAWG Consortium, Dec 1 2020, In: Nature communications. 11, 1, 731.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      28 Scopus citations

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

      MC3 Working Group, PCAWG novel somatic mutation calling methods working group & PCAWG Consortium, Dec 1 2020, In: Nature communications. 11, 1, 4748.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      25 Scopus citations

    • Sex differences in oncogenic mutational processes

      PCAWG Tumour Subtypes and Clinical Translation & PCAWG Consortium, Dec 1 2020, In: Nature communications. 11, 1, 4330.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      52 Scopus citations

    • Systematic assessment of tumor purity and clinical implications

      Haider, S., Tyekucheva, S., Prandi, D., Fox, N. S., Ahn, J., Xu, A. W., Pantazi, A., Park, P. J., Laird, P. W., Sander, C., Wang, W., Demichelis, F., Loda, M. & Boutros, P. C., 2020, In: JCO Precision Oncology. 4, p. 995-1005 11 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      22 Scopus citations

    • The evolutionary history of 2,658 cancers

      PCAWG Evolution & Heterogeneity Working Group & PCAWG Consortium, Feb 6 2020, In: Nature. 578, 7793, p. 122-128 7 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      527 Scopus citations

    • The landscape of viral associations in human cancers

      PCAWG Pathogens & PCAWG Consortium, Mar 1 2020, In: Nature Genetics. 52, 3, p. 320-330 11 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      219 Scopus citations
    • 2019

      Bayesian analysis of longitudinal dyadic data with informative missing data using a dyadic shared-parameter model

      Ahn, J., Morita, S., Wang, W. & Yuan, Y., Jan 1 2019, In: Statistical Methods in Medical Research. 28, 1, p. 70-83 14 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      2 Scopus citations

    • Bayesian Semiparametric Estimation of Cancer-Specific Age-at-Onset Penetrance With Application to Li-Fraumeni Syndrome

      Shin, S. J., Yuan, Y., Strong, L. C., Bojadzieva, J. & Wang, W., Apr 3 2019, In: Journal of the American Statistical Association. 114, 526, p. 541-552 12 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      4 Scopus citations

    • Integration of transcriptional and mutational data simplifies the stratification of peripheral T-cell lymphoma

      Maura, F., Agnelli, L., Leongamornlert, D., Bolli, N., Chan, W. C., Dodero, A., Carniti, C., Heavican, T. B., Pellegrinelli, A., Pruneri, G., Butler, A., Bhosle, S. G., Chiappella, A., Di Rocco, A., Zinzani, P. L., Zaja, F., Piva, R., Inghirami, G., Wang, W., Palomero, T., & 4 othersIqbal, J., Neri, A., Campbell, P. J. & Corradini, P., Jun 2019, In: American journal of hematology. 94, 6, p. 628-634 7 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      16 Scopus citations
    • 2018

      Accurate RNA sequencing from formalin-fixed cancer tissue to represent high-quality transcriptome from frozen tissue

      Li, J., Fu, C., Speed, T. P., Wang, W. & Symmans, W. F., 2018, In: JCO Precision Oncology. 2, p. 1-9 9 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      37 Scopus citations

    • Genetic analysis of surgical margins in oral cavity cancer

      Liu, S. A., Wang, C. C., Jiang, R. S., Wang, W. Y. & Lin, J. C., Jan 2018, In: British Journal of Surgery. 105, 2, p. e142-e149

      Research output: Contribution to journal › Article › peer-review

      Open Access
      10 Scopus citations

    • Neutral tumor evolution?

      The PCAWG Evolution and Heterogeneity Working Group, Dec 1 2018, In: Nature Genetics. 50, 12, p. 1630-1633 4 p.

      Research output: Contribution to journal › Letter › peer-review

      Open Access
      42 Scopus citations

    • Transcriptome Deconvolution of Heterogeneous Tumor Samples with Immune Infiltration

      Wang, Z., Cao, S., Morris, J. S., Ahn, J., Liu, R., Tyekucheva, S., Gao, F., Li, B., Lu, W., Tang, X., Wistuba, I. I., Bowden, M., Mucci, L., Loda, M., Parmigiani, G., Holmes, C. C. & Wang, W., Nov 30 2018, In: iScience. 9, p. 451-460 10 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      47 Scopus citations
    • 2017

      Estimating TP53 mutation carrier probability in families with li-fraumeni syndrome using LFSPRO

      Peng, G., Bojadzieva, J., Ballinger, M. L., Li, J., Blackford, A. L., Mai, P. L., Savage, S. A., Thomas, D. M., Strong, L. C. & Wang, W., Jun 1 2017, In: Cancer Epidemiology Biomarkers and Prevention. 26, 6, p. 837-844 8 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      8 Scopus citations

    • RNA-seq mixology: Designing realistic control experiments to compare protocols and analysis methods

      Holik, A. Z., Law, C. W., Liu, R., Wang, Z., Wang, W., Ahn, J., Asselin-Labat, M. L., Smyth, G. K. & Ritchie, M. E., Mar 17 2017, In: Nucleic acids research. 45, 5, 1063.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      24 Scopus citations
    • 2016

      Bayesian variable selection for binary outcomes in high-dimensional genomic studies using non-local priors

      Nikooienejad, A., Wang, W. & Johnson, V. E., May 1 2016, In: Bioinformatics. 32, 9, p. 1338-1345 8 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      27 Scopus citations

    • Comprehensive pan-genomic characterization of adrenocortical carcinoma

      The Cancer Genome Atlas Research Network, May 9 2016, In: Cancer cell. 29, 5, p. 723-736 14 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      398 Scopus citations

    • Identification of germline DICER1 mutations and loss of heterozygosity in familial Wilms tumour

      Palculict, T. B., Ruteshouser, E. C., Fan, Y., Wang, W., Strong, L. & Huff, V., Jun 1 2016, In: Journal of medical genetics. 53, 6, p. 385-388 4 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      26 Scopus citations

    • MuSE: accounting for tumor heterogeneity using a sample-specific error model improves sensitivity and specificity in mutation calling from sequencing data

      Fan, Y., Xi, L., Hughes, D. S. T., Zhang, J., Zhang, J., Futreal, P. A., Wheeler, D. A. & Wang, W., Aug 24 2016, In: Genome biology. 17, 1, p. 178 1 p., 178.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      163 Scopus citations

    • Next-Generation Molecular Testing of Newborn Dried Blood Spots for Cystic Fibrosis

      Lefterova, M. I., Shen, P., Odegaard, J. I., Fung, E., Chiang, T., Peng, G., Davis, R. W., Wang, W., Kharrazi, M., Schrijver, I. & Scharfe, C., Mar 1 2016, In: Journal of Molecular Diagnostics. 18, 2, p. 267-282 16 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      29 Scopus citations
    • 2015

      An ensemble approach to accurately detect somatic mutations using SomaticSeq

      Fang, L. T., Afshar, P. T., Chhibber, A., Mohiyuddin, M., Fan, Y., Mu, J. C., Gibeling, G., Barr, S., Asadi, N. B., Gerstein, M. B., Koboldt, D. C., Wang, W., Wong, W. H. & Lam, H. Y. K., Sep 17 2015, In: Genome biology. 16, 1, 197.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      67 Scopus citations

    • The Molecular Taxonomy of Primary Prostate Cancer

      Abeshouse, A., Ahn, J., Akbani, R., Ally, A., Amin, S., Andry, C. D., Annala, M., Aprikian, A., Armenia, J., Arora, A., Auman, J. T., Balasundaram, M., Balu, S., Barbieri, C. E., Bauer, T., Benz, C. C., Bergeron, A., Beroukhim, R., Berrios, M., Bivol, A., & 292 othersBodenheimer, T., Boice, L., Bootwalla, M. S., Borges Dos Reis, R., Boutros, P. C., Bowen, J., Bowlby, R., Boyd, J., Bradley, R. K., Breggia, A., Brimo, F., Bristow, C. A., Brooks, D., Broom, B. M., Bryce, A. H., Bubley, G., Burks, E., Butterfield, Y. S. N., Button, M., Canes, D., Carlotti, C. G., Carlsen, R., Carmel, M., Carroll, P. R., Carter, S. L., Cartun, R., Carver, B. S., Chan, J. M., Chang, M. T., Chen, Y., Cherniack, A. D., Chevalier, S., Chin, L., Cho, J., Chu, A., Chuah, E., Chudamani, S., Cibulskis, K., Ciriello, G., Clarke, A., Cooperberg, M. R., Corcoran, N. M., Costello, A. J., Cowan, J., Crain, D., Curley, E., David, K., Demchok, J. A., Demichelis, F., Dhalla, N., Dhir, R., Doueik, A., Drake, B., Dvinge, H., Dyakova, N., Felau, I., Ferguson, M. L., Frazer, S., Freedland, S., Fu, Y., Gabriel, S. B., Gao, J., Gardner, J., Gastier-Foster, J. M., Gehlenborg, N., Gerken, M., Gerstein, M. B., Getz, G., Godwin, A. K., Gopalan, A., Graefen, M., Graim, K., Gribbin, T., Guin, R., Gupta, M., Hadjipanayis, A., Haider, S., Hamel, L., Hayes, D. N., Heiman, D. I., Hess, J., Hoadley, K. A., Holbrook, A. H., Holt, R. A., Holway, A., Hovens, C. M., Hoyle, A. P., Huang, M., Hutter, C. M., Ittmann, M., Iype, L., Jefferys, S. R., Jones, C. D., Jones, S. J. M., Juhl, H., Kahles, A., Kane, C. J., Kasaian, K., Kerger, M., Khurana, E., Kim, J., Klein, R. J., Kucherlapati, R., Lacombe, L., Ladanyi, M., Lai, P. H., Laird, P. W., Lander, E. S., Latour, M., Lawrence, M. S., Lau, K., Lebien, T., Lee, D., Lee, S., Lehmann, K. V., Leraas, K. M., Leshchiner, I., Leung, R., Libertino, J. A., Lichtenberg, T. M., Lin, P., Linehan, W. M., Ling, S., Lippman, S. M., Liu, J., Liu, W., Lochovsky, L., Loda, M., Logothetis, C., Lolla, L., Longacre, T., Lu, Y., Luo, J., Ma, Y., Mahadeshwar, H. S., Mallery, D., Mariamidze, A., Marra, M. A., Mayo, M., McCall, S., McKercher, G., Meng, S., Mes-Masson, A. M., Merino, M. J., Meyerson, M., Mieczkowski, P. A., Mills, G. B., Shaw, K. R. M., Minner, S., Moinzadeh, A., Moore, R. A., Morris, S., Morrison, C., Mose, L. E., Mungall, A. J., Murray, B. A., Myers, J. B., Naresh, R., Nelson, J., Nelson, M. A., Nelson, P. S., Newton, Y., Noble, M. S., Noushmehr, H., Nykter, M., Pantazi, A., Parfenov, M., Park, P. J., Parker, J. S., Paulauskis, J., Penny, R., Perou, C. M., Piché, A., Pihl, T., Pinto, P. A., Prandi, D., Protopopov, A., Ramirez, N. C., Rao, A., Rathmell, W. K., Rätsch, G., Ren, X., Reuter, V. E., Reynolds, S. M., Rhie, S. K., Rieger-Christ, K., Roach, J., Robertson, A. G., Robinson, B., Rubin, M. A., Saad, F., Sadeghi, S., Saksena, G., Saller, C., Salner, A., Sanchez-Vega, F., Sander, C., Sandusky, G., Sauter, G., Sboner, A., Scardino, P. T., Scarlata, E., Schein, J. E., Schlomm, T., Schmidt, L. S., Schultz, N., Schumacher, S. E., Seidman, J., Neder, L., Seth, S., Sharp, A., Shelton, C., Shelton, T., Shen, H., Shen, R., Sherman, M., Sheth, M., Shi, Y., Shih, J., Shmulevich, I., Simko, J., Simon, R., Simons, J. V., Sipahimalani, P., Skelly, T., Sofia, H. J., Soloway, M. G., Song, X., Sorcini, A., Sougnez, C., Stepa, S., Stewart, C., Stewart, J., Stuart, J. M., Sullivan, T. B., Sun, C., Sun, H., Tam, A., Tan, D., Tang, J., Tarnuzzer, R., Tarvin, K., Taylor, B. S., Teebagy, P., Tenggara, I., Têtu, B., Tewari, A., Thiessen, N., Thompson, T., Thorne, L. B., Tirapelli, D. P., Tomlins, S. A., Trevisan, F. A., Troncoso, P., True, L. D., Tsourlakis, M. C., Tyekucheva, S., Van Allen, E., Van Den Berg, D. J., Veluvolu, U., Verhaak, R., Vocke, C. D., Voet, D., Wan, Y., Wang, Q., Wang, W., Wang, Z., Weinhold, N., Weinstein, J. N., Weisenberger, D. J., Wilkerson, M. D., Wise, L., Witte, J., Wu, C. C., Wu, J., Wu, Y., Xu, A. W., Yadav, S. S., Yang, L., Yang, L., Yau, C., Ye, H., Yena, P., Zeng, T., Zenklusen, J. C., Zhang, H., Zhang, J., Zhang, J., Zhang, W., Zhong, Y., Zhu, K. & Zmuda, E., Nov 5 2015, In: Cell. 163, 4, p. 1011-1025 15 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      2130 Scopus citations
    • 2014

      Comprehensive molecular characterization of urothelial bladder carcinoma

      Weinstein, J. N., Akbani, R., Broom, B. M., Wang, W., Verhaak, R. G. W., McConkey, D., Lerner, S., Morgan, M., Creighton, C. J., Smith, C., Cherniack, A. D., Kim, J., Pedamallu, C. S., Noble, M. S., Al-Ahmadie, H. A., Reuter, V. E., Rosenberg, J. E., F.Bajorin, D., Bochner, B. H., Solit, D. B., & 273 othersKoppie, T., Robinson, B., Gordenin, D. A., Fargo, D., Klimczak, L. J., Roberts, S. A., Au, J., Laird, P. W., Hinoue, T., Schultz, N., Ramirez, R., Hansel, D., Hoadley, K. A., Kim, W. Y., Damrauer, J. S., Baylin, S. B., Mungall, A. J., Robertson, A. G., Chu, A., Kwiatkowski, D. J., Sougnez, C., Cibulskis, K., Lichtenstein, L., Sivachenko, A., Stewart, C., Lawrence, M. S., Getz, G., Lander, E., Gabrie, S. B., Donehower, L., Carter, S. L., Saksena, G., Schumacher, S. E., Freeman, S. S., Jung, J., Bhatt, A. S., Pugh, T., Beroukhim, R., Meyerson, M., Ally, A., Balasundaram, M., Butterfield, Y. S. N., Dhalla, N., Hirst, C., Holt, R. A., Jones, S. J. M., Lee, D., Li, H. I., Marra, M. A., Mayo, M., Moore, R. A., Schein, J. E., Sipahimalani, P., Tam, A., Thiessen, N., Wong, T., Wye, N., Bowlby, R., Chuah, E., Guin, R., Shen, H., Bootwalla, M. S., Triche, T., Lai, P. H., Van Den Berg, D. J., Weisenberger, D. J., Balu, S., Bodenheimer, T., Hoyle, A. P., Jefferys, S. R., Meng, S., Mose, L. E., Simons, J. V., Soloway, M. G., Wu, J., Parker, J. S., Hayes, D. N., Roach, J., Buda, E., Jones, C. D., Mieczkowski, P. A., Tan, D., Veluvolu, U., Waring, S., Auman, J. T., Perou, C. M., Wilkerson, M. D., Santoso, N., Parfenov, M., Ren, X., Pantazi, A., Hadjipanayis, A., Seidman, J., Kucherlapati, R., Lee, S., Yang, L., Park, P. J., Xu, A. W., Protopopov, A., Zhang, J., Bristow, C., Mahadeshwar, H. S., Seth, S., Song, X., Tang, J., Zeng, D., Chin, L., Guo, C., Casasent, T. D., Liu, W., Ju, Z., Motter, T., Peng, B., Ryan, M., Su, X., Yang, J. Y., Lorenzi, P. L., Yao, H., Zhang, N., Zhang, J., Mills, G. B., Cho, J., DiCara, D., Frazer, S., Gehlenborg, N., Heiman, D. I., Lin, P., Liu, Y., Stojanov, P., Voet, D., Zhang, H., Zou, L., Bernard, B., Kreisberg, D., Reynolds, S., Rovira, H., Shmulevich, I., Gao, J., Jacobsen, A., Aksoy, B. A., Antipin, Y., Ciriello, G., Dresdner, G., Gross, B., Lee, W., Reva, B., Shen, R., Sinha, R., Sumer, S. O., Weinhold, N., Ladanyi, M., Sander, C., Benz, C., Carlin, D., Haussler, D., Ng, S., Paull, E., Stuart, J., Zhu, J., Liu, Y., Zhang, W., Taylor, B. S., Lichtenberg, T. M., Zmuda, E., Barr, T., Black, A. D., George, M., Hanf, B., Helsel, C., McAllister, C., Ramirez, N. C., Tabler, T. R., Weaver, S., Wise, L., Bowen, J., Gastier-Foster, J. M., Jian, W., Tello, S., Ittman, M., Castro, P., McClenden, W. D., Gibbs, R., Saller, C., Tarvin, K., DiPiero, J. M., Owens, J., Bollag, R., Li, Q., Weinberger, P., Czerwinski, C., Huelsenbeck-Dill, L., Iacocca, M., Petrelli, N., Rabeno, B., Swanson, P., Shelton, T., Curley, E., Gardner, J., Mallery, D., Penny, R., Van Bang, N., Hanh, P. T., Kohl, B., Van Le, X., Phu, B. D., Thorp, R., Tien, N. V., Vinh, L. Q., Sandusky, G., Burks, E., Christ, K., Gee, J., Holway, A., Moinzadeh, A., Sorcini, A., Sullivan, T., Garcia-Grossman, I. R., Regazzi, A. M., Boice, L., Rathmell, W. K., Thorne, L., Bastacky, S., Davies, B., Dhir, R., Gingrich, J., Hrebinko, R., Maranchie, J., Nelson, J., Parwani, A., Bshara, W., Gaudioso, C., Morrison, C., Alexopoulou, V., Bartlett, J., Engel, J., Kodeeswaran, S., Antic, T., O'Donnell, P. H., Smith, N. D., Steinberg, G. D., Egea, S., Gomez-Fernandez, C., Herbert, L., Jorda, M., Soloway, M., Beaver, A., Carter, S., Kapur, P., Lewis, C., Lotan, Y., Bondaruk, J., Czerniak, B., Skinner, E., Aldape, K., Jensen, M. A., Kahn, A. B., Pihl, T. D., Pot, D. A., Srinivasan, D., Wan, Y., Ferguson, M. L., Zenklusen, J. C., Davidsen, T., Demchok, J. A., Shaw, K. R. M., Sheth, M., Tarnuzzer, R., Wang, Z., Yang, L., Hutter, C., Ozenberger, B. A., Sofia, H. J. & Eley, G., 2014, In: Nature. 507, 7492, p. 315-322 8 p.

      Research output: Contribution to journal › Article › peer-review

      2314 Scopus citations

    • FamSeq: A Variant Calling Program for Family-Based Sequencing Data Using Graphics Processing Units

      Peng, G., Fan, Y. & Wang, W., Oct 1 2014, In: PLoS computational biology. 10, 10

      Research output: Contribution to journal › Article › peer-review

      12 Scopus citations

    • Multiplatform analysis of 12 cancer types reveals molecular classification within and across tissues of origin

      The Cancer Genome Atlas Research Network, Aug 14 2014, In: Cell. 158, 4, p. 929-944 16 p.

      Research output: Contribution to journal › Article › peer-review

      1093 Scopus citations

    • The somatic genomic landscape of chromophobe renal cell carcinoma

      The Cancer Genome Atlas Research Network, 2014, In: Cancer cell. 26, 3, p. 319-330 12 p.

      Research output: Contribution to journal › Article › peer-review

      582 Scopus citations
    • 2013

      Bayesian latent-class mixed-effect hybrid models for dyadic longitudinal data with non-ignorable dropouts

      Ahn, J., Liu, S., Wang, W. & Yuan, Y., Dec 2013, In: Biometrics. 69, 4, p. 914-924 11 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      2 Scopus citations

    • DeMix: Deconvolution for mixed cancer transcriptomes using raw measured data

      Ahn, J., Yuan, Y., Parmigiani, G., Suraokar, M. B., Diao, L., Wistuba, I. I. & Wang, W., Aug 1 2013, In: Bioinformatics. 29, 15, p. 1865-1871 7 p.

      Research output: Contribution to journal › Article › peer-review

      71 Scopus citations

    • Integrating multi-platform genomic data using hierarchical Bayesian relevance vector machines Computational methods for biomarker discovery and systems biology research

      Srivastava, S., Wang, W., Manyam, G., Ordonez, C. & Baladandayuthapani, V., 2013, In: Eurasip Journal on Bioinformatics and Systems Biology. 2013, 1, 9.

      Research output: Contribution to journal › Article › peer-review

      7 Scopus citations

    • Multiplex target capture with double-stranded DNA probes

      Shen, P., Wang, W., Chi, A. K., Fan, Y., Davis, R. W. & Scharfe, C., May 29 2013, In: Genome medicine. 5, 5, 50.

      Research output: Contribution to journal › Article › peer-review

      15 Scopus citations

    • Rare variant detection using family-based sequencing analysis

      Peng, G., Fan, Y., Palculict, T. B., Shen, P., Ruteshouser, E. C., Chi, A. K., Davis, R. W., Huff, V., Scharfe, C. & Wang, W., Mar 5 2013, In: Proceedings of the National Academy of Sciences of the United States of America. 110, 10, p. 3985-3990 6 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      40 Scopus citations

    • The cancer genome atlas pan-cancer analysis project

      Weinstein, J. N., Collisson, E. A., Mills, G. B., Shaw, K. R. M., Ozenberger, B. A., Ellrott, K., Sander, C., Stuart, J. M., Chang, K., Creighton, C. J., Davis, C., Donehower, L., Drummond, J., Wheeler, D., Ally, A., Balasundaram, M., Birol, I., Butterfield, Y. S. N., Chu, A., Chuah, E., & 316 othersChun, H. J. E., Dhalla, N., Guin, R., Hirst, M., Hirst, C., Holt, R. A., Jones, S. J. M., Lee, D., Li, H. I., Marra, M. A., Mayo, M., Moore, R. A., Mungall, A. J., Robertson, A. G., Schein, J. E., Sipahimalani, P., Tam, A., Thiessen, N., Varhol, R. J., Beroukhim, R., Bhatt, A. S., Brooks, A. N., Cherniack, A. D., Freeman, S. S., Gabriel, S. B., Helman, E., Jung, J., Meyerson, M., Ojesina, A. I., Pedamallu, C. S., Saksena, G., Schumacher, S. E., Tabak, B., Zack, T., Lander, E. S., Bristow, C. A., Hadjipanayis, A., Haseley, P., Kucherlapati, R., Lee, S., Lee, E., Luquette, L. J., Mahadeshwar, H. S., Pantazi, A., Parfenov, M., Park, P. J., Protopopov, A., Ren, X., Santoso, N., Seidman, J., Seth, S., Song, X., Tang, J., Xi, R., Xu, A. W., Yang, L., Zeng, D., Auman, J. T., Balu, S., Buda, E., Fan, C., Hoadley, K. A., Jones, C. D., Meng, S., Mieczkowski, P. A., Parker, J. S., Perou, C. M., Roach, J., Shi, Y., Silva, G. O., Tan, D., Veluvolu, U., Waring, S., Wilkerson, M. D., Wu, J., Zhao, W., Bodenheimer, T., Hayes, D. N., Hoyle, A. P., Jeffreys, S. R., Mose, L. E., Simons, J. V., Soloway, M. G., Baylin, S. B., Berman, B. P., Bootwalla, M. S., Danilova, L., Herman, J. G., Hinoue, T., Laird, P. W., Rhie, S. K., Shen, H., Triche, T., Weisenberger, D. J., Carter, S. L., Cibulskis, K., Chin, L., Zhang, J., Sougnez, C., Wang, M., Getz, G., Dinh, H., Doddapaneni, H. V., Gibbs, R., Gunaratne, P., Han, Y., Kalra, D., Kovar, C., Lewis, L., Morgan, M., Morton, D., Muzny, D., Reid, J., Xi, L., Cho, J., Dicara, D., Frazer, S., Gehlenborg, N., Heiman, D. I., Kim, J., Lawrence, M. S., Lin, P., Liu, Y., Noble, M. S., Stojanov, P., Voet, D., Zhang, H., Zou, L., Stewart, C., Bernard, B., Bressler, R., Eakin, A., Iype, L., Knijnenburg, T., Kramer, R., Kreisberg, R., Leinonen, K., Lin, J., Liu, Y., Miller, M., Reynolds, S. M., Rovira, H., Shmulevich, I., Thorsson, V., Yang, D., Zhang, W., Amin, S., Wu, C. J., Wu, C. C., Akbani, R., Aldape, K., Baggerly, K. A., Broom, B., Casasent, T. D., Cleland, J., Dodda, D., Edgerton, M., Han, L., Herbrich, S. M., Ju, Z., Kim, H., Lerner, S., Li, J., Liang, H., Liu, W., Lorenzi, P. L., Lu, Y., Melott, J., Nguyen, L., Su, X., Verhaak, R., Wang, W., Wong, A., Yang, Y., Yao, J., Yao, R., Yoshihara, K., Yuan, Y., Yung, A. K., Zhang, N., Zheng, S., Ryan, M., Kane, D. W., Aksoy, B. A., Ciriello, G., Dresdner, G., Gao, J., Gross, B., Jacobsen, A., Kahles, A., Ladanyi, M., Lee, W., Lehmann, K. V., Miller, M. L., Ramirez, R., Rätsch, G., Reva, B., Schultz, N., Senbabaoglu, Y., Shen, R., Sinha, R., Sumer, S. O., Sun, Y., Taylor, B. S., Weinhold, N., Fei, S., Spellman, P., Benz, C., Carlin, D., Cline, M., Craft, B., Goldman, M., Haussler, D., Ma, S., Ng, S., Paull, E., Radenbaugh, A., Salama, S., Sokolov, A., Swatloski, T., Uzunangelov, V., Waltman, P., Yau, C., Zhu, J., Hamilton, S. R., Abbott, S., Abbott, R., Dees, N. D., Delehaunty, K., Ding, L., Dooling, D. J., Eldred, J. M., Fronick, C. C., Fulton, R., Fulton, L. L., Kalicki-Veizer, J., Kanchi, K. L., Kandoth, C., Koboldt, D. C., Larson, D. E., Ley, T. J., Lin, L., Lu, C., Magrini, V. J., Mardis, E. R., McLellan, M. D., McMichael, J. F., Miller, C. A., O'Laughlin, M., Pohl, C., Schmidt, H., Smith, S. M., Walker, J., Wallis, J. W., Wendl, M. C., Wilson, R. K., Wylie, T., Zhang, Q., Burton, R., Jensen, M. A., Kahn, A., Pihl, T., Pot, D., Wan, Y., Levine, D. A., Black, A. D., Bowen, J., Frick, J., Gastier-Foster, J. M., Harper, H. A., Helsel, C., Leraas, K. M., Lichtenberg, T. M., McAllister, C., Ramirez, N. C., Sharpe, S., Wise, L., Zmuda, E., Chanock, S. J., Davidsen, T., Demchok, J. A., Eley, G., Felau, I., Sheth, M., Sofia, H., Staudt, L., Tarnuzzer, R., Wang, Z., Yang, L., Zhang, J., Omberg, L., Margolin, A., Raphael, B. J., Vandin, F., Wu, H. T., Leiserson, M. D. M., Benz, S. C., Vaske, C. J., Noushmehr, H., Wolf, D., Veer, L. V. T., Anastassiou, D., Yang, T. H. O., Lopez-Bigas, N., Gonzalez-Perez, A., Tamborero, D., Xia, Z., Li, W., Cho, D. Y., Przytycka, T., Hamilton, M., McGuire, S., Nelander, S., Johansson, P., Jörnsten, R. & Kling, T., Oct 1 2013, In: Nature Genetics. 45, 10, p. 1113-1120 8 p.

      Research output: Contribution to journal › Article › peer-review

      5099 Scopus citations
    • 2012

      Integrating multi-platform genomic data using hierarchical Bayesian relevance vector machines

      Srivastava, S., Wang, W., Zinn, P. O., Colen, R. R. & Baladandayuthapani, V., 2012, Proceedings 2012 IEEE International Workshop on Genomic Signal Processing and Statistics, GENSIPS 2012. p. 18-21 4 p. 6507716. (Proceedings - IEEE International Workshop on Genomic Signal Processing and Statistics).

      Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

      Open Access

    • Slow down to stay alive: HER4 protects against cellular stress and confers chemoresistance in neuroblastoma

      Hua, Y., Gorshkov, K., Yang, Y., Wang, W., Zhang, N. & Hughes, D. P. M., Oct 15 2012, In: Cancer. 118, 20, p. 5140-5154 15 p.

      Research output: Contribution to journal › Article › peer-review

      22 Scopus citations

    • SRMA: An r package for resequencing array data analysis

      Zhang, N., Xu, Y., O'hely, M., Speed, T. P., Scharfe, C. & Wang, W., Jul 2012, In: Bioinformatics. 28, 14, p. 1928-1930 3 p., bts286.

      Research output: Contribution to journal › Article › peer-review

      2 Scopus citations
    • 2011

      High-quality DNA sequence capture of 524 disease candidate genes

      Shen, P., Wang, W., Krishnakumar, S., Palm, C., Chi, A. K., Enns, G. M., Davis, R. W., Speed, T. P., Mindrinos, M. N. & Scharfe, C., Apr 19 2011, In: Proceedings of the National Academy of Sciences of the United States of America. 108, 16, p. 6549-6554 6 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      47 Scopus citations

    • Identification of rare DNA variants in mitochondrial disorders with improved array-based sequencing

      Wang, W., Shen, P., Thiyagarajan, S., Lin, S., Palm, C., Horvath, R., Klopstock, T., Cutler, D., Pique, L., Schrijver, I., Davis, R. W., Mindrinos, M., Speed, T. P. & Scharfe, C., Jan 2011, In: Nucleic acids research. 39, 1, p. 44-58 15 p.

      Research output: Contribution to journal › Article › peer-review

      18 Scopus citations
    • 2010

      A molecular inversion probe assay for detecting alternative splicing

      Lin, S., Wang, W., Palm, C., Davis, R. W. & Juneau, K., Dec 17 2010, In: BMC genomics. 11, 1, 712.

      Research output: Contribution to journal › Article › peer-review

      6 Scopus citations

    • Estimating CDKN2A carrier probability and personalizing cancer risk assessments in hereditary melanoma using melaPRO

      Wang, W., Niendorf, K. B., Patel, D., Blackford, A., Marroni, F., Sober, A. J., Parmigiani, G. & Tsao, H., Jan 15 2010, In: Cancer Research. 70, 2, p. 552-559 8 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      36 Scopus citations
    • 2008

      Estimating genome-wide copy number using allele-specific mixture models

      Wang, W., Carvalho, B., Miller, N. D., Pevsner, J., Chakravarti, A. & Irizarry, R. A., Sep 1 2008, In: Journal of Computational Biology. 15, 7, p. 857-866 10 p.

      Research output: Contribution to journal › Article › peer-review

      13 Scopus citations