Publications by authors named "Orly Alter"

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Retrospective clinical trial experimentally validates glioblastoma genome-wide pattern of DNA copy-number alterations predictor of survival.
Sri Priya Ponnapalli, Matthew W Bradley, Karen Devine, Jay Bowen, Sara E Coppens, Orly Alter

APL Bioeng· June 2020

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GSVD- and tensor GSVD-uncovered patterns of DNA copy-number alterations predict adenocarcinomas survival in general and in response to platinum.
Matthew W Bradley, Katherine A Aiello, Sri Priya Ponnapalli, Heidi A Hanson, Orly Alter

APL Bioeng· September 2019

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Mathematically universal and biologically consistent astrocytoma genotype encodes for transformation and predicts survival phenotype.
Katherine A Aiello, Sri Priya Ponnapalli, Orly Alter

APL Bioeng· September 2018

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Platform-Independent Genome-Wide Pattern of DNA Copy-Number Alterations Predicting Astrocytoma Survival and Response to Treatment Revealed by the GSVD Formulated as a Comparative Spectral Decomposition.
Katherine A Aiello, Orly Alter

PLoS One· June 2017

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Tensor GSVD of patient- and platform-matched tumor and normal DNA copy-number profiles uncovers chromosome arm-wide patterns of tumor-exclusive platform-consistent alterations encoding for cell transformation and predicting ovarian cancer survival.
Preethi Sankaranarayanan, Theodore E Schomay, Katherine A Aiello, Orly Alter

PLoS One· January 2016

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SVD identifies transcript length distribution functions from DNA microarray data and reveals evolutionary forces globally affecting GBM metabolism.
Nicolas M Bertagnolli, Justin A Drake, Jason M Tennessen, Orly Alter

PLoS One· January 2015

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GSVD comparison of patient-matched normal and tumor aCGH profiles reveals global copy-number alterations predicting glioblastoma multiforme survival.
Cheng H Lee, Benjamin O Alpert, Preethi Sankaranarayanan, Orly Alter

PLoS One· June 2012

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A higher-order generalized singular value decomposition for comparison of global mRNA expression from multiple organisms.
Sri Priya Ponnapalli, Michael A Saunders, Charles F Van Loan, Orly Alter

PLoS One· May 2012

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Tensor decomposition reveals concurrent evolutionary convergences and divergences and correlations with structural motifs in ribosomal RNA.
Chaitanya Muralidhara, Andrew M Gross, Robin R Gutell, Orly Alter

PLoS One· September 2011

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Global effects of DNA replication and DNA replication origin activity on eukaryotic gene expression.
Larsson Omberg, Joel R Meyerson, Kayta Kobayashi, Lucy S Drury, John F X Diffley, Orly Alter

Mol Syst Biol· January 2010

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A tensor higher-order singular value decomposition for integrative analysis of DNA microarray data from different studies.
Larsson Omberg, Gene H Golub, Orly Alter

Proc Natl Acad Sci U S A· November 2007

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Genomic signal processing: from matrix algebra to genetic networks.
Orly Alter

Methods Mol Biol· August 2007

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Discovery of principles of nature from mathematical modeling of DNA microarray data.
Orly Alter

Proc Natl Acad Sci U S A· October 2006

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Singular value decomposition of genome-scale mRNA lengths distribution reveals asymmetry in RNA gel electrophoresis band broadening.
Orly Alter, Gene H Golub

Proc Natl Acad Sci U S A· August 2006

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Reconstructing the pathways of a cellular system from genome-scale signals by using matrix and tensor computations.
Orly Alter, Gene H Golub

Proc Natl Acad Sci U S A· December 2005

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Integrative analysis of genome-scale data by using pseudoinverse projection predicts novel correlation between DNA replication and RNA transcription.
Orly Alter, Gene H Golub

Proc Natl Acad Sci U S A· November 2004

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Generalized singular value decomposition for comparative analysis of genome-scale expression data sets of two different organisms.
Orly Alter, Patrick O Brown, David Botstein

Proc Natl Acad Sci U S A· March 2003

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Variation in gene expression patterns in follicular lymphoma and the response to rituximab.
Sean P Bohen, Olga G Troyanskaya, Orly Alter, Roger Warnke, David Botstein

Proc Natl Acad Sci U S A· February 2003

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Molecular characterisation of soft tissue tumours: a gene expression study.
Torsten O Nielsen, Rob B West, Sabine C Linn, Orly Alter, Margaret A Knowling

Lancet· April 2002

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