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by Thorsson, Vesteinn and Thorsson, Vésteinn and Gibbs, Richard A and Gibbs, David L and Brown, Scott D and Wolf, Gregory and Wolf, Denise and Bortone, Dante S and Ou Yang, Tai-Hsien and Porta-Pardo, Eduard and Gao, Galen F and Gao, Jianjiong and Plaisier, Christopher L and Eddy, James A and Ziv, Elad and Culhane, Aedin C and Paull, Evan O and Sivakumar, I.K. Ashok and Gentles, Andrew J and Malhotra, Raunaq and Farshidfar, Farshad and Colaprico, Antonio and Parker, Joel S and Mose, Lisle E and Vo, Nam Sy and Liu, Wenbin and Liu, Jianfang and Liu, Jia and Liu, Yuexin and Liu, Xiuping and Rader, Janet and Dhankani, Varsha and Reynolds, Sheila and Reynolds, Sheila M and Bowlby, Reanne and Califano, Andrea and Cherniack, Andrew D and Anastassiou, Dimitris and Bedognetti, Davide and Mokrab, Younes and Newman, Aaron M and Rao, Arvind and Chen, Amy and Chen, Chu and Chen, Ken and Krasnitz, Alexander and Hu, Jianhong and Hu, Hai and Malta, Tathiane M and Noushmehr, Houtan and Pedamallu, Chandra Sekhar and Bullman, Susan and Ojesina, Akinyemi I and Lamb, Andrew and Zhou, Wanding and Shen, Hui and Choueiri, Toni K and Weinstein, John N and Guinney, Justin and Saltz, Joel and Holt, Robert and Holt, Robert A and Rabkin, Charles S and Caesar-Johnson, Samantha J and Demchok, John A and Felau, Ina and Kasapi, Melpomeni and Ferguson, Martin L and Hutter, Carolyn M and Sofia, Heidi J and Tarnuzzer, Roy and Wang, Jioajiao and Wang, Min and Wang, Linghua and Wang, Zhining and Wang, Timothy and Wang, Jing and Yang, Ju Dong and Yang, Hannah and Yang, Liming and Yang, Ian and Zenklusen, Jean C and Zhang, Jiashan (Julia) and Zhang, Jiexin and Zhang, Lizhi and Zhang, Wei and Zhang, Hongzheng and Zhang, Hailei and Zhang, Hongxin and Chudamani, Sudha and Lolla, Laxmi and Naresh, Rashi and Pihl, Todd and Sun, Yichao and Sun, Qiang and Wan, Yunhu and Wu, Ye and Cho, Juok and DeFreitas, Timothy and Frazer, Scott and ... and Canc Genome Atlas Res Network and Cancer Genome Atlas Research Network
Immunity, ISSN 1074-7613, 04/2018, Volume 48, Issue 4, pp. 812 - 830.e14
We performed an extensive immunogenomic analysis of more than 10,000 tumors comprising 33 diverse cancer types by utilizing data compiled by TCGA. Across... 
tumor immunology | immunotherapy | cancer genomics | integrative network analysis | immuno-oncology | tumor microenvironment | immune subtypes | immunomodulatory | GENOMIC ANALYSES | INFORMATION | T-CELL-RECEPTOR | REGULATORY NETWORK | CLASSIFICATION | IMMUNOLOGY | SEQUENCING DATA | SOMATIC MUTATIONS | COMPREHENSIVE ANALYSIS | PREDICTION | REVEALS | Transforming Growth Factor beta - immunology | Prognosis | Humans | Middle Aged | Th1-Th2 Balance - physiology | Male | Neoplasms - classification | Wound Healing - immunology | Young Adult | Transforming Growth Factor beta - genetics | Neoplasms - genetics | Neoplasms - immunology | Interferon-gamma - immunology | Adolescent | Aged, 80 and over | Adult | Female | Aged | Interferon-gamma - genetics | Wound Healing - genetics | Genomics - methods | Child | Macrophages - immunology | Cell proliferation | Cluster analysis | Transcription | Copy number | p53 Protein | Lung cancer | Genomics | Aneuploidy | Lymphocytes T | Genomes | Cell interactions | Macrophages | Immunotherapy | DNA methylation | Deoxyribonucleic acid--DNA | Immune system | Medical research | Wound healing | Immunomodulation | MiRNA | Stockholders | Inflammation | T cell receptors | Communications networks | Gene expression | White blood cells | Inventors | Medical prognosis | γ-Interferon | Mutation | Cancer | Tumors | Index Medicus | Immune Subtypes | Integrative Network Analysis | Cancer Genomics | Immuno-oncology | Tumor immunology
Journal Article
Cancer Research, ISSN 0008-5472, 07/2018, Volume 78, Issue 13 Supplement, pp. 1471 - 1471
Journal Article
Nucleic Acids Research, ISSN 0305-1048, 03/2015, Volume 43, Issue 13, p. e87
Journal Article
Nucleic Acids Research, ISSN 0305-1048, 07/2015, Volume 43, Issue 13, pp. e87 - e87
The cMonkey integrated biclustering algorithm identifies conditionally co-regulated modules of genes (biclusters). cMonkey integrates various orthogonal pieces... 
Journal Article
Journal Article
Pigment Cell & Melanoma Research, ISSN 1755-1471, 07/2012, Volume 25, Issue 4, pp. 406 - 408
Journal Article
by Thorsson, Vesteinn and Thorsson, Vésteinn and Gibbs, Richard A and Gibbs, David L and Brown, Scott D and Wolf, Gregory and Wolf, Denise and Bortone, Dante S and Ou Yang, Tai-Hsien and Porta-Pardo, Eduard and Gao, Galen F and Gao, Jianjiong and Plaisier, Christopher L and Eddy, James A and Ziv, Elad and Culhane, Aedin C and Paull, Evan O and Sivakumar, I.K. Ashok and Gentles, Andrew J and Malhotra, Raunaq and Farshidfar, Farshad and Colaprico, Antonio and Parker, Joel S and Mose, Lisle E and Vo, Nam Sy and Liu, Wenbin and Liu, Jianfang and Liu, Jia and Liu, Yuexin and Liu, Xiuping and Rader, Janet and Dhankani, Varsha and Reynolds, Sheila and Reynolds, Sheila M and Bowlby, Reanne and Califano, Andrea and Cherniack, Andrew D and Anastassiou, Dimitris and Bedognetti, Davide and Mokrab, Younes and Newman, Aaron M and Rao, Arvind and Chen, Amy and Chen, Chu and Chen, Ken and Krasnitz, Alexander and Hu, Jianhong and Hu, Hai and Malta, Tathiane M and Noushmehr, Houtan and Pedamallu, Chandra Sekhar and Bullman, Susan and Ojesina, Akinyemi I and Lamb, Andrew and Zhou, Wanding and Shen, Hui and Choueiri, Toni K and Weinstein, John N and Guinney, Justin and Saltz, Joel and Holt, Robert and Holt, Robert A and Rabkin, Charles S and Caesar-Johnson, Samantha J and Demchok, John A and Felau, Ina and Kasapi, Melpomeni and Ferguson, Martin L and Hutter, Carolyn M and Sofia, Heidi J and Tarnuzzer, Roy and Wang, Jioajiao and Wang, Min and Wang, Linghua and Wang, Zhining and Wang, Timothy and Wang, Jing and Yang, Ju Dong and Yang, Hannah and Yang, Liming and Yang, Ian and Zenklusen, Jean C and Zhang, Jiashan (Julia) and Zhang, Jiexin and Zhang, Lizhi and Zhang, Wei and Zhang, Hongzheng and Zhang, Hailei and Zhang, Hongxin and Chudamani, Sudha and Lolla, Laxmi and Naresh, Rashi and Pihl, Todd and Sun, Yichao and Sun, Qiang and Wan, Yunhu and Wu, Ye and Cho, Juok and DeFreitas, Timothy and Frazer, Scott and ...
Immunity, ISSN 1074-7613, 08/2019, Volume 51, Issue 2, pp. 411 - 412
Journal Article
Journal Article
Molecular Systems Biology, ISSN 1744-4292, 2011, Volume 7, Issue 1, pp. 554 - n/a
Numerous lineage‐specific expansions of the transcription factor B (TFB) family in archaea suggests an important role for expanded TFBs in encoding... 
transcription factor B | evolution by gene family expansion | niche adaptation | fitness | reprogramming of gene regulatory network | OXIDATIVE STRESS | BACTERIA | FACTOR-B | SEQUENCES | BIOCHEMISTRY & MOLECULAR BIOLOGY | DNA-DAMAGE | NETWORKS | HALOPHILIC ARCHAEON | GENOME | EVOLUTION | GROWTH | Archaeal Proteins - metabolism | Recombinant Proteins - metabolism | Transcription Factor TFIIB - metabolism | Gene Expression Regulation, Archaeal | Stress, Physiological | Recombinant Proteins - genetics | Transcription Factor TFIIB - genetics | Phylogeny | Adaptation, Physiological - genetics | Halobacterium salinarum - genetics | Archaeal Proteins - genetics | Halobacterium salinarum - metabolism | Salt-Tolerance | Evolution, Molecular | Regulations | Regulators | Temperature | Transcription factors | Biological evolution | Halophilic archaea | Environmental changes | Organisms | Genomes | Systems analysis | DNA-directed RNA polymerase | Extreme environments | Proteins | Eukaryotes | Hierarchies | Odors | Reproduction (copying) | Completeness | Evolution | Deoxyribonucleic acid--DNA | Adaptation | Transducers | Phenotypes | Archaea | V(D)J recombination | Amino acid sequence | Environmental factors | RNA polymerase | Gene expression | Ribonucleic acid--RNA | Conversion | Environmental conditions | Hypotheses | Functional integration | Biofilms | Lakes | Environment | Environmental testing | Mutation | Transcription initiation factor TFIIB | Variation | Gene mapping | Gene conversion | Combinatorial analysis | Recognition | Fitness | Index Medicus
Journal Article
Cell Reports, ISSN 2211-1247, 12/2015, Volume 13, Issue 11, pp. 2425 - 2439
To identify therapeutic targets for glioblastoma (GBM), we performed genome-wide CRISPR-Cas9 knockout (KO) screens in patient-derived GBM stem-like cells... 
WEE1 | CRISPR-Cas9 | Glioblastoma | cancer therapeutics | functional genomics | PKMYT1 | gene editing | Myt1 | Cancer therapeutics | Gene editing | Functional genomics | ACTIVATION | PROTEIN | GENE-EXPRESSION | GOLGI | PHOSPHORYLATES CDC2 | HUMAN MYT1 | INHIBITORY KINASE | BRAIN | RNAI SCREEN | REQUIREMENT | CELL BIOLOGY | Neoplastic Stem Cells - cytology | Phosphorylation | Mitosis | Protein-Tyrosine Kinases - metabolism | Humans | Microscopy, Video | Time-Lapse Imaging | Tumor Suppressor Protein p53 - genetics | CDC2 Protein Kinase - metabolism | Cell Cycle Proteins - antagonists & inhibitors | Protein-Tyrosine Kinases - genetics | Receptor, Epidermal Growth Factor - metabolism | Neoplastic Stem Cells - metabolism | RNA Interference | Protein-Serine-Threonine Kinases - antagonists & inhibitors | Cell Cycle Proteins - genetics | Glioblastoma - metabolism | Membrane Proteins - metabolism | Nuclear Proteins - genetics | Proto-Oncogene Proteins c-akt - metabolism | Protein-Serine-Threonine Kinases - metabolism | Pyrazoles - pharmacology | Cell Survival - drug effects | Gene Library | CDC2 Protein Kinase - antagonists & inhibitors | Membrane Proteins - genetics | Cell Cycle Proteins - metabolism | Protein-Serine-Threonine Kinases - genetics | Tumor Suppressor Protein p53 - metabolism | Nuclear Proteins - metabolism | Pyrimidines - pharmacology | CRISPR-Cas Systems - genetics | Membrane Proteins - antagonists & inhibitors | Glioblastoma - pathology | Nuclear Proteins - antagonists & inhibitors | Cyclin B - metabolism | Genome, Human | Protein-Tyrosine Kinases - antagonists & inhibitors | Index Medicus
Journal Article
Nucleic acids research, ISSN 0305-1048, 07/2015, Volume 43, Issue 13, pp. e87 - e87
Journal Article