Author details

Full Name

Donald Geman

Affiliation

Johns Hopkins University

ORCID

Career Start Year

1984

Papers

H Index

Expertise

CM4AI Collaborator

PMID	Paper Title	Journal Title	Published Year
36732587	Longitudinal changes in brain metabolites in healthy controls and patients with first episode psychosis: a 7-Tesla MRS study.	Mol Psychiatry	2023
37383947	CellCover Defines Conserved Cell Types and Temporal Progression in scRNA-seq Data across Mammalian Neocortical Development.	bioRxiv	2023
36852282	Using biological constraints to improve prediction in precision oncology.	iScience	2023
36441893	Interpretable by Design: Learning Predictors by Composing Interpretable Queries.	IEEE Trans Pattern Anal Mach Intell	2023
34115745	Efficient representations of tumor diversity with paired DNA-RNA aberrations.	PLoS Comput Biol	2021
33819273	An R package for divergence analysis of omics data.	PLoS One	2021
33396819	Identifying Personalized Metabolic Signatures in Breast Cancer.	Metabolites	2020
31882448	Revisiting the tumorigenesis timeline with a data-driven generative model.	Proc Natl Acad Sci U S A	2020
29342249	Splice Expression Variation Analysis (SEVA) for inter-tumor heterogeneity of gene isoform usage in cancer.	Bioinformatics	2018
30259924	Robust determination of differential abundance in shotgun proteomics using nonparametric statistics.	Mol Omics	2018
29666255	Digitizing omics profiles by divergence from a baseline.	Proc Natl Acad Sci U S A	2018
28334820	High resolution time-course mapping of early transcriptomic, molecular and cellular phenotypes in Huntington's disease CAG knock-in mice across multiple genetic backgrounds.	Hum Mol Genet	2017
27555443	Opinion: Science in the age of selfies.	Proc Natl Acad Sci U S A	2016
25381197	An argument for mechanism-based statistical inference in cancer.	Hum Genet	2015
25755262	Visual Turing test for computer vision systems.	Proc Natl Acad Sci U S A	2015
25262153	switchBox: an R package for k-Top Scoring Pairs classifier development.	Bioinformatics	2015
25330348	Measuring the effect of inter-study variability on estimating prediction error.	PLoS One	2014
25392694	Learning dysregulated pathways in cancers from differential variability analysis.	Cancer Inform	2014
22529323	Learning multivariate distributions by competitive assembly of marginals.	IEEE Trans Pattern Anal Mach Intell	2013
24182195	Identification of direction in gene networks from expression and methylation.	BMC Syst Biol	2013
23935471	Multi-study integration of brain cancer transcriptomes reveals organ-level molecular signatures.	PLoS Comput Biol	2013
23682826	A simple and reproducible breast cancer prognostic test.	BMC Genomics	2013
23115356	Computational medicine: translating models to clinical care.	Sci Transl Med	2012
23144830	The limits of de novo DNA motif discovery.	PLoS One	2012
20855924	A comprehensive statistical model for cell signaling.	IEEE/ACM Trans Comput Biol Bioinform	2011
22006295	Comparing machines and humans on a visual categorization test.	Proc Natl Acad Sci U S A	2011
21059680	Identification of family-determining residues in PHD fingers.	Nucleic Acids Res	2011
20218737	Relative expression analysis for molecular cancer diagnosis and prognosis.	Technol Cancer Res Treat	2010
20838408	Tackling the widespread and critical impact of batch effects in high-throughput data.	Nat Rev Genet	2010
20523739	Identifying tightly regulated and variably expressed networks by Differential Rank Conservation (DIRAC).	PLoS Comput Biol	2010
19372612	A statistical framework for image category search from a mental picture.	IEEE Trans Pattern Anal Mach Intell	2009
19961616	Two-transcript gene expression classifiers in the diagnosis and prognosis of human diseases.	BMC Genomics	2009
19964680	Relative expression analysis for identifying perturbed pathways.	Annu Int Conf IEEE Eng Med Biol Soc	2009
19695104	The ordering of expression among a few genes can provide simple cancer biomarkers and signal BRCA1 mutations.	BMC Bioinformatics	2009
18304324	Merging microarray data from separate breast cancer studies provides a robust prognostic test.	BMC Bioinformatics	2008
19791313	Real-world image annotation and retrieval: an introduction to the special section.	IEEE Trans Pattern Anal Mach Intell	2008
17366473	Discovering robust protein biomarkers for disease from relative expression reversals in 2-D DIGE data.	Proteomics	2007
17663766	Large-scale integration of cancer microarray data identifies a robust common cancer signature.	BMC Bioinformatics	2007
16105897	Simple decision rules for classifying human cancers from gene expression profiles.	Bioinformatics	2005
16131522	Robust prostate cancer marker genes emerge from direct integration of inter-study microarray data.	Bioinformatics	2005
15573821	A coarse-to-fine strategy for multiclass shape detection.	IEEE Trans Pattern Anal Mach Intell	2004
16646797	Classifying gene expression profiles from pairwise mRNA comparisons.	Stat Appl Genet Mol Biol	2004
10490943	A computational model for visual selection.	Neural Comput	1999
18290044	Nonlinear image recovery with half-quadratic regularization.	IEEE Trans Image Process	1995
22499652	Bayes smoothing algorithms for segmentation of binary images modeled by markov random fields.	IEEE Trans Pattern Anal Mach Intell	1984
22499653	Stochastic relaxation, gibbs distributions, and the bayesian restoration of images.	IEEE Trans Pattern Anal Mach Intell	1984

1 - 46 of 46

James Zou

Stanford University

Career Start Year 2016

Number of shared co-authors 0

Gregory P Way

Broad Institute of MIT and Harvard

Career Start Year 2015

Number of shared co-authors 2

Mehmet Eren Ahsen

Gies College of Business, University of Illinois at Urbana-Champaign.

Career Start Year 2015

Number of shared co-authors 1

Anna Goldenberg

SickKids Research Institute

Career Start Year 2011

Number of shared co-authors 0

Yuanfang Guan

University of Michigan ann arbor

Career Start Year 2007

Number of shared co-authors 3

Artem Sokolov

Harvard Medical School

Career Start Year 2006

Number of shared co-authors 3

Dongxiao Zhu

Wayne State University

Career Start Year 2005

Number of shared co-authors 0

Guanghua Xiao

The University of Texas Southwestern Medical Center

Career Start Year 2005

Number of shared co-authors 0

Adam A Margolin

Icahn School of Medicine

Career Start Year 2004

Number of shared co-authors 1

Florian Markowetz

CRUK Cambridge Institute, University of Cambridge

Career Start Year 2003

Number of shared co-authors 0

May D Wang

Georgia Institute of Technology

Career Start Year 2003

Number of shared co-authors 3

Gerald Quon

University of California davis

Career Start Year 2003

Number of shared co-authors 0

Su-In Lee

University of Washington

Career Start Year 2003

Number of shared co-authors 0

Giuseppe Jurman

Data Science for Health Research Unit, Bruno Kessler Foundation

Career Start Year 2003

Number of shared co-authors 4

J??rg Rahnenf??hrer

TU Dortmund University

Career Start Year 2002

Number of shared co-authors 0

Ilya Shmulevich

Institute for Systems Biology

Career Start Year 2001

Number of shared co-authors 6

Jean Yee Hwa Yang

The University of Sydney

Career Start Year 2001

Number of shared co-authors 1

Frank Emmert-Streib

Tampere University

Career Start Year 2000

Number of shared co-authors 0

Blaz Zupan

University of Ljubljana

Career Start Year 1998

Number of shared co-authors 0

Cesare Furlanello

Bruno Kessler Foundation

Career Start Year 1996

Number of shared co-authors 5

Dimitris Anastassiou

Columbia University

Career Start Year 1995

Number of shared co-authors 1

Samuel Kaski

Aalto University

Career Start Year 1995

Number of shared co-authors 0

Giorgio Valentini

Universita degli Studi di Milano

Career Start Year 1995

Number of shared co-authors 0

Ron Shamir

Tel Aviv University

Career Start Year 1995

Number of shared co-authors 1

Fabian J Theis

Technical University of Munich

Career Start Year 1992

Number of shared co-authors 0

Tommi S Jaakkola

Massachusetts Institute of Technology

Career Start Year 1992

Number of shared co-authors 0

Wing Hung Wong

Stanford University

Career Start Year 1991

Number of shared co-authors 0

Bart De Moor

STADIUS Center for Dynamical Systems

Career Start Year 1990

Number of shared co-authors 1

Yuval Kluger

Yale University School of Medicine

Career Start Year 1984

Number of shared co-authors 0

Rainer Spang

University of Regensburg

Career Start Year 1969

Number of shared co-authors 0

row(s) 1 - 30 of 30

Nathan D Price

Institute for Systems Biology

Co-authored papers 11

Luigi Marchionni

Weill-Cornell School of Medicine

Co-authored papers 8

Raimond L Winslow

Johns Hopkins University

Co-authored papers 7

Elana J Fertig

Johns Hopkins University School of Medicine

Co-authored papers 4

James A Eddy

Benaroya Research Institute at Virginia Mason, Institute for Systems Biology, Sage Bionetworks, University of Illinois at Urbana-Champaign

Co-authored papers 3

Michael F Ochs

The College of New Jersey

Co-authored papers 3

Jaeyun Sung

Mayo Clinic

Co-authored papers 3

Leroy Hood

Center for Phenomic Health, The Buck Institute for Research on Aging

Co-authored papers 3

Aik Choon Tan

Huntsman Cancer Institute, The University of Utah

Co-authored papers 3

Yuliang Wang

Nanjing Medical University

Co-authored papers 2

Jeffrey T Leek

Co-authored papers 2

John C Earls

Institute for Systems Biology

Co-authored papers 2

Andrew T Magis

Institute for Systems Biology

Co-authored papers 2

George A Carlson

Co-authored papers 1

Kenneth W Kinzler

Co-authored papers 1

Michael J Considine

Johns Hopkins University School of Medicine

Co-authored papers 1

Ludmila Danilova

Bloomberg-Kimmel Immunotherapy Institute, Johns Hopkins University School of Medicine

Co-authored papers 1

James F Gusella

Co-authored papers 1

Alexander V Favorov

Johns Hopkins School of Medicine

Co-authored papers 1

Michael R Hoopmann

Institute for Systems Biology

Co-authored papers 1

Keith A Baggerly

The University of Texas MD Anderson Cancer Center

Co-authored papers 1

Natalia A Trayanova

Co-authored papers 1

Chi V Dang

Johns Hopkins University School of Medicine

Co-authored papers 1

David Baxter

Co-authored papers 1

Seth A Ament

Institute for Genome Sciences, University of Maryland School of Medicine

Co-authored papers 1

Theo A Knijnenburg

Allen Institute for Cell Science

Co-authored papers 1

Leslie Cope

Johns Hopkins University School of Medicine

Co-authored papers 1

Joseph A Califano

University of California

Co-authored papers 1

Rafael A Irizarry

Dana-Farber Cancer Institute

Co-authored papers 1

H??ctor Corrada Bravo

University of Maryland College Park, College Park

Co-authored papers 1

1 - 30

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