• 65064 Citations
  • 110 h-Index
1971 …2020
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Research Output 1971 2020

2016
37 Citations (Scopus)

FOXA1 overexpression mediates endocrine resistance by altering the ER transcriptome and IL-8 expression in ER-positive breast cancer

Fu, X., Jeselsohn, R., Pereira, R., Hollingsworth, E. F., Creighton, C. J., Li, F., Shea, M., Nardone, A., De Angelis, C., Heiser, L., Anur, P., Wang, N., Grasso, C. S., Spellman, P., Griffith, O. L., Tsimelzon, A., Gutierrez, C., Huang, S., Edwards, D. P., Trivedi, M. V. & 7 others, Rimawi, M. F., Lopez-Terrada, D., Hilsenbeck, S. G., Gray, J., Brown, M., Osborne, C. K. & Schiff, R., Oct 25 2016, In : Proceedings of the National Academy of Sciences of the United States of America. 113, 43, p. E6600-E6609

Research output: Contribution to journalArticle

Interleukin-8
Transcriptome
Estrogen Receptors
Breast Neoplasms
Hepatocyte Nuclear Factor 3-alpha
1 Citation (Scopus)

Functional oncogene signatures guide rationally designed combination therapies to synergistically induce breast cancer cell death

Guest, S. T., Kratche, Z. R., Irish, J. C., Wilson, R. C., Haddad, R., Gray, J., Garrett-Mayer, E. & Ethier, S. P., 2016, In : Oncotarget. 7, 24, p. 36138-36153 16 p.

Research output: Contribution to journalArticle

Oncogenes
Cell Death
Breast Neoplasms
Neoplasms
Cell Line
25 Citations (Scopus)

Functional proteomics identifies miRNAs to target a p27/Myc/phospho-Rb signature in breast and ovarian cancer

Seviour, E. G., Sehgal, V., Lu, Y., Luo, Z., Moss, T., Zhang, F., Hill, S. M., Liu, W., Maiti, S. N., Cooper, L., Azencot, R., Lopez-Berestein, G., Rodriguez-Aguayo, C., Roopaimoole, R., Pecot, C., Sood, A. K., Mukherjee, S., Gray, J., Mills, G. & Ram, P. T., Feb 11 2016, In : Oncogene. 35, 6, p. 691-701 11 p.

Research output: Contribution to journalArticle

MicroRNAs
Proteomics
Ovarian Neoplasms
Breast Neoplasms
Neoplasms
5 Citations (Scopus)

Genome co-amplification upregulates a mitotic gene network activity that predicts outcome and response to mitotic protein inhibitors in breast cancer

Hu, Z., Mao, J. H., Curtis, C., Huang, G., Gu, S., Heiser, L., Lenburg, M. E., Korkola, J., Bayani, N., Samarajiwa, S., Seoane, J. A., Dane, M., Esch, A., Feiler, H., Wang, N. J., Hardwicke, M. A., Laquerre, S., Jackson, J., Wood, K., Weber, B. & 5 others, Spellman, P., Aparicio, S., Wooster, R., Caldas, C. & Gray, J., Jul 1 2016, In : Breast Cancer Research. 18, 1, 70.

Research output: Contribution to journalArticle

Spindle Apparatus
Gene Regulatory Networks
Up-Regulation
Genome
Breast Neoplasms
22 Citations (Scopus)

IL-10 and integrin signaling pathways are associated with head and neck cancer progression

Bornstein, S., Schmidt, M., Choonoo, G., Levin, T., Gray, J., Thomas, C., Wong, M. & McWeeney, S., Jan 8 2016, In : BMC Genomics. 17, 1, 38.

Research output: Contribution to journalArticle

Head and Neck Neoplasms
Integrins
Interleukin-10
Genes
Neoplasms
85 Citations (Scopus)

Inferring causal molecular networks: Empirical assessment through a community-based effort

Hill, S. M., Heiser, L., Cokelaer, T., Unger, M., Nesser, N. K., Carlin, D. E., Zhang, Y., Sokolov, A., Paull, E. O., Wong, C. K., Graim, K., Bivol, A., Wang, H., Zhu, F., Afsari, B., Danilova, L. V., Favorov, A. V., Lee, W. S., Taylor, D., Hu, C. W. & 18 others, Long, B. L., Noren, D. P., Bisberg, A. J., Mills, G., Gray, J., Kellen, M., Norman, T., Friend, S., Qutub, A. A., Fertig, E. J., Guan, Y., Song, M., Stuart, J. M., Spellman, P., Koeppl, H., Stolovitzky, G., Saez-Rodriguez, J. & Mukherjee, S., Mar 30 2016, In : Nature Methods. 13, 4, p. 310-318 9 p.

Research output: Contribution to journalArticle

Phosphoproteins
Learning
Nonlinear Dynamics
Computer Simulation
Visualization
4 Citations (Scopus)

Multiplexed imaging reveals heterogeneity of PI3K/MAPK network signaling in breast lesions of known PIK3CA genotype

Jacob, T., Gray, J., Troxell, M. & Vu, T. T., Oct 1 2016, In : Breast Cancer Research and Treatment. 159, 3, p. 575-583 9 p.

Research output: Contribution to journalArticle

Phosphatidylinositol 3-Kinase
Breast
Genotype
Phosphoproteins
Hyperplasia
4 Citations (Scopus)

PI3 Kinase Pathway Mutations in Human Cancers

Gray, J., Dec 1 2016, In : JAMA oncology. 2, 12, p. 1543-1544 2 p.

Research output: Contribution to journalArticle

Morpholines
Isoquinolines
Quinazolinones
Aminopyridines
PTEN Phosphohydrolase
7 Citations (Scopus)

Quantitative analysis of histological tissue image based on cytological profiles and spatial statistics

Chang, Y. H., Thibault, G., Azimi, V., Johnson, B., Jorgens, D., Link, J., Margolin, A. & Gray, J., Oct 13 2016, 2016 38th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2016. Institute of Electrical and Electronics Engineers Inc., Vol. 2016-October. p. 1175-1178 4 p. 7590914

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Statistics
Tissue
Chemical analysis
Spatial Analysis
Hematoxylin

Reconstruction of Gene Regulatory Networks Based on Repairing Sparse Low-Rank Matrices

Chang, Y. H., Dobbe, R., Bhushan, P., Gray, J. & Tomlin, C. J., Jul 1 2016, In : IEEE/ACM Transactions on Computational Biology and Bioinformatics. 13, 4, p. 767-777 11 p., 7182286.

Research output: Contribution to journalArticle

Low-rank Matrices
Gene Regulatory Networks
Gene Regulatory Network
Sparse matrix
Genes
2 Citations (Scopus)

Retrieving common dynamics of gene regulatory networks under various perturbations

Chang, Y. H., Dobbe, R., Bhushan, P., Gray, J. & Tomlin, C. J., Feb 8 2016, Proceedings of the IEEE Conference on Decision and Control. Institute of Electrical and Electronics Engineers Inc., Vol. 2016-February. p. 2531-2536 6 p. 7402597

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Gene Regulatory Network
Genes
Perturbation
Proteomics
Graph in graph theory
17 Citations (Scopus)

The ErbB2ΔEx16 splice variant is a major oncogenic driver in breast cancer that promotes a pro-metastatic tumor microenvironment

Turpin, J., Ling, C., Crosby, E. J., Hartman, Z. C., Simond, A. M., Chodosh, L. A., Rennhack, J. P., Andrechek, E. R., Ozcelik, J., Hallett, M., Mills, G., Cardiff, R. D., Gray, J., Griffith, O. L. & Muller, W. J., May 9 2016, (Accepted/In press) In : Oncogene.

Research output: Contribution to journalArticle

Tumor Microenvironment
Breast Neoplasms
Proto-Oncogenes
Keratins
Neoplasms
13 Citations (Scopus)

Therapeutic siRNA for drug-resistant HER2-positive breast cancer

Gu, S., Hu, Z., Ngamcherdtrakul, W., Castro, D. J., Morry, J., Reda, M. M., Gray, J. & Yantasee, W., Mar 22 2016, In : Oncotarget. 7, 12, p. 14727-14741 15 p.

Research output: Contribution to journalArticle

Small Interfering RNA
Breast Neoplasms
Pharmaceutical Preparations
Cell Line
Neoplasms
72 Citations (Scopus)

Tumor-derived cell lines as molecular models of cancer pharmacogenomics

Goodspeed, A., Heiser, L., Gray, J. & Costello, J. C., Jan 1 2016, In : Molecular Cancer Research. 14, 1, p. 3-13 11 p.

Research output: Contribution to journalArticle

Molecular Models
Pharmacogenetics
Tumor Cell Line
Neoplasms
Cell Line
2015
91 Citations (Scopus)

Cationic polymer modified mesoporous silica nanoparticles for targeted siRNA delivery to HER2+ breast cancer

Ngamcherdtrakul, W., Morry, J., Gu, S., Castro, D. J., Goodyear, S. M., Sangvanich, T., Reda, M. M., Lee, R., Mihelic, S. A., Beckman, B. L., Hu, Z., Gray, J. & Yantasee, W., May 13 2015, In : Advanced Functional Materials. 25, 18, p. 2646-2659 14 p.

Research output: Contribution to journalArticle

breast
Silicon Dioxide
Small Interfering RNA
delivery
Polymers
10 Citations (Scopus)

Decoupling of the PI3K pathway via mutation necessitates combinatorial treatment in HER2+ breast cancer

Korkola, J., Collisson, E. A., Heiser, L., Oates, C., Bayani, N., Itani, S., Esch, A., Thompson, W., Griffith, O. L., Wang, N. J., Kuo, W. L., Cooper, B., Billig, J., Ziyad, S., Hung, J. L., Feiler, H., Lu, Y., Mills, G., Spellman, P., Tomlin, C. & 3 others, Mukherjee, S., Gray, J. & Jakkula, L., Jul 16 2015, In : PLoS One. 10, 7, e0133219.

Research output: Contribution to journalArticle

phosphatidylinositol 3-kinase
Phosphatidylinositol 3-Kinases
breast neoplasms
Breast Neoplasms
mutation
1 Citation (Scopus)

Disentangling multidimensional spatio-temporal data into their common and aberrant responses

Chang, Y. H., Korkola, J., Amin, D. N., Moasser, M. M., Carmena, J. M., Gray, J. & Tomlin, C. J., Apr 22 2015, In : PLoS One. 10, 4, e0121607.

Research output: Contribution to journalArticle

Experiments
Gene expression
Principal component analysis
Time series
methodology
2 Citations (Scopus)

Erratum to Modeling precision treatment of breast cancer [Genome Biology, 14, (2013), R110]

Daemen, A., Griffith, O. L., Heiser, L., Wang, N. J., Enache, O. M., Sanborn, Z., Pepin, F., Durinck, S., Korkola, J., Griffith, M., Hur, J. S., Huh, N., Chung, J., Cope, L., Fackler, M. J., Umbricht, C., Sukumar, S., Seth, P., Sukhatme, V. P., Jakkula, L. R. & 7 others, Lu, Y., Mills, G., Cho, R. J., Collisson, E. A., van't Veer, L. J., Spellman, P. & Gray, J., May 12 2015, In : Genome Biology. 16, 1, 95.

Research output: Contribution to journalArticle

breast neoplasms
cancer
genome
Genome
Breast Neoplasms
58 Citations (Scopus)

Exome sequencing of cell-free DNA from metastatic cancer patients identifies clinically actionable mutations distinct from primary disease

Butler, T. M., Johnson-Camacho, K., Peto, M., Wang, N. J., Macey, T. A., Korkola, J., Koppie, T., Corless, C., Gray, J. & Spellman, P., Aug 28 2015, In : PLoS One. 10, 8, e0136407.

Research output: Contribution to journalArticle

Exome
Tumors
mutation
Mutation
neoplasms
97 Citations (Scopus)

Exome sequencing of desmoplastic melanoma identifies recurrent NFKBIE promoter mutations and diverse activating mutations in the MAPK pathway

Shain, A. H., Garrido, M., Botton, T., Talevich, E., Yeh, I., Sanborn, J. Z., Chung, J., Wang, N. J., Kakavand, H., Mann, G. J., Thompson, J. F., Wiesner, T., Roy, R., Olshen, A. B., Gagnon, A., Gray, J., Huh, N., Hur, J. S., Busam, K. J., Scolyer, R. A. & 3 others, Cho, R. J., Murali, R. & Bastian, B. C., Sep 29 2015, In : Nature Genetics. 47, 10, p. 1194-1199 6 p.

Research output: Contribution to journalArticle

Exome
Melanoma
Mutation
Mutagens
Phosphatidylinositol 3-Kinases
2 Citations (Scopus)

Genome-wide perturbations by miRNAs map onto functional cellular pathways, identifying regulators of chromatin modifiers

Moss, T. J., Luo, Z., Seviour, E. G., Sehgal, V., Lu, Y., Hill, S. M., Rupaimoole, R., Lee, J. S., Rodriguez-Aguayo, C., Lopez-Berestein, G., Sood, A. K., Azencott, R., Gray, J., Mukherjee, S., Mills, G. & Ram, P. T., Sep 28 2015, In : npj Systems Biology and Applications. 1, 15001.

Research output: Contribution to journalArticle

MicroRNA
Chromatin
MicroRNAs
Regulator
Pathway
1 Citation (Scopus)

Heterogeneity in cancer dynamics: A convex formulation to dissect dynamic trajectories and infer LTV models of networked systems

Dobbe, R., Chang, Y. H., Korkola, J., Gray, J. & Tomlin, C., Jul 28 2015, Proceedings of the American Control Conference. Institute of Electrical and Electronics Engineers Inc., Vol. 2015-July. p. 4398-4403 6 p. 7172021

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Cells
Trajectories
Tumors
Cell signaling
Proteins
3 Citations (Scopus)

Large-scale drug screens support precision medicine

Gray, J. & Mills, G., Nov 1 2015, In : Cancer Discovery. 5, 11, p. 1130-1132 3 p.

Research output: Contribution to journalArticle

Precision Medicine
Pharmaceutical Preparations
Neoplasms
Cell Line
Therapeutics
60 Citations (Scopus)

Phylogenetic analyses of melanoma reveal complex patterns of metastatic dissemination

Sanborn, J. Z., Chung, J., Purdom, E., Wang, N. J., Kakavand, H., Wilmott, J. S., Butler, T., Thompson, J. F., Mann, G. J., Haydu, L. E., Saw, R. P. M., Busam, K. J., Lo, R. S., Collisson, E. A., Hur, J. S., Spellman, P., Cleaver, J. E., Gray, J., Huh, N., Murali, R. & 3 others, Scolyer, R. A., Bastian, B. C. & Cho, R. J., Sep 1 2015, In : Proceedings of the National Academy of Sciences of the United States of America. 112, 35, p. 10995-11000 6 p.

Research output: Contribution to journalArticle

Melanoma
Neoplasm Metastasis
Neoplasms
Virus Integration
Exome
102 Citations (Scopus)

Ras-GTP dimers activate the Mitogen-Activated Protein Kinase (MAPK) pathway

Nan, X., Tamgüney, T. M., Collisson, E. A., Lin, L. J., Pitt, C., Galeas, J., Lewis, S., Gray, J., McCormick, F. & Chu, S., Jun 30 2015, In : Proceedings of the National Academy of Sciences of the United States of America. 112, 26, p. 7996-8001 6 p.

Research output: Contribution to journalArticle

Guanosine Triphosphate
Mitogen-Activated Protein Kinases
Sarcoma
Dimerization
Cell Membrane
1085 Citations (Scopus)

The consensus molecular subtypes of colorectal cancer

Guinney, J., Dienstmann, R., Wang, X., De Reyniès, A., Schlicker, A., Soneson, C., Marisa, L., Roepman, P., Nyamundanda, G., Angelino, P., Bot, B. M., Morris, J. S., Simon, I. M., Gerster, S., Fessler, E., De Sousa .E Melo, F., Missiaglia, E., Ramay, H., Barras, D., Homicsko, K. & 20 others, Maru, D., Manyam, G. C., Broom, B., Boige, V., Perez-Villamil, B., Laderas, T., Salazar, R., Gray, J., Hanahan, D., Tabernero, J., Bernards, R., Friend, S. H., Laurent-Puig, P., Medema, J. P., Sadanandam, A., Wessels, L., Delorenzi, M., Kopetz, S., Vermeulen, L. & Tejpar, S., Nov 1 2015, In : Nature Medicine. 21, 11, p. 1350-1356 7 p.

Research output: Contribution to journalArticle

Colorectal Neoplasms
Chemical activation
Microsatellite Repeats
Microsatellite Instability
Information Dissemination
41 Citations (Scopus)

Upregulation of ER signaling as an adaptive mechanism of cell survival in HER2-positive breast tumors treated with Anti-HER2 therapy

Giuliano, M., Hu, H., Wang, Y. C., Fu, X., Nardone, A., Herrera, S., Mao, S., Contreras, A., Gutierrez, C., Wang, T., Hilsenbeck, S. G., Angelis, C. D., Wang, N. J., Heiser, L., Gray, J., Lopez-Tarruella, S., Pavlick, A. C., Trivedi, M. V., Chamness, G. C., Chang, J. C. & 3 others, Osborne, C. K., Rimawi, M. F. & Schiff, R., Sep 1 2015, In : Clinical Cancer Research. 21, 17, p. 3995-4003 9 p.

Research output: Contribution to journalArticle

Estrogen Receptors
Cell Survival
Up-Regulation
Breast Neoplasms
Therapeutics
2014
108 Citations (Scopus)

A community computational challenge to predict the activity of pairs of compounds

Cellworks Group & NCI DREAM Community, Dec 1 2014, In : Nature Biotechnology. 32, 12, p. 1213-1222 10 p.

Research output: Contribution to journalArticle

Computer Simulation
Drug Combinations
Transcriptome
Gene expression
Screening
248 Citations (Scopus)

A community effort to assess and improve drug sensitivity prediction algorithms

NCI DREAM Community, Dec 1 2014, In : Nature Biotechnology. 32, 12, p. 1202-1212 11 p.

Research output: Contribution to journalArticle

Reverse engineering
Microarrays
Gene expression
Pharmaceutical Preparations
Medicine
17 Citations (Scopus)

Amplification and over-expression of MAP3K3 gene in human breast cancer promotes formation and survival of breast cancer cells

Zhang, H., Fan, Y., Ge, N., Wang, X., Sun, W., Mao, R., Bu, W., Creighton, C. J., Zheng, P., Vasudevan, S., An, L., Yang, J., Zhao, Y. J., Zhang, H., Li, X. N., Rao, P. H., Leung, E., Lu, Y. J., Gray, J., Schiff, R. & 3 others, Hilsenbeck, S. G., Osborne, C. K. & Yang, J., Jan 2014, In : Journal of Pathology. 232, 1, p. 75-86 12 p.

Research output: Contribution to journalArticle

Breast Neoplasms
Gene Expression
Survival
MAP Kinase Kinase Kinase 3
Breast
26 Citations (Scopus)

Causal network inference using biochemical kinetics

Oates, C. J., Dondelinger, F., Bayani, N., Korkola, J., Gray, J. & Mukherjee, S., Sep 1 2014, In : Bioinformatics. 30, 17

Research output: Contribution to journalArticle

Kinetics
Kinetic parameters
Prediction
Graph in graph theory
Unknown
29 Citations (Scopus)

Copy Number Gain of hsa-miR-569 at 3q26.2 Leads to Loss of TP53INP1 and Aggressiveness of Epithelial Cancers

Chaluvally-Raghavan, P., Zhang, F., Pradeep, S., Hamilton, M. P., Zhao, X., Rupaimoole, R., Moss, T., Lu, Y., Yu, S., Pecot, C. V., Aure, M. R., Peuget, S., Rodriguez-Aguayo, C., Han, H. D., Zhang, D., Venkatanarayan, A., Krohn, M., Kristensen, V. N., Gagea, M., Ram, P. & 11 others, Liu, W., Lopez-Berestein, G., Lorenzi, P. L., Børresen-Dale, A. L., Chin, K-Y., Gray, J., Dusetti, N. J., McGuire, S. E., Flores, E. R., Sood, A. K. & Mills, G., Dec 8 2014, In : Cancer Cell. 26, 6, p. 863-879 17 p.

Research output: Contribution to journalArticle

Ovarian Neoplasms
Breast Neoplasms
Neoplasms
MicroRNAs
Cisplatin
136 Citations (Scopus)

CUL4A induces epithelial-mesenchymal transition and promotes cancer metastasis by regulating ZEB1 expression

Wang, Y., Wen, M., Kwon, Y., Xu, Y., Liu, Y., Zhang, P., He, X., Wang, Q., Huang, Y., Jen, K. Y., Labarge, M. A., You, L., Kogan, S. C., Gray, J., Mao, J. H. & Wei, G., Jan 15 2014, In : Cancer Research. 74, 2, p. 520-531 12 p.

Research output: Contribution to journalArticle

Epithelial-Mesenchymal Transition
Breast Neoplasms
Neoplasm Metastasis
Neoplasms
Carcinogenesis
28 Citations (Scopus)

Detecting cancer by monitoring circulating tumor DNA.

Spellman, P. & Gray, J., 2014, In : Nature Medicine. 20, 5, p. 474-475 2 p.

Research output: Contribution to journalArticle

Neoplasm DNA
Tumor Biomarkers
Non-Small Cell Lung Carcinoma
DNA
Neoplasms
10 Citations (Scopus)

Do breast cancer cell lines provide a relevant model of the patient tumor methylome?

Cope, L. M., Fackler, M. J., Lopez-Bujanda, Z., Wolff, A. C., Visvanathan, K., Gray, J., Sukumar, S. & Umbricht, C. B., Aug 26 2014, In : PLoS One. 9, 8, e105545.

Research output: Contribution to journalArticle

breast neoplasms
Tumors
Cells
cell lines
Breast Neoplasms
10 Citations (Scopus)

Endocytic trafficking of laminin is controlled by dystroglycan and is disrupted in cancers

Leonoudakis, D., Huang, G., Akhavan, A., Fata, J. E., Singh, M., Gray, J. & Muschler, J., 2014, In : Journal of Cell Science. 127, 22, p. 4894-4903 10 p.

Research output: Contribution to journalArticle

Dystroglycans
Laminin
Neoplasms
Basement Membrane
Laminin Receptors
21 Citations (Scopus)

Exact reconstruction of gene regulatory networks using compressive sensing

Chang, Y. H., Gray, J. & Tomlin, C. J., 2014, In : BMC Bioinformatics. 15, p. 400 1 p.

Research output: Contribution to journalArticle

Compressive Sensing
Gene Regulatory Networks
Gene Regulatory Network
Genes
Connectivity
8 Citations (Scopus)

Identification of gene regulation patterns underlying both oestrogen- and tamoxifen-stimulated cell growth through global gene expression profiling in breast cancer cells

Fan, P., Cunliffe, H. E., Griffith, O. L., Agboke, F. A., Ramos, P., Gray, J. & Jordan, V. C., 2014, In : European Journal of Cancer. 50, 16, p. 2877-2886 10 p.

Research output: Contribution to journalArticle

Gene Expression Profiling
Tamoxifen
Estrogens
Breast Neoplasms
Growth
11 Citations (Scopus)

Joint estimation of multiple related biological networks

Oates, C. J., Korkola, J., Gray, J. & Mukherjee, S., Sep 1 2014, In : Annals of Applied Statistics. 8, 3, p. 1892-1919 28 p.

Research output: Contribution to journalArticle

Biological Networks
Graphical Models
Molecular biology
Bayesian networks
Exchangeability
104 Citations (Scopus)

Nanoparticle-mediated systemic delivery of siRNA for treatment of cancers and viral infections

Draz, M. S., Fang, B. A., Zhang, P., Hu, Z., Gu, S., Weng, K. C., Gray, J. & Chen, F. F., 2014, In : Theranostics. 4, 9, p. 872-892 21 p.

Research output: Contribution to journalArticle

Virus Diseases
Nanoparticles
Small Interfering RNA
Metal Nanoparticles
Neoplasms
40 Citations (Scopus)

Overcoming endocrine resistance due to reduced PTEN levels in estrogen receptor-positive breast cancer by co-targeting mammalian target of rapamycin, protein kinase B, or mitogen-activated protein kinase kinase

Fu, X., Creighton, C. J., Biswal, N. C., Kumar, V., Shea, M., Herrera, S., Contreras, A., Gutierrez, C., Wang, T., Nanda, S., Giuliano, M., Morrison, G., Nardone, A., Karlin, K. L., Westbrook, T. F., Heiser, L., Anur, P., Spellman, P., Guichard, S. M., Smith, P. D. & 10 others, Davies, B. R., Klinowska, T., Lee, A. V., Mills, G., Rimawi, M. F., Hilsenbeck, S. G., Gray, J., Joshi, A., Osborne, C. K. & Schiff, R., Sep 11 2014, In : Breast Cancer Research. 16, 5, 430.

Research output: Contribution to journalArticle

TOR Serine-Threonine Kinases
Proto-Oncogene Proteins c-akt
Mitogen-Activated Protein Kinase Kinases
Phosphatidylinositol 3-Kinase
Phosphoric Monoester Hydrolases

Preface

Mendelsohn, J., Gray, J., Howley, P. M., Israel, M. A. & Thompson, C. B., Mar 2014, In : Unknown Journal.

Research output: Contribution to journalArticle

46 Citations (Scopus)

Reconciliation of classification systems defining molecular subtypes of colorectal cancer: Interrelationships and clinical implications

Sadanandam, A., Wang, X., De Sousa E Melo, F., Gray, J., Vermeulen, L., Hanahan, D. & Medema, J. P., Feb 1 2014, In : Cell Cycle. 13, 3, p. 353-357 5 p.

Research output: Contribution to journalArticle

Colorectal Neoplasms
Gene Expression
Therapeutics
4 Citations (Scopus)

Reply to Colorectal cancer classification based on gene expression is not associated with FOLFIRI response

Sadanandam, A., Gray, J. & Hanahan, D., Nov 1 2014, In : Nature Medicine. 20, 11, p. 1231-1232 2 p.

Research output: Contribution to journalArticle

Gene expression
1 Citation (Scopus)

The Molecular Basis of Cancer: Fourth Edition

Mendelsohn, J., Gray, J., Howley, P. M., Israel, M. A. & Thompson, C. B., Mar 2014, Elsevier Inc. 863 p.

Research output: Book/ReportBook

Neoplasms
Routine Diagnostic Tests
Clinical Trials
Therapeutics
Research
44 Citations (Scopus)

Transcription Restores DNA Repair to Heterochromatin, Determining Regional Mutation Rates in Cancer Genomes

Zheng, C., Wang, N. J., Chung, J., Moslehi, H., Sanborn, J. Z., Hur, J. S., Collisson, E. A., Vemula, S. S., Naujokas, A., Chiotti, K. E., Cheng, J. B., Fassihi, H., Blumberg, A. J., Bailey, C. V., Fudem, G. M., Mihm, F. G., Cunningham, B. B., Neuhaus, I. M., Liao, W., Oh, D. H. & 10 others, Cleaver, J. E., LeBoit, P. E., Costello, J. F., Lehmann, A. R., Gray, J., Spellman, P., Arron, S. T., Huh, N., Purdom, E. & Cho, R. J., Nov 20 2014, In : Cell Reports. 9, 4, p. 1228-1234 7 p.

Research output: Contribution to journalArticle

Heterochromatin
Mutation Rate
Transcription
DNA Repair
Repair

Understanding and Using Information about Cancer Genomes

Spellman, P., Stuart, J. & Gray, J., Mar 2014, The Molecular Basis of Cancer: Fourth Edition. Elsevier Inc.

Research output: Chapter in Book/Report/Conference proceedingChapter

Genome
Neoplasms
2013
471 Citations (Scopus)

A colorectal cancer classification system that associates cellular phenotype and responses to therapy

Sadanandam, A., Lyssiotis, C. A., Homicsko, K., Collisson, E. A., Gibb, W. J., Wullschleger, S., Ostos, L. C. G., Lannon, W. A., Grotzinger, C., Del Rio, M., Lhermitte, B., Olshen, A. B., Wiedenmann, B., Cantley, L. C., Gray, J. & Hanahan, D., May 2013, In : Nature Medicine. 19, 5, p. 619-625 7 p.

Research output: Contribution to journalArticle

Colorectal Neoplasms
Phenotype
Chemotherapy
Disease-Free Survival
Filamins

Adaptive H-extrema for automatic immunogold particle detection

Thibault, G., Iljin, K., Arthur, C., Shafran, I. & Gray, J., 2013, Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). PART 2 ed. Vol. 8259 LNCS. p. 238-245 8 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 8259 LNCS, no. PART 2).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Extremum
Multiple Classifiers
Classifiers
Multiple Scales
Gold
10 Citations (Scopus)

A robust prognostic signature for hormone-positive node-negative breast cancer

Griffith, O. L., Pepin, F., Enache, O. M., Heiser, L., Collisson, E. A., Spellman, P. & Gray, J., Oct 11 2013, In : Genome Medicine. 5, 10, 92.

Research output: Contribution to journalArticle

Hormones
Breast Neoplasms
Recurrence
Genes
Survival Analysis