Biography

Aedín Culhane is a Director of the Limerick Digital Cancer Research Centre and is a Professor of Biomedical Sciences (Cancer Genomics) in the UL School of Medicine. She is a computational oncologist with expertise in multi-omics data integration, statistical genomics, clinical bioinformatics and genomics in oncology. She has over 20 years' experience in cancer genomics, of which over 15 years were in the Dana-Farber Cancer Institute and Harvard TH Chan School of Public Health in Boston, USA. Her recent research focuses on algorithm development and integrative data of single cell molecular data in cancer to identify molecules that regulate and can be targeted during tumour development, progression, drug response and resistance. She is a leader in the Bioconductor (www.bioconductor.org) community, a global open source, open development software in R for genomics and an advocate for open source science. She is PI of the all-island eHealth- Hub for Cancer funded under the HEA North-South program in partnership with Prof Mark Lawler, Queens University Belfast. She is a member of the Ireland 1+ million genome program and is a PI in the Genomic Data Infrastructure that will be an important step toward realising 1+MG.

Google Scholar: https://scholar.google.com/citations?user=O8OszPcAAAAJ
LinkedIn Profile https://www.linkedin.com/in/aedinculhane/
ORC ID https://orcid.org/my-orcid?orcid=0000-0002-1395-9734
eHealth Hub for Cancer https://ehealth4cancer.org/


Research Interests

Cancer Computational Genomics & Digital Health
Director of the Limerick Digital Cancer Center
Lead the all-island eHealth-Hub for Cancer
Member, All-Ireland Cancer Institute Steering Group
Open Science: Bioconductor, ELIXIR, OHDSI
  • Single Cell Genomics methods for the Human Cell Atlas Program
  • Spatial Biology Methods development for the National Spatial Profiling Platform
  • Cancer genomics, clinical cancer research, translational oncology
  • Latent Space and Matrix Factorisation and Cancer Genomics algorithm development
  • Immune-Oncology, Tumor Microenvironment
  • European 1+ Million Genomes Program GDI
  • Real world evidence




Specialties: Bioconductor, R, bioinformatics, genomics, multivariate analysis, multi-omics, biostatistician, transcriptomics, proteomics, epigenomics, computational biology, mathematical oncology, tumor microenvironment, tumor immunology, neuro-immunology, kidney cancer, breast cancer, ovarian cancer, electronic health records, data harmonisation, genomics, real world data, real world evidence, data standards, open science, FAIR data

Professional Activities

Committee

  • 2023 1 Million Genomes (1+MG) Working groups 3 and 9, Irish mirror group,
  • 2023 Single Cell Network, ELIXIR,
  • 2022 EHS Research Committee,
  • 2020 Bioconductor Community Advisory Board,
  • 2014 Bioconductor Technical Advisory Board,

Association

  • 2023 Board Member, Irish Association for Cancer Research (IACR)
  • 2021 Board of Directors, Massive Analysis and Quality Control Society (MAQC) Society
  • 2021 Member, European Association for Cancer Research (EACR)
  • 2007 Member, American Association for Cancer Research (AACR)
  • 2000 Member, The International Society for Computational Biology (ISCB)

Employment

  • 2021 University of Limerick - Professor
  • 2006 Dana Farber Cancer Institute -
  • 2005 Harvard T.H. Chan School of Public Health -

Award

  • 2021 - Bioconductor Community Award

Education

  • 2005 University College Dublin -
  • 2003 University College Cork -
  • 2000 University of Manchester -

Research Collaborators

  • Professor Mark Lawler - Funding Award - Queen's University Belfast -Northern Ireland -NI Partner in the eHealth-Hub For Cancer
  • Prof Wayne Marasco and Dr Yufei Wang - Funding Award - Harvard Medical School -USA -Optimizing 2nd Generation Dual-Targeted Fine-tuned Immune-Restoring (DFIR) CAR T Cells to Improve Cures of Advanced clear cell Renal Cell Carcinoma (Dana-Farber Cancer Institute)
  • Prof Constantine Mitsiades - Joint Publication - Harvard Medical School -USA

Peer Reviewed Journals

2023

Genome-scale functional genomics identify genes preferentially essential for multiple myeloma cells compared to other neoplasias

de Matos Simoes R.;Shirasaki R.;Downey-Kopyscinski S.L.;Matthews G.M.;Barwick B.G.;Gupta V.A.;Dupéré-Richer D.;Yamano S.;Hu Y.;Sheffer M.;Dhimolea E.;Dashevsky O.;Gandolfi S.;Ishiguro K.;Meyers R.M.;Bryan J.G.;Dharia N.V.;Hengeveld P.J.;Brüggenthies J.B.;Tang H.;Aguirre A.J.;Sievers Q.L.;Ebert B.L.;Glassner B.J.;Ott C.J.;Bradner J.E.;Kwiatkowski N.P.;Auclair D.;Levy J.;Keats J.J.;Groen R.W.J.;Gray N.S.;Culhane A.C.;McFarland J.M.;Dempster J.M.;Licht J.D.;Boise L.H.;Hahn W.C.;Vazquez F.;Tsherniak A.;Mitsiades C.S. (2023) Genome-scale functional genomics identify genes preferentially essential for multiple myeloma cells compared to other neoplasias. Nature Cancer :754-773

2022

Multi-omic spatial profiling reveals the unique virus-driven immune landscape of COVID-19 placentitis

Matthew Pugh,Éanna Fennell,Ciara I Leahy,Tracey Perry,Beata Hargitai,Tamas Marton,Kelly J. Hunter,Graham Halford,Hale Onder Yilmaz,Zania Stamataki,Gary Reynolds,Harriet J. Hill,Benjamin E. Willcox,Neil Steven,Catherine A. Thornton,Stefan D. Dojcinov,Aedin Culhane,Paul G. Murray,Graham S. Taylor (2022) Multi-omic spatial profiling reveals the unique virus-driven immune landscape of COVID-19 placentitis. bioRxiv

2022

Anti-CAIX BBζ CAR4/8 T cells exhibit superior efficacy in a ccRCC mouse model

Wang Y.;Buck A.;Grimaud M.;Culhane A.C.;Kodangattil S.;Razimbaud C.;Bonal D.M.;Nguyen Q.D.;Zhu Z.;Wei K.;O'Donnell M.L.;Huang Y.;Signoretti S.;Choueiri T.K.;Freeman G.J.;Zhu Q.;Marasco W.A. (2022) Anti-CAIX BBζ CAR4/8 T cells exhibit superior efficacy in a ccRCC mouse model. Molecular Therapy Oncolytics :385-399

2021

Development of dual-targeted fine-tuned immune restoring (DFIR) CAR T cell therapy for clear cell renal cell carcinoma (ccRCC)

Wang, Yufei;Buck, Alicia;Grimaud, Marion;Kodangattil, Sreekumar;Razimbaud, Cecile;Fayed, Atef;Chang, Matthew;Culhane, Aedin;Braun, David A.;Choueiri, Toni K.;Wu, Catherine J.;Wei, Kevin S.;Chan, Leo L.;Piel, Brandon P.;Ivanova, Elena V.;Paweletz, Cloud P.;Barbie, David A.;Jennings, Rebecca;Ficial, Miriam;Sticco-Ivins, Maura Aliezah;Signoretti, Sabina;Freeman, Gordon J.;Zhu, Quan K.;Marasco, Wayne A.; (2021) Development of dual-targeted fine-tuned immune restoring (DFIR) CAR T cell therapy for clear cell renal cell carcinoma (ccRCC). Cancer Research

2021

Community-wide hackathons to identify central themes in single-cell multi-omics (vol 22, 220, 2021)

Cao, Kim-Anh Le;Abadi, Al J.;Davis-Marcisak, Emily F.;Hsu, Lauren;Arora, Arshi;Coullomb, Alexis;Deshpande, Atul;Feng, Yuzhou;Jeganathan, Pratheepa;Loth, Melanie;Meng, Chen;Mu, Wancen;Pancaldi, Vera;Sankaran, Kris;Righelli, Dario;Singh, Amrit;Sodicoff, Joshua S.;Stein-O'Brien, Genevieve L.;Subramanian, Ayshwarya;Welch, Joshua D.;You, Yue;Argelaguet, Ricard;Carey, Vincent J.;Dries, Ruben;Greene, Casey S.;Holmes, Susan;Love, Michael I.;Ritchie, Matthew E.;Yuan, Guo-Cheng;Culhane, Aedin C.;Fertig, Elana; (2021) Community-wide hackathons to identify central themes in single-cell multi-omics (vol 22, 220, 2021). Genome Biology

2021

Functional Genomics Identify Distinct and Overlapping Genes Mediating Resistance to Different Classes of Heterobifunctional Degraders of Oncoproteins

Shirasaki, Ryosuke;Matthews, Geoffrey M.;Gandolfi, Sara;Simoes, Ricardo de Matos;Buckley, Dennis L.;Vora, Joseline Raja;Sievers, Quinlan L.;Bruggenthies, Johanna B.;Dashevsky, Olga;Poarch, Haley;Tang, Huihui;Bariteau, Megan A.;Sheffer, Michal;Hu, Yiguo;Downey-Kopyscinski, Sondra L.;Hengeveld, Paul J.;Glassner, Brian J.;Dhimolea, Eugen;Ott, Christopher J.;Zhang, Tinghu;Kwiatkowski, Nicholas P.;Laubach, Jacob P.;Schlossman, Robert L.;Richardson, Paul G.;Culhane, Aedin C.;Groen, Richard W. J.;Fischer, Eric S.;Vazquez, Francisca;Tsherniak, Aviad;Hahn, William C.;Levy, Joan;Auclair, Daniel;Licht, Jonathan D.;Keats, Jonathan J.;Boise, Lawrence H.;Ebert, Benjamin L.;Bradner, James E.;Gray, Nathanael S.;Mitsiades, Constantine S.; (2021) Functional Genomics Identify Distinct and Overlapping Genes Mediating Resistance to Different Classes of Heterobifunctional Degraders of Oncoproteins. Cell Reports

2021

Landscape of molecular events regulating tumor cell responses to natural killer cells

Sheffer, Michal;Lowry, Emily;Beelen, Nicky;Borah, Minasri;Naffar-Abu Amara, Suha;Mader, Chris C.;Roth, Jennifer;Tsherniak, Aviad;Dashevsky, Olga;Gandolfi, Sara;Bender, Samantha;Bryan, Jordan;Zhu, Cong;Wang, Li;Simoes, Ricardo De-Matos;Yu, Channing;Hu, Yiguo;Dufva, Olli;Giannakis, Marios;Golub, Todd;Romee, Rizwan;Mustjoki, Satu;Culhane, Aedin C.;Wieten, Lotte;Mitsiades, Constantine S.; (2021) Landscape of molecular events regulating tumor cell responses to natural killer cells. Cancer immunology research

2021

Treatment persistence of residual breast tumors through an embryonic diapause-like cancer cell state with suppressed myc activity

Dhimolea, Eugen;Simoes, Ricardo De Matos;Kansara, Dhvanir;Bouyssou, Juliette;Roth, Jennifer;Sheffer, Michal;Jeselsohn, Rinath;Gray, Nathanael;Steidl, Ulrich;Bartholdy, Boris;Brown, Myles;Culhane, Aedin;Mitsiades, Constantine; (2021) Treatment persistence of residual breast tumors through an embryonic diapause-like cancer cell state with suppressed myc activity. Cancer Research

2021

Curated Single Cell Multimodal Landmark Datasets for R/Bioconductor

Kelly B. Eckenrode;Dario Righelli;Marcel Ramos;Ricard Argelaguet;Christophe Vanderaa;Ludwig Geistlinger;Aedin Culhane;Laurent Gatto;Vincent Carey;Martin Morgan;Davide Risso;Levi Waldron; (2021) Curated Single Cell Multimodal Landmark Datasets for R/Bioconductor. Biorxiv : The Preprint Server For Biology

2021

An Embryonic Diapause-like Adaptation with Suppressed Myc Activity Enables Tumor Treatment Persistence

Dhimolea, Eugen;Simoes, Ricardo de Matos;Kansara, Dhvanir;Al'Khafaji, Aziz;Bouyssou, Juliette;Weng, Xiang;Sharma, Shruti;Raja, Joseline;Awate, Pallavi;Shirasaki, Ryosuke;Tang, Huihui;Glassner, Brian J.;Liu, Zhiyi;Gao, Dong;Bryan, Jordan;Bender, Samantha;Roth, Jennifer;Scheffer, Michal;Jeselsohn, Rinath;Gray, Nathanael S.;Georgakoudi, Irene;Vazquez, Francisca;Tsherniak, Aviad;Chen, Yu;Welm, Alana;Duy, Cihangir;Melnick, Ari;Bartholdy, Boris;Brown, Myles;Culhane, Aedin C.;Mitsiades, Constantine S.; (2021) An Embryonic Diapause-like Adaptation with Suppressed Myc Activity Enables Tumor Treatment Persistence. Cancer Cell

2021

ACHIEVE CLEAR CELL RENAL CELL CARCINOMA (CCRCC) CURES THROUGH DUAL-TARGETED FINE-TUNED IMMUNE RESTORING (DFIR) CAR-T CELL THERAPY

Wang, Y.;Buck, A.;Grimaud, M.;Kodangattil, S.;Razimbaud, C.;Fayed, A.;Chang, M. R.;Culhane, A.;Braun, D.;Choueiri, T. K.;Wu, C.;Wei, K.;Chan, L. L.;Piel, B. P.;Ivanova, E.;Paweletz, C. P.;Barbie, D.;Jenning, R.;Ficial, M.;Sticco-Ivins, M.;Signoretti, S.;Freeman, G. J.;Zhu, Q.;Marasco, W.; (2021) ACHIEVE CLEAR CELL RENAL CELL CARCINOMA (CCRCC) CURES THROUGH DUAL-TARGETED FINE-TUNED IMMUNE RESTORING (DFIR) CAR-T CELL THERAPY. Cytotherapy

2021

Genome-scale screens identify factors regulating tumor cell responses to natural killer cells

Sheffer, Michal;Lowry, Emily;Beelen, Nicky;Borah, Minasri;Naffar-Abu Amara, Suha;Mader, Chris C.;Roth, Jennifer A.;Tsherniak, Aviad;Freeman, Samuel S.;Dashevsky, Olga;Gandolfi, Sara;Bender, Samantha;Bryan, Jordan G.;Zhu, Cong;Wang, Li;Tariq, Ifrah;Kamath, Govinda M.;Simoes, Ricardo De Matos;Dhimolea, Eugen;Yu, Channing;Hu, Yiguo;Dufva, Olli;Giannakis, Marios;Syrgkanis, Vasilis;Fraenkel, Ernest;Golub, Todd;Romee, Rizwan;Mustjoki, Satu;Culhane, Aedin C.;Wieten, Lotte;Mitsiades, Constantine S.; (2021) Genome-scale screens identify factors regulating tumor cell responses to natural killer cells. Nature Genetics

2021

Community-wide hackathons to identify central themes in single-cell multi-omics

Cao, Kim-Anh Le;Abadi, Al J.;Davis-Marcisak, Emily F.;Hsu, Lauren;Arora, Arshi;Coullomb, Alexis;Deshpande, Atul;Feng, Yuzhou;Jeganathan, Pratheepa;Loth, Melanie;Meng, Chen;Mu, Wancen;Pancaldi, Vera;Sankaran, Kris;Singh, Amrit;Sodicoff, Joshua S.;Stein-O'Brien, Genevieve L.;Subramanian, Ayshwarya;Welch, Joshua D.;You, Yue;Argelaguet, Ricard;Carey, Vincent J.;Dries, Ruben;Greene, Casey S.;Holmes, Susan;Love, Michael, I;Ritchie, Matthew E.;Yuan, Guo-Cheng;Culhane, Aedin C.;Fertig, Elana; (2021) Community-wide hackathons to identify central themes in single-cell multi-omics. Genome Biology

2020

Use of Olfactory Receptor Genes As Controls for Genome-Scale CRISPR Functional Genomic Studies to Define Treatment Resistance Mechanisms

Dashevsky, Olga;Simoes, Ricardo De Matos;Shirasaki, Ryosuke;Sheffer, Michal;Dhimolea, Eugen;Gandolfi, Sara;Tang, Huihui;Downey-Kopyscinski, Sondra L.;Bariteau, Megan;Sorrell, Jeffrey;Glassner, Brian;Doench, John;Boise, Larry H.;Licht, Jonathan D.;Culhane, Aedin;Hahn, William C.;Vazquez, Francisca;Tsherniak, Aviad;Mitsiades, Constantine S.; (2020) Use of Olfactory Receptor Genes As Controls for Genome-Scale CRISPR Functional Genomic Studies to Define Treatment Resistance Mechanisms. Blood

2020

POU2AF1 As a Master Regulator of Oncogenic Transcription Factor Networks in Myeloma

Simoes, Ricardo De Matos;Shirasaki, Ryosuke;Tang, Huihui;Yamano, Shizuka;Barwick, Benjamin G.;Gandolfi, Sara;Dhimolea, Eugen;Downey-Kopyscinski, Sondra L.;Dashevsky, Olga;Glassner, Brian;Sheffer, Michal;Kansara, Dhvanir;Bariteau, Megan;Sorrell, Jeffrey;Gupta, Vikas;Culhane, Aedin;Tsherniak, Aviad;Vazquez, Francisca;Boise, Larry H.;Licht, Jonathan D.;Mitsiades, Constantine S.; (2020) POU2AF1 As a Master Regulator of Oncogenic Transcription Factor Networks in Myeloma. Blood

2020

Risk of hydroxychloroquine alone and in combination with azithromycin in the treatment of rheumatoid arthritis: a multinational, retrospective study

Lane, J.C.E.;Weaver, J.;Kostka, K.;Duarte-Salles, T.;Abrahao, M.T.F.;Alghoul, H.;Alser, O.;Alshammari, T.M.;Biedermann, P.;Banda, J.M.;Burn, E.;Casajust, P.;Conover, M.M.;Culhane, A.C.;Davydov, A.;DuVall, S.L.;Dymshyts, D.;Fernandez-Bertolin, S.;Fišter, K.;Hardin, J.;Hester, L.;Hripcsak, G.;Kaas-Hansen, B.S.;Kent, S.;Khosla, S.;Kolovos, S.;Lambert, C.G.;van der Lei, J.;Lynch, K.E.;Makadia, R.;Margulis, A.V.;Matheny, M.E.;Mehta, P.;Morales, D.R.;Morgan-Stewart, H.;Mosseveld, M.;Newby, D.;Nyberg, F.;Ostropolets, A.;Park, R.W.;Prats-Uribe, A.;Rao, G.A.;Reich, C.;Reps, J.;Rijnbeek, P.;Sathappan, S.M.K.;Schuemie, M.;Seager, S.;Sena, A.G.;Shoaibi, A.;Spotnitz, M.;Suchard, M.A.;Torre, C.O.;Vizcaya, D.;Wen, H.;de Wilde, M.;Xie, J.;You, S.C.;Zhang, L.;Zhuk, O.;Ryan, P.;Prieto-Alhambra, D.; (2020) Risk of hydroxychloroquine alone and in combination with azithromycin in the treatment of rheumatoid arthritis: a multinational, retrospective study. The Lancet Rheumatology

2020

Deep phenotyping of 34,128 adult patients hospitalised with COVID-19 in an international network study

Burn, E.;You, S.C.;Sena, A.G.;Kostka, K.;Abedtash, H.;Abrahão, M.T.F.;Alberga, A.;Alghoul, H.;Alser, O.;Alshammari, T.M.;Aragon, M.;Areia, C.;Banda, J.M.;Cho, J.;Culhane, A.C.;Davydov, A.;DeFalco, F.J.;Duarte-Salles, T.;DuVall, S.;Falconer, T.;Fernandez-Bertolin, S.;Gao, W.;Golozar, A.;Hardin, J.;Hripcsak, G.;Huser, V.;Jeon, H.;Jing, Y.;Jung, C.Y.;Kaas-Hansen, B.S.;Kaduk, D.;Kent, S.;Kim, Y.;Kolovos, S.;Lane, J.C.E.;Lee, H.;Lynch, K.E.;Makadia, R.;Matheny, M.E.;Mehta, P.P.;Morales, D.R.;Natarajan, K.;Nyberg, F.;Ostropolets, A.;Park, R.W.;Park, J.;Posada, J.D.;Prats-Uribe, A.;Rao, G.;Reich, C.;Rho, Y.;Rijnbeek, P.;Schilling, L.M.;Schuemie, M.;Shah, N.H.;Shoaibi, A.;Song, S.;Spotnitz, M.;Suchard, M.A.;Swerdel, J.N.;Vizcaya, D.;Volpe, S.;Wen, H.;Williams, A.E.;Yimer, B.B.;Zhang, L.;Zhuk, O.;Prieto-Alhambra, D.;Ryan, P.; (2020) Deep phenotyping of 34,128 adult patients hospitalised with COVID-19 in an international network study. Nature Communications

2019

Systematic Characterization of Genes Representing Preferential Molecular Vulnerabilities for Myeloma Cells Compared to Other Neoplasias - Implications for the Biology and Therapeutic Targeting of Myeloma

Simoes, Ricardo De Matos;Shirasaki, Ryosuke;Downey-Kopyscinski, Sondra L.;Matthews, Geoffrey;Yiguo, Hu;Sheffer, Michal;Dhimolea, Eugen;Dashevsky, Olga;Gandolfi, Sara;Dempster, Joshua;Meyers, Robin M.;Bryan, Jordan;McFarland, James M.;Brueggenthies, Johanna;Tang, Huihui;Bariteau, Megan;Borah, Minasri;Sievers, Quinlan L.;Ebert, Benjamin;Glassner, Brian;Ott, Christopher J.;Kwiatkowski, Nicholas P.;Doench, John G.;Auclair, Daniel;Levy, Joan;Boise, Lawrence H.;Keats, Jonathan J.;Licht, Jonathan D.;Groen, Richard;Gray, Nathanael;Culhane, Aedin;Hahn, William C.;Vazquez, Francisca;Tsherniak, Aviad;Mitsiades, Constantine S.; (2019) Systematic Characterization of Genes Representing Preferential Molecular Vulnerabilities for Myeloma Cells Compared to Other Neoplasias - Implications for the Biology and Therapeutic Targeting of Myeloma. Blood

2019

Erratum: The Immune Landscape of Cancer (Immunity (2018) 48(4) (812â€'830.e14), (S1074761318301213), (10.1016/j.immuni.2018.03.023))

Thorsson, V.;Gibbs, D.L.;Brown, S.D.;Wolf, D.;Bortone, D.S.;Ou Yang, T.-H.;Porta-Pardo, E.;Gao, G.F.;Plaisier, C.L.;Eddy, J.A.;Ziv, E.;Culhane, A.C.;Paull, E.O.;Sivakumar, I.K.A.;Gentles, A.J.;Malhotra, R.;Farshidfar, F.;Colaprico, A.;Parker, J.S.;Mose, L.E.;Vo, N.S.;Liu, J.;Liu, Y.;Rader, J.;Dhankani, V.;Reynolds, S.M.;Bowlby, R.;Califano, A.;Cherniack, A.D.;Anastassiou, D.;Bedognetti, D.;Mokrab, Y.;Newman, A.M.;Rao, A.;Chen, K.;Krasnitz, A.;Hu, H.;Malta, T.M.;Noushmehr, H.;Pedamallu, C.S.;Bullman, S.;Ojesina, A.I.;Lamb, A.;Zhou, W.;Shen, H.;Choueiri, T.K.;Weinstein, J.N.;Guinney, J.;Saltz, J.;Holt, R.A.;Rabkin, C.S.;Caesar-Johnson, S.J.;Demchok, J.A.;Felau, I.;Kasapi, M.;Ferguson, M.L.;Hutter, C.M.;Sofia, H.J.;Tarnuzzer, R.;Wang, Z.;Yang, L.;Zenklusen, J.C.;Zhang, J.J.;Chudamani, S.;Liu, J.;Lolla, L.;Naresh, R.;Pihl, T.;Sun, Q.;Wan, Y.;Wu, Y.;Cho, J.;DeFreitas, T.;Frazer, S.;Gehlenborg, N.;Getz, G.;Heiman, D.I.;Kim, J.;Lawrence, M.S.;Lin, P.;Meier, S.;Noble, M.S.;Saksena, G.;Voet, D.;Zhang, H.;Bernard, B.;Chambwe, N.;Knijnenburg, T.;Kramer, R.;Leinonen, K.;Miller, M.;Reynolds, S.;Shmulevich, I.;Thorsson, V.;Zhang, W.;Akbani, R.;Broom, B.M.;Hegde, A.M.;Ju, Z.;Kanchi, R.S.;Korkut, A.;Li, J.;Liang, H.;Ling, S.;Liu, W.;Lu, Y.;Mills, G.B.;Ng, K.-S.;Ryan, M.;Wang, J.;Zhang, J.;Abeshouse, A.;Armenia, J.;Chakravarty, D.;Chatila, W.K.;de Bruijn, I.;Gao, J.;Gross, B.E.;Heins, Z.J.;Kundra, R.;La, K.;Ladanyi, M.;Luna, A.;Nissan, M.G.;Ochoa, A.;Phillips, S.M.;Reznik, E.;Sanchez-Vega, F.;Sander, C.;Schultz, N.;Sheridan, R.;Sumer, S.O.;Sun, Y.;Taylor, B.S.;Wang, J.;Zhang, H.;Anur, P.;Peto, M.;Spellman, P.;Benz, C.;Stuart, J.M.;Wong, C.K.;Yau, C.;Hayes, D.N.;Wilkerson, M.D.;Ally, A.;Balasundaram, M.;Brooks, D.;Carlsen, R.;Chuah, E.;Dhalla, N.;Holt, R.;Jones, S.J.M.;Kasaian, K.;Lee, D.;Ma, Y.;Marra, M.A.;Mayo, M.;Moore, R.A.;Mungall, A.J.;Mungall, K.;Robertson, A.G.;Sadeghi, S.;Schein, J.E.;Sipahimalani, P.;Tam, A.;Thiessen, N.;Tse, K.;Wong, T.;Berger, A.C.;Beroukhim, R.;Cibulskis, C.;Gabriel, S.B.;Ha, G.;Meyerson, M.;Schumacher, S.E.;Shih, J.;Kucherlapati, M.H.;Kucherlapati, R.S.;Baylin, S.;Cope, L.;Danilova, L.;Bootwalla, M.S.;Lai, P.H.;Maglinte, D.T.;Van Den Berg, D.J.;Weisenberger, D.J.;Auman, J.T.;Balu, S.;Bodenheimer, T.;Fan, C.;Hoadley, K.A.;Hoyle, A.P.;Jefferys, S.R.;Jones, C.D.;Meng, S.;Mieczkowski, P.A.;Perou, A.H.;Perou, C.M.;Roach, J.;Shi, Y.;Simons, J.V.;Skelly, T.;Soloway, M.G.;Tan, D.;Veluvolu, U.;Fan, H.;Hinoue, T.;Laird, P.W.;Bellair, M.;Chang, K.;Covington, K.;Creighton, C.J.;Dinh, H.;Doddapaneni, H.;Donehower, L.A.;Drummond, J.;Gibbs, R.A.;Glenn, R.;Hale, W.;Han, Y.;Hu, J.;Korchina, V.;Lee, S.;Lewis, L.;Li, W.;Liu, X.;Morgan, M.;Morton, D.;Muzny, D.;Santibanez, J.;Sheth, M.;Shinbrot, E.;Wang, L.;Wang, M.;Wheeler, D.A.;Xi, L.;Zhao, F.;Hess, J.;Appelbaum, E.L.;Bailey, M.;Cordes, M.G.;Ding, L.;Fronick, C.C.;Fulton, L.A.;Fulton, R.S.;Kandoth, C.;Mardis, E.R.;McLellan, M.D.;Miller, C.A.;Schmidt, H.K.;Wilson, R.K.;Crain, D.;Curley, E.;Gardner, J.;Lau, K.;Mallery, D.;Morris, S.;Paulauskis, J.;Penny, R.;Shelton, C.;Shelton, T.;Sherman, M.;Thompson, E.;Yena, P.;Bowen, J.;Gastier-Foster, J.M.;Gerken, M.;Leraas, K.M.;Lichtenberg, T.M.;Ramirez, N.C.;Wise, L.;Zmuda, E.;Corcoran, N.;Costello, T.;Hovens, C.;Carvalho, A.L.;de Carvalho, A.C.;Fregnani, J.H.;Longatto-Filho, A.;Reis, R.M.;Scapulatempo-Neto, C.;Silveira, H.C.S.;Vidal, D.O.;Burnette, A.;Eschbacher, J.;Hermes, B.;Noss, A.;Singh, R.;Anderson, M.L.;Castro, P.D.;Ittmann, M.;Huntsman, D.;Kohl, B.;Le, X.;Thorp, R.;Andry, C.;Duffy, E.R.;Lyadov, V.;Paklina, O.;Setdikova, G.;Shabunin, A.;Tavobilov, M.;McPherson, C.;Warnick, R.;Berkowitz, R.;Cramer, D.;Feltmate, C.;Horowitz, N.;Kibel, A.;Muto, M.;Raut, C.P.;Malykh, A.;Barnholtz-Sloan, J.S.;Barrett, W.;Devine, K.;Fulop, J.;Ostrom, Q.T.;Shimmel, K.;Wolinsky, Y.;Sloan, A.E.;De Rose, A.;Giuliante, F.;Goodman, M.;Karlan, B.Y.;Hagedorn, C.H.;Eckman, J.;Harr, J.;Myers, J.;Tucker, K.;Zach, L.A.;Deyarmin, B.;Kvecher, L.;Larson, C.;Mural, R.J.; (2019) Erratum: The Immune Landscape of Cancer (Immunity (2018) 48(4) (812â€'830.e14), (S1074761318301213), (10.1016/j.immuni.2018.03.023)). Immunity

2019

CRISPR-based functional genomics landscape of genes recurrently mutated in MM

Simoes, Ricardo de Matos;Shirasaki, Ryosuke;Tang, Huihui;Sheffer, Michal;Dashevsky, Olga;Downey-Kopyscinski, Sondra;Dhimolea, Eugen;Bariteau, Megan;Licht, Jonathan;Glassner, Brian J.;Levy, Joan;Auclair, Daniel;Vazquez, Francisca;Tsherniak, Aviad;Hahn, William;Culhane, Aedin;Mitsiades, Constantine; (2019) CRISPR-based functional genomics landscape of genes recurrently mutated in MM. Clinical Lymphoma Myeloma And Leukemia

2019

Molecular markers of myeloma cell sensitivity vs. resistance to heterobifunctional degraders of oncoproteins: therapeutic implications

Shirasaki, Ryosuke;Simoes, Ricardo de Matos;Gandolfi, Sara;Matthews, Geoffrey;Buckley, Dennis;Raja, Joseline;Sievers, Quinlan;Bruggenthies, Johanna;Dashevsky, Olga;Poarch, Haley;Tang, Huihui;Bariteau, Megan;Sheffer, Michal;Hu, Yiguo;Downey-Kopyscinski, Sondra;Hengeveld, Paul;Glassner, Brian J.;Dhimolea, Eugen;Ott, Christopher;Zhang, Tinghu;Kwiatkowski, Nicholas;Laubach, Jacob;Schlossman, Robert;Culhane, Aedin;Richardson, Paul G.;Groen, Richard;Fischer, Eric;Vazquez, Francisca;Tsherniak, Aviad;Hahn, William;Levy, Joan;Auclair, Daniel;Licht, Jonathan;Keats, Jonathan;Boise, Lawrence;Ebert, Benjamin;Bradner, James;Gray, Nathanael;Mitsiades, Constantine; (2019) Molecular markers of myeloma cell sensitivity vs. resistance to heterobifunctional degraders of oncoproteins: therapeutic implications. Clinical Lymphoma Myeloma And Leukemia

2019

CRISPR studies identify genes preferentially essential for myeloma cells vs. other neoplasias: implications for future therapies selective against MM

Shirasaki, Ryosuke;Simoes, Ricardo de Matos;Downey-Kopyscinski, Sondra;Matthews, Geoffrey;Hu, Yiguo;Sheffer, Michal;Dhimolea, Eugen;Dashevsky, Olga;Gandolfi, Sara;Hengeveld, Paul;Dempster, Joshua;Meyers, Robin;Bryan, Jordan;Dharia, Neekesh;McFarland, James;Sarkar, Subhashis;Bruggenthies, Johanna;Tang, Huihui;Bariteau, Megan;Aguirre, Andrew;Borah, Minasri;Sievers, Quinlan;Ebert, Benjamin;Raja, Joseline;Glassner, Brian J.;Ott, Christopher;Bradner, James;Kwiatkowski, Nicholas;Auclair, Daniel;Levy, Joan;Poarch, Haley;Zhang, Tinghu;Laubach, Jacob;Buckley, Dennis;Schlossman, Robert;Groen, Richard;Fischer, Eric;Richardson, Paul G.;Keats, Jonathan;Boise, Lawrence;Licht, Jonathan;Culhane, Aedin;Gray, Nathanael;Hahn, William;Vazquez, Francisca;Tsherniak, Aviad;Mitsiades, Constantine; (2019) CRISPR studies identify genes preferentially essential for myeloma cells vs. other neoplasias: implications for future therapies selective against MM. Clinical Lymphoma Myeloma And Leukemia

2019

Functional Characterization of E3 Ligases and Their Regulators: Therapeutic Implications for Development of New Proteolysis-Targeting Chimeric Degraders of Oncoproteins

Shirasaki, Ryosuke;Gandolfi, Sara;Simoes, Ricardo De Matos;Matthews, Geoffrey M.;Buckley, Dennis;Raja, Joseline;Sievers, Quinlan L.;Dashevsky, Olga;Poarch, Haley;Tang, Huihui;Bariteau, Megan;Sheffer, Michal;Downey-Kopyscinski, Sondra L.;Hengeveld, Paul;Glassner, Brian;Dhimolea, Eugen;Ott, Christopher J.;Zhang, Tinghu;Kwiatkowski, Nicholas P.;Laubach, Jacob P.;Schlossman, Robert L.;Richardson, Paul G.;Culhane, Aedin;Groen, Richard W. J.;Fischer, Eric;Ebert, Benjamin L.;Vazquez, Francisca;Tsherniak, Aviad;Hahn, William C.;Levy, Joan;Auclair, Daniel;Licht, Jonathan D.;Keats, Jonathan J.;Boise, Lawrence H.;Bradner, James;Gray, Nathanael;Mitsiades, Constantine S.; (2019) Functional Characterization of E3 Ligases and Their Regulators: Therapeutic Implications for Development of New Proteolysis-Targeting Chimeric Degraders of Oncoproteins. Blood

2018

The Immune Landscape of Cancer.

Thorsson V;Gibbs DL;Brown SD;Wolf D;Bortone DS;Ou Yang TH;Porta-Pardo E;Gao GF;Plaisier CL;Eddy JA;Ziv E;Culhane AC;Paull EO;Shmulevich L; (2018) The Immune Landscape of Cancer.. Immunity

2018

CRISPR-Based Functional Genomics Studies Reveal Distinct and Overlapping Genes Mediating Resistance to Different Classes of Heterobifunctional Degraders of Oncoproteins: Implications for Novel Therapeutics across Diverse Neoplasias

Shirasaki, Ryosuke;Gandolfi, Sara;Simoes, Ricardo De Matos;Matthews, Geoffrey;Buckley, Dennis;Dashevsky, Olga;Downey-Kopyscinski, Sondra L.;Tang, Huihui;Sheffer, Michal;Dhimolea, Eugen;Glassner, Brian;Bariteau, Megan;Sorrell, Jeffrey;Bruggenthies, Johanna B.;Sievers, Quinlan;Poarch, Haley;Kwiatkowski, Nicholas P.;Zhang, Tinghu;Laubach, Jacob;Schlossman, Robert L.;Richardson, Paul;Culhane, Aedin;Groen, Richard W. J.;Fischer, Eric S.;Vazquez, Francisca;Tsherniak, Aviad;Hahn, William C.;Levy, Joan;Auclair, Daniel;Licht, Jonathan D.;Keats, Jonathan J.;Boise, Lawrence H.;Ebert, Benjamin L.;Bradner, James;Gray, Nathanae;Mitsiades, Constantine S.; (2018) CRISPR-Based Functional Genomics Studies Reveal Distinct and Overlapping Genes Mediating Resistance to Different Classes of Heterobifunctional Degraders of Oncoproteins: Implications for Novel Therapeutics across Diverse Neoplasias. Blood

2018

Functional Genomic Landscape of Genes with Recurrent Mutations in Multiple Myeloma

Simoes, Ricardo De Matos;Shirasaki, Ryosuke;Tang, Huihui;Sheffer, Michal;Dashevsky, Olga;Gandolfi, Sara;Dhimolea, Eugen;Bariteau, Megan;Licht, Jonathan D.;Glassner, Brian;Groen, Richard W. J.;Levy, Joan;Auclair, Daniel;Vazquez, Francisca;Tsherniak, Aviad;Hahn, William C.;Culhane, Aedin;Mitsiades, Constantine S.; (2018) Functional Genomic Landscape of Genes with Recurrent Mutations in Multiple Myeloma. Blood

2018

BRCA1-IRIS promotes human tumor progression through PTEN blockade and HIF-1α activation

Li, A.G.;Murphy, E.C.;Culhane, A.C.;Powell, E.;Wang, H.;Bronson, R.T.;Von, T.;Giobbie-Hurder, A.;Gelman, R.S.;Briggs, K.J.;Piwnica-Worms, H.;Zhao, J.J.;Kung, A.L.;Kaelin, W.G.;Livingston, D.M.; (2018) BRCA1-IRIS promotes human tumor progression through PTEN blockade and HIF-1α activation. Proceedings of the National Academy of Sciences of the United States of America

2017

In Reply.

de Velasco G;Culhane AC;Heng DYC;Signoretti S;Choueiri TK; (2017) In Reply.. Oncologist

2017

Characterization of lineage vs. context-dependent essential genes in multiple myeloma using CRISPR-Cas9 genome editing

Matthews, Geoffrey M.;Simoes, Ricardo de Matos;Hu, Yiguo;Sheffer, Michal;Dashevsky, Olga;Dhimolea, Eugen;Hengeveld, Paul J.;Glassner, Brian J.;Gandolfi, Sara;Bariteau, Megan A.;Sievers, Quinlan;Ebert, Benjamin L.;Vazquez, Franciska;Culhane, Aedin;Mitsiades, Constantine S.; (2017) Characterization of lineage vs. context-dependent essential genes in multiple myeloma using CRISPR-Cas9 genome editing. Cancer Research

2017

Pilot study of zirconium-89 bevacizumab positron emission tomography for imaging angiogenesis in patients with inflammatory breast carcinoma receiving preoperative chemotherapy

Jacene, H. A.;Overmoyer, B.;Schlosnagle, E. J.;Abbott, A.;Yeh, E.;Paolino, J.;Goel, S.;Culhane, A.;Bellon, J. R.;Nakhlis, F.;Hirshfield-Bartek, J.;Van den Abbeele, A.; (2017) Pilot study of zirconium-89 bevacizumab positron emission tomography for imaging angiogenesis in patients with inflammatory breast carcinoma receiving preoperative chemotherapy. Cancer Research

2017

In Vivo Validation of Essential Genes for Myeloma Cells By CRISPR/Cas9 Studies in a Scaffold-Based System Engineered to Establish a "Humanized" Bone Marrow-like Microenvironment

Shirasaki, Ryosuke;Tamas, Csikos;Matthews, Geoffrey;Simoes, Ricardo De Matos;Sarkar, Subhashis;Dashevsky, Olga;Hu Yiguo;Sorrell, Jeffrey;Sheffer, Michal;Dhimolea, Eugen;Bariteau, Megan;Glassner, Brian;Culhane, Aedin;Groen, Richard W. J.;Mitsiades, Constantine S.; (2017) In Vivo Validation of Essential Genes for Myeloma Cells By CRISPR/Cas9 Studies in a Scaffold-Based System Engineered to Establish a "Humanized" Bone Marrow-like Microenvironment. Blood

2017

Integration of Functional Dependencies and Molecular Alterations of Myeloma Cells

Simoes, Ricardo De Matos;Matthews, Geoffrey;Shirasaki, Ryosuke;Hu Yiguo;Sheffer, Michal;Dashevsky, Olga;Gandolfi, Sara;Hengeveld, Paul;Bruggenthies, Johanna;Dhimolea, Eugen;Tang, Huihui;Bariteau, Megan;Aguirre, Andrew;Sievers, Quinlan;Ebert, Benjamin L.;Glassner, Brian;Ott, Christopher J.;Buckley, Dennis;Kwiatkowski, Nicholas P.;Licht, Jonathan D.;Gray, Nathanael;Dempster, Joshua;Groen, Richard W. J.;Vazquez, Francisca;Tsherniak, Aviad;Hahn, William C.;Culhane, Aedin;Mitsiades, Constantine S.; (2017) Integration of Functional Dependencies and Molecular Alterations of Myeloma Cells. Blood

2017

Functional Genomic Landscape of Epigenetic Dependencies in Myeloma

Simoes, Ricardo De Matos;Matthews, Geoffrey;Richer, Daphne Dupere;Shirasaki, Ryosuke;Sheffer, Michal;Dashevsky, Olga;Gandolfi, Sara;Dhimolea, Eugen;Glassner, Brian;Groen, Richard W. J.;Vazquez, Franciska;Dempster, Joshua;Tsherniak, Aviad;Hahn, William C.;Culhane, Aedin;Licht, Jonathan D.;Mitsiades, Constantine S.; (2017) Functional Genomic Landscape of Epigenetic Dependencies in Myeloma. Blood

2016

Characterization of Lineage Vs. Context-Dependent Essential Genes in Multiple Myeloma Using Crispr/Cas9 Genome Editing

Matthews, Geoffrey M.;Simoes, Ricardo De Matos;Hu, Yiguo;Sheffer, Michal;Dhimolea, Eugen;Hengeveld, Paul J.;Bariteau, Megan A.;Glassner, Brian;Sievers, Quinlan;Ebert, Benjamin L.;Gandolfi, Sara;Awate, Pallavi;Tang, Huihui;Vazquez, Franciska;Culhane, Aedin;Mitsiades, Constantine S.; (2016) Characterization of Lineage Vs. Context-Dependent Essential Genes in Multiple Myeloma Using Crispr/Cas9 Genome Editing. Blood

2015

Prognostic value of genomic signatures in metastatic Clear Cell Renal Cell Carcinoma (mRCC) using The Cancer Genome Atlas (TCGA) data

de Velasco, Guillermo;Fay, Andre Poisl;Culhane, Aedin;Hakimi, A. Ari;Voss, Martin Henner;Tannir, Nizar M.;Tamboli, Pheroze;Appleman, Leonard Joseph;Bellmunt, Joaquim;Rathmell, Kimryn;Albiges, Laurence K.;Hsieh, James;Heng, Daniel Yick Chin;Signoretti, Sabina;Choueiri, Toni K.; (2015) Prognostic value of genomic signatures in metastatic Clear Cell Renal Cell Carcinoma (mRCC) using The Cancer Genome Atlas (TCGA) data. Clinical Oncology

2014

Taxonomy of breast cancer based on normal cell phenotype predicts outcome

Santagata, S.;Thakkar, A.;Ergonul, A.;Wang, B.;Woo, T.;Hu, R.;Harrell, J.C.;McNamara, G.;Schwede, M.;Culhane, A.C.;Kindelberger, D.;Rodig, S.;Richardson, A.;Schnitt, S.J.;Tamimi, R.M.;Ince, T.A.; (2014) Taxonomy of breast cancer based on normal cell phenotype predicts outcome. Journal Of Clinical Investigation

2013

Significance Analysis of Prognostic Signatures

Beck, A.H.;Knoblauch, N.W.;Hefti, M.M.;Kaplan, J.;Schnitt, S.J.;Culhane, A.C.;Schroeder, M.S.;Risch, T.;Quackenbush, J.;Haibe-Kains, B.; (2013) Significance Analysis of Prognostic Signatures. Plos Computational Biology

2013

Taxonomy of breast cancer based on normal cell phenotype and ontology

Thakkar, Ankita;Santagata, Sandro;Ergonul, Ayse;Wang, Bin;Woo, Terri;Hu, Rong;Harrell, J. Chuck;McNamara, George;Schwede, Matthew;Culhane, Aedin C.;Kindelberger, David;Rodig, Scott;Richardson, Andrea;Schnitt, Stuart J.;Tamimi, Rulla M.;Ince, Tan A.; (2013) Taxonomy of breast cancer based on normal cell phenotype and ontology. Molecular Cancer Research

2012

Profiles of genomic instability in high-grade serous ovarian cancer predict treatment outcome

Wang, Z.C.;Birkbak, N.J.;Culhane, A.C.;Drapkin, R.;Fatima, A.;Tian, R.;Schwede, M.;Alsop, K.;Daniels, K.E.;Piao, H.;Liu, J.;Etemadmoghadam, D.;Miron, A.;Salvesen, H.B.;Mitchell, G.;DeFazio, A.;Quackenbush, J.;Berkowitz, R.S.;Iglehart, J.D.;Bowtell, D.D.L.;Matulonis, U.A.; (2012) Profiles of genomic instability in high-grade serous ovarian cancer predict treatment outcome. Clinical Cancer Research

2012

Gene Expression Atlas update - Value-added database of microarray and sequencing-based functional genomics experiments

Kapushesky, M.;Adamusiak, T.;Burdett, T.;Culhane, A.;Farne, A.;Filippov, A.;Holloway, E.;Klebanov, A.;Kryvych, N.;Kurbatova, N.;Kurnosov, P.;Malone, J.;Melnichuk, O.;Petryszak, R.;Pultsin, N.;Rustici, G.;Tikhonov, A.;Travillian, R.S.;Williams, E.;Zorin, A.;Parkinson, H.;Brazma, A.; (2012) Gene Expression Atlas update - Value-added database of microarray and sequencing-based functional genomics experiments. Nucleic Acids Research

2012

The cocaine-and amphetamine-regulated transcript mediates ligand-independent activation of ERα, and is an independent prognostic factor in node-negative breast cancer

Brennan, D.J.;O'connor, D.P.;Laursen, H.;Mcgee, S.F.;Mccarthy, S.;Zagozdzon, R.;Rexhepaj, E.;Culhane, A.C.;Martin, F.M.;Duffy, M.J.;Landberg, G.;Ryden, L.;Hewitt, S.M.;Kuhar, M.J.;Bernards, R.;Millikan, R.C.;Crown, J.P.;Jirström, K.;Gallagher, W.M.; (2012) The cocaine-and amphetamine-regulated transcript mediates ligand-independent activation of ERα, and is an independent prognostic factor in node-negative breast cancer. Oncogene

2010

Genetic relationships between ovarian and breast cancers

Wang, Zhigang C.;Culhane, Aedin;Drapkin, Ronny;Fatima, Aquila;Tian, Ruiyang;Daniels, Kathryn E.;Kantoff, Emily;Liu, Joyce;Quackenbush, John;Richardson, Andrea L.;Berkowitz, Ross S.;Iglehart, J. Dirk;Matulonis, Ursula A.; (2010) Genetic relationships between ovarian and breast cancers. Cancer Research

2010

Therapeutic implications of GIPC1 silencing in cancer

Chittenden, T.W.;Pak, J.;Rubio, R.;Cheng, H.;Holton, K.;Prendergast, N.;Glinskii, V.;Cai, Y.;Culhane, A.;Bentink, S.;Schwede, M.;Mar, J.C.;Howe, E.A.;Aryee, M.;Sultana, R.;Lanahan, A.A.;Taylor, J.M.;Holmes, C.;Hahn, W.C.;Zhao, J.J.;Iglehart, J.D.;Quackenbush, J.; (2010) Therapeutic implications of GIPC1 silencing in cancer. Plos One

2009

Repeatability of published microarray gene expression analyses

Ioannidis, J.P.A.;Allison, D.B.;Ball, C.A.;Coulibaly, I.;Cui, X.;Culhane, A.C.;Falchi, M.;Furlanello, C.;Game, L.;Jurman, G.;Mangion, J.;Mehta, T.;Nitzberg, M.;Page, G.P.;Petretto, E.;Van Noort, V.; (2009) Repeatability of published microarray gene expression analyses. Nature Genetics

2009

A 19-Gene Classifier Distinguishes Invasive Ductal and Classic Lobular Breast Carcinomas: Amplification of Chromosome 8q Characterizes Ductal While Estrogen-Related EGR-1 Characterizes Lobular Cancers

Culhane, A. C.;Nasir, A.;Chen, D. T.;Venkataramu, C.;White, J.;Andersson, T.;Gruidl, M.;Bloom, G.;Rubio, R.;Centeno, B. A.;Quackenbush, J.;Yeatman, T. J.; (2009) A 19-Gene Classifier Distinguishes Invasive Ductal and Classic Lobular Breast Carcinomas: Amplification of Chromosome 8q Characterizes Ductal While Estrogen-Related EGR-1 Characterizes Lobular Cancers. Laboratory Investigation

2009

A 19-Gene Classifier Distinguishes Invasive Ductal and Classic Lobular Breast Carcinomas: Amplification of Chromosome 8q Characterizes Ductal While Estrogen-Related EGR-1 Characterizes Lobular Cancers

Culhane, A. C.;Nastr, A.;Chen, D. T.;Venkataramu, C.;White, J.;Anderson, T.;Gruidl, M.;Bloom, G.;Rubio, R.;Centeno, B. A.;Quackenbush, J.;Yeatman, T. J.; (2009) A 19-Gene Classifier Distinguishes Invasive Ductal and Classic Lobular Breast Carcinomas: Amplification of Chromosome 8q Characterizes Ductal While Estrogen-Related EGR-1 Characterizes Lobular Cancers. Modern Pathology

2009

Molecular classification of serous ovarian cancer subtypes

Quackenbush, John;Fan, Jian-Bing;Hirsch, Michelle;Mar, Jessica;Howe, Eleanor;Holton, Kristina;Rubio, Renee;April, Craig;Chen, Jing;Wickham-Garcia, Eliza;Liu, Joyce;Culhane, Aedin;Drapkin, Ronny;Matulonis, Ursula; (2009) Molecular classification of serous ovarian cancer subtypes. Cancer Research

2009

GeneSigDB-A curated database of gene expression signatures

Culhane, A.C.;Schwarzl, T.;Sultana, R.;Picard, K.C.;Picard, S.C.;Lu, T.H.;Franklin, K.R.;French, S.J.;Papenhausen, G.;Correll, M.;Quackenbush, J.; (2009) GeneSigDB-A curated database of gene expression signatures. Nucleic Acids Research

2008

Systematic validation of novel breast cancer progression-associated biomarkers via high-throughput antibody generation and application of tissue microarray technology

Penny, S. A.;Kelly, C. M.;Brennan, D. J.;Culhane, A. C.;Higgins, D. G.;Dervan, P. A.;Jirstrom, K.;Ponten, F.;Uhlen, M.;Gallagher, W. M.; (2008) Systematic validation of novel breast cancer progression-associated biomarkers via high-throughput antibody generation and application of tissue microarray technology. European Journal Of Cancer, Supplement

2007

Gene expression profiling of malignant melanoma: Application of TaqMan technology for high-throughput downstream validation of transcriptomic studies

Rafferty, Mairin;Donoghue, Stephen;Faller, William J.;Nolan, Ilse-Maria;Culhane, Aedin C.;Moss, Catherine;McCormick, Janet;Easty, David J.;Dervan, Peter A.;Gallagher, William M.; (2007) Gene expression profiling of malignant melanoma: Application of TaqMan technology for high-throughput downstream validation of transcriptomic studies. Anticancer Research

2005

Multiple markers for melanoma progression regulated by DNA methylation: Insights from transcriptomic studies

Gallagher, W.M.;Rafferty, M.;Kelly, Z.D.;Nolan, I.-M.;Fox, E.J.P.;Culhane, A.C.;McArdle, L.;Fraga, M.F.;Hughes, L.;Currid, C.A.;O'Mahony, F.;Byrne, A.;Murphy, A.A.;Moss, C.;McDonnell, S.;Stallings, R.L.;Plumb, J.A.;Esteller, M.;Brown, R.;Dervan, P.A.;Easty, D.J.; (2005) Multiple markers for melanoma progression regulated by DNA methylation: Insights from transcriptomic studies. Carcinogenesis

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2006

BIOMAT

Baty, Florent;Bihl, Michel P.;Brutsche, Martin;Culhane, Aedin C.;Perriere, Guy; (2006) BIOMAT. BIOMAT

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