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Abstract 95: The landscape of extrachromosomal circular DNA in medulloblastoma subgroups

Owen S. Chapman, Shanqing Wang, Jens Luebeck, Alexandra Garancher, Jon D. Larson, Joshua Lange, John Crawford, Scott L. Pomeroy, Paul Mischel, Ernest Fraenkel, Robert J. Wechsler-Reya, Vineet Bafna, Jill P. Mesirov, Lukas Chavez

Cancer Res (2021) 81 (13_Supplement): 95.

DOI: https://doi.org/10.1158/1538-7445.AM2021-95

Published: 01 July 2021

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Journal Articles

Functional Precision Medicine Identifies New Therapeutic Candidates for Medulloblastoma

Cancer Res (2020) 80 (23): 5393–5407.

DOI: https://doi.org/10.1158/0008-5472.CAN-20-1655

Published: 02 December 2020

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Includes: Supplementary data

Journal Articles

Abstract 3207: GenePattern Notebook: An integrative analytical environment for cancer research

Michael M. Reich, Thorin Tabor, Ted Liefeld, Edwin Juarez, Barbara Hill, Helga Thorvaldsdottir, Pablo Tamayo, Jill P. Mesirov

Cancer Res (2020) 80 (16_Supplement): 3207.

DOI: https://doi.org/10.1158/1538-7445.AM2020-3207

Published: 15 August 2020

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Journal Articles

Abstract 4411: A gene set enrichment analysis approach in single-cells along pseudotime trajectories reveals the dynamic activity of oncogenic pathways

Alexander T. Wenzel, Devora Champa, Stephen B. Howell, Jill P. Mesirov, Olivier Harismendy

Cancer Res (2020) 80 (16_Supplement): 4411.

DOI: https://doi.org/10.1158/1538-7445.AM2020-4411

Published: 15 August 2020

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Journal Articles

Abstract 447: Integrated omics modeling of transcriptional regulation in medulloblastoma subtypes

Owen S. Chapman, Tobias Ehrenberger, Tenley C. Archer, Maxwell P. Gold, Filip Mundt, Miriam Adam, Clarence K. Mah, Karsten Krug, Sahaana Chandran, Jesse R. Dixon, Scot L. Pomeroy, Ernest Fraenkel, Jill P. Mesirov, Lukas Chavez

Cancer Res (2020) 80 (16_Supplement): 447.

DOI: https://doi.org/10.1158/1538-7445.AM2020-447

Published: 15 August 2020

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Journal Articles

Abstract 5106: The GenePattern Notebook environment for reproducible cancer research

Michael M. Reich, Thorin T. Tabor, Ted Liefeld, Barbara Hill, Helga Thorvaldsdottir, Jill P. Mesirov

Cancer Res (2019) 79 (13_Supplement): 5106.

DOI: https://doi.org/10.1158/1538-7445.AM2019-5106

Published: 01 July 2019

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Journal Articles

Abstract 2279: The GenePattern Notebook environment for reproducible cancer research

Michael M. Reich, Thorin T. Tabor, Ted Liefeld, Barbara Hill, Helga Thorvaldsdottir, Jill P. Mesirov

Cancer Res (2018) 78 (13_Supplement): 2279.

DOI: https://doi.org/10.1158/1538-7445.AM2018-2279

Published: 01 July 2018

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Journal Articles

Variant Review with the Integrative Genomics Viewer

James T. Robinson, Helga Thorvaldsdóttir, Aaron M. Wenger, Ahmet Zehir, Jill P. Mesirov

Cancer Res (2017) 77 (21): e31–e34.

DOI: https://doi.org/10.1158/0008-5472.CAN-17-0337

Published: 31 October 2017

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Includes: Multimedia, Supplementary data

Journal Articles

Abstract 2588: GenePattern Notebook: an environment for reproducible cancer research

Michael M. Reich, Thorin T. Tabor, Ted Liefeld, Barbara Hill, Helga Thorvaldsdottir, Jill P. Mesirov

Cancer Res (2017) 77 (13_Supplement): 2588.

DOI: https://doi.org/10.1158/1538-7445.AM2017-2588

Published: 01 July 2017

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Journal Articles

Abstract 5273: GenePattern Notebooks: an integrative analytical environment for cancer research

Michael M. Reich, Thorin Tabor, John T. Liefeld, Peter Carr, Barbara Hill, Marc-Danie Nazaire, David Eby, Helga Thorvaldsdottir, Pablo Tamayo, Jill P. Mesirov

Cancer Res (2016) 76 (14_Supplement): 5273.

DOI: https://doi.org/10.1158/1538-7445.AM2016-5273

Published: 15 July 2016

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Journal Articles

Abstract 5331: GenomeSpace: An environment for frictionless bioinformatics

Michael M. Reich, John Liefeld, Marco Ocana, Donkeung Jang, James Robinson, Peter Carr, Barbara Hill, Thorin Tabor, Helga Thorvaldsdottir, Aviv Regev, Jill P. Mesirov

Cancer Res (2014) 74 (19_Supplement): 5331.

DOI: https://doi.org/10.1158/1538-7445.AM2014-5331

Published: 01 October 2014

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Journal Articles

Integrative Radiogenomic Profiling of Squamous Cell Lung Cancer

Mohamed E. Abazeed, Drew J. Adams, Kristen E. Hurov, Pablo Tamayo, Chad J. Creighton, Dmitriy Sonkin, Andrew O. Giacomelli, Charles Du, Daniel F. Fries, Kwok-Kin Wong, Jill P. Mesirov, Jay S. Loeffler, Stuart L. Schreiber, Peter S. Hammerman, Matthew Meyerson

Cancer Res (2013) 73 (20): 6289–6298.

DOI: https://doi.org/10.1158/0008-5472.CAN-13-1616

Published: 14 October 2013

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Includes: Supplementary data

Journal Articles

Abstract 5141: GenomeSpace: an environment for frictionless bioinformatics.

Michael Reich, John Liefeld, Helga Thorvaldsdottir, Marco Ocana, Thorin Tabor, DK Jang, Jill P. Mesirov

Cancer Res (2013) 73 (8_Supplement): 5141.

DOI: https://doi.org/10.1158/1538-7445.AM2013-5141

Published: 15 April 2013

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Journal Articles

Abstract 1313: Mutually exclusive somatic mutations in WNT pathway medulloblastomas reveal a critical interaction between DDX3X and SMARCA4

Shyamal D. Weeraratne, Tenley Archer, Trevor J. Pugh, Diana Hargreaves, Furong Yu, Amanda Kautzman, David T.W. Jones, Natalie Jaeger, Pablo Tamayo, Jill P. Mesirov, Stefan M. Pfister, Peter Lichter, Gerald Crabtree, Matthew Meyerson, Scott L. Pomeroy, Yoon-Jae Cho

Cancer Res (2012) 72 (8_Supplement): 1313.

DOI: https://doi.org/10.1158/1538-7445.AM2012-1313

Published: 15 April 2012

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Journal Articles

Abstract 4868: Medulloblastoma exome sequencing uncovers subtype-specific somatic mutations within a wide spectrum of genetic heterogeneity

Cancer Res (2012) 72 (8_Supplement): 4868.

DOI: https://doi.org/10.1158/1538-7445.AM2012-4868

Published: 15 April 2012

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Journal Articles

Abstract 4760: Molecular classification and risk-stratification in medulloblastoma using an integrative genomic approach

Yoon-Jae Cho, Pablo Tamayo, Aviad Tsherniak, Matthew Meyerson, Jill P. Mesirov, Scott L. Pomeroy

Cancer Res (2011) 71 (8_Supplement): 4760.

DOI: https://doi.org/10.1158/1538-7445.AM2011-4760

Published: 15 April 2011

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Journal Articles

Abstract 3300: MYC regulation of a “poor prognosis” metastatic cancer cell state

Anita Wolfer, Ben S. Wittner, Daniel Irimia, Richard J. Flavin, Mathieu Lupien, Ruwanthi N. Gunawardane, Clifford A. Meyer, Eric S. Lightcap, Pablo Tamayo, Jill P. Mesirov, Xiaole S. Liu, Toshihiro Shioda, Mehmet Toner, Massimo Loda, Myles Brown, Joan S. Brugge, Sridhar Ramaswamy

Cancer Res (2010) 70 (8_Supplement): 3300.

DOI: https://doi.org/10.1158/1538-7445.AM10-3300

Published: 15 April 2010

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Journal Articles

Carcinoma-Associated Fibroblast–Like Differentiation of Human Mesenchymal Stem Cells

Pravin J. Mishra, Prasun J. Mishra, Rita Humeniuk, Daniel J. Medina, Gabriela Alexe, Jill P. Mesirov, Sridhar Ganesan, John W. Glod, Debabrata Banerjee

Cancer Res (2008) 68 (11): 4331–4339.

DOI: https://doi.org/10.1158/0008-5472.CAN-08-0943

Published: 02 June 2008

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Includes: Supplementary data

Journal Articles

High Expression of Lymphocyte-Associated Genes in Node-Negative HER2+ Breast Cancers Correlates with Lower Recurrence Rates

Gabriela Alexe, Gul S. Dalgin, Daniel Scanfeld, Pablo Tamayo, Jill P. Mesirov, Charles DeLisi, Lyndsay Harris, Nicola Barnard, Maritza Martel, Arnold J. Levine, Shridar Ganesan, Gyan Bhanot

Cancer Res (2007) 67 (22): 10669–10676.

DOI: https://doi.org/10.1158/0008-5472.CAN-07-0539

Published: 15 November 2007

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Includes: Supplementary data

Journal Articles

Inactivation of Snf5 stimulates cell cycle progression and cooperates with p53 loss to cause extremely rapid cancer onset

Michael S. Isakoff, Courtney G. Samsam, Pablo Tamayo, Aravind Subramanian, Julia A. Evan S, Christine M. Fillmore, Xi Wang, Jaclyn A. Biegel, Scott L. Pomeroy, Jill P. Mesirov, Charles W. M. Roberts

Cancer Res (2006) 66 (8_Supplement): 929.

Published: 15 April 2006

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NARROW

Abstract 95: The landscape of extrachromosomal circular DNA in medulloblastoma subgroups

Functional Precision Medicine Identifies New Therapeutic Candidates for Medulloblastoma

Abstract 3207: GenePattern Notebook: An integrative analytical environment for cancer research

Abstract 4411: A gene set enrichment analysis approach in single-cells along pseudotime trajectories reveals the dynamic activity of oncogenic pathways

Abstract 447: Integrated omics modeling of transcriptional regulation in medulloblastoma subtypes

Abstract 5106: The GenePattern Notebook environment for reproducible cancer research

Abstract 2279: The GenePattern Notebook environment for reproducible cancer research

Variant Review with the Integrative Genomics Viewer

Abstract 2588: GenePattern Notebook: an environment for reproducible cancer research

Abstract 5273: GenePattern Notebooks: an integrative analytical environment for cancer research

Abstract 5331: GenomeSpace: An environment for frictionless bioinformatics

Integrative Radiogenomic Profiling of Squamous Cell Lung Cancer

Abstract 5141: GenomeSpace: an environment for frictionless bioinformatics.

Abstract 1313: Mutually exclusive somatic mutations in WNT pathway medulloblastomas reveal a critical interaction between DDX3X and SMARCA4

Abstract 4868: Medulloblastoma exome sequencing uncovers subtype-specific somatic mutations within a wide spectrum of genetic heterogeneity

Abstract 4760: Molecular classification and risk-stratification in medulloblastoma using an integrative genomic approach

Abstract 3300: MYC regulation of a “poor prognosis” metastatic cancer cell state

Carcinoma-Associated Fibroblast–Like Differentiation of Human Mesenchymal Stem Cells

High Expression of Lymphocyte-Associated Genes in Node-Negative HER2+ Breast Cancers Correlates with Lower Recurrence Rates

Inactivation of Snf5 stimulates cell cycle progression and cooperates with p53 loss to cause extremely rapid cancer onset

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