Author details

Full Name

Arjun Krishnan

Affiliation

Michigan State University

ORCID

Career Start Year

2007

Papers

H Index

Expertise

CM4AI Collaborator

PMID	Paper Title	Journal Title	Published Year
36688699	Accurately modeling biased random walks on weighted networks using node2vec.	Bioinformatics	2023
38051702	Topological data analysis reveals a core gene expression backbone that defines form and function across flowering plants.	PLoS Biol	2023
36721325	PyGenePlexus: a Python package for gene discovery using network-based machine learning.	Bioinformatics	2023
34980209	Robust normalization and transformation techniques for constructing gene coexpression networks from RNA-seq data.	Genome Biol	2022
35580053	GenePlexus: a web-server for gene discovery using network-based machine learning.	Nucleic Acids Res	2022
36313344	A network-based approach for isolating the chronic inflammation gene signatures underlying complex diseases towards finding new treatment opportunities.	Front Pharmacol	2022
36347858	Systematic tissue annotations of genomics samples by modeling unstructured metadata.	Nat Commun	2022
34013329	Reconciling multiple connectivity scores for drug repurposing.	Brief Bioinform	2021
33760066	PecanPy: a fast, efficient and parallelized Python implementation of node2vec.	Bioinformatics	2021
33819264	Functional assessment of the "two-hit" model for neurodevelopmental defects in Drosophila and X. laevis.	PLoS Genet	2021
34657631	Combinatorial patterns of gene expression changes contribute to variable expressivity of the developmental delay-associated 16p12.1 deletion.	Genome Med	2021
32129827	Supervised learning is an accurate method for network-based gene classification.	Bioinformatics	2020
33074331	A flexible, interpretable, and accurate approach for imputing the expression of unmeasured genes.	Nucleic Acids Res	2020
30685436	A Computational Framework for Genome-wide Characterization of the Human Disease Landscape.	Cell Syst	2019
30190612	Rare variants in the genetic background modulate cognitive and developmental phenotypes in individuals carrying disease-associated variants.	Genet Med	2019
29758032	A loop-counting method for covariate-corrected low-rank biclustering of gene-expression and genome-wide association study data.	PLoS Comput Biol	2018
29800226	GIANT 2.0: genome-scale integrated analysis of gene networks in tissues.	Nucleic Acids Res	2018
29959322	Pervasive genetic interactions modulate neurodevelopmental defects of the autism-associated 16p11.2 deletion in Drosophila melanogaster.	Nat Commun	2018
28979289	RECoN: Rice Environment Coexpression Network for Systems Level Analysis of Abiotic-Stress Response.	Front Plant Sci	2017
27479844	Genome-wide prediction and functional characterization of the genetic basis of autism spectrum disorder.	Nat Neurosci	2016
25581801	Targeted exploration and analysis of large cross-platform human transcriptomic compendia.	Nat Methods	2015
25915600	Understanding multicellular function and disease with human tissue-specific networks.	Nat Genet	2015
25969450	IMP 2.0: a multi-species functional genomics portal for integration, visualization and prediction of protein functions and networks.	Nucleic Acids Res	2015
25940632	FNTM: a server for predicting functional networks of tissues in mouse.	Nucleic Acids Res	2015
25786808	Low-variance RNAs identify Parkinson's disease molecular signature in blood.	Mov Disord	2015
25431329	Tissue-aware data integration approach for the inference of pathway interactions in metazoan organisms.	Bioinformatics	2015
25358745	Coordinated regulation of photosynthesis in rice increases yield and tolerance to environmental stress.	Nat Commun	2014
25209982	Rice GROWTH UNDER DROUGHT KINASE is required for drought tolerance and grain yield under normal and drought stress conditions.	Plant Physiol	2014
23314326	Reconciling differential gene expression data with molecular interaction networks.	Bioinformatics	2013
24037214	Ontology-aware classification of tissue and cell-type signals in gene expression profiles across platforms and technologies.	Bioinformatics	2013
22837360	Effects of drought on gene expression in maize reproductive and leaf meristem tissue revealed by RNA-Seq.	Plant Physiol	2012
20931370	Microarray data analysis.	Methods Mol Biol	2011
21327881	Renewal-reward process formulation of motor protein dynamics.	Bull Math Biol	2011
21205614	Coordinated activation of cellulose and repression of lignin biosynthesis pathways in rice.	Plant Physiol	2011
20015036	Mechanisms of action and medicinal applications of abscisic Acid.	Curr Med Chem	2010
20807999	Molecular and physiological analysis of drought stress in Arabidopsis reveals early responses leading to acclimation in plant growth.	Plant Physiol	2010
19126710	Mutant resources in rice for functional genomics of the grasses.	Plant Physiol	2009
18632743	Integrative approaches for mining transcriptional regulatory programs in Arabidopsis.	Brief Funct Genomic Proteomic	2008
17881564	Improvement of water use efficiency in rice by expression of HARDY, an Arabidopsis drought and salt tolerance gene.	Proc Natl Acad Sci U S A	2007

1 - 39 of 39

Zongliang Yue

University of Alabama at Birmingham, USA Informatics Institute

Career Start Year 2014

Number of shared co-authors 0

Daifeng Wang

University of Wisconsin-Madison

Career Start Year 2012

Number of shared co-authors 0

Ludwig Geistlinger

Center for Computational Biomedicine, Harvard Medical School

Career Start Year 2008

Number of shared co-authors 1

Yuanfang Guan

University of Michigan ann arbor

Career Start Year 2007

Number of shared co-authors 5

Andrey Alexeyenko

Karolinska Institutet

Career Start Year 2006

Number of shared co-authors 0

Diogo F T Veiga

University of Campinas (UNICAMP)

Career Start Year 2006

Number of shared co-authors 0

Sara Mostafavi

University of British Columbia and BC Children's Hospital

Career Start Year 2006

Number of shared co-authors 1

Hai Fang

University of Bristol

Career Start Year 2006

Number of shared co-authors 1

Avi Ma'ayan

Icahn School of Medicine at Mount Sinai

Career Start Year 2005

Number of shared co-authors 2

Dongxiao Zhu

Wayne State University

Career Start Year 2005

Number of shared co-authors 0

Xianghong Jasmine Zhou

David Geffen School of Medicine, University of California at Los Angeles

Career Start Year 2004

Number of shared co-authors 0

Stephen A Ramsey

Oregon State University

Career Start Year 2004

Number of shared co-authors 0

Bin Zhang

Graduate School of Medicine, The University of Tokyo

Career Start Year 2004

Number of shared co-authors 0

Haiyan Huang

Washington State University

Career Start Year 2004

Number of shared co-authors 0

Quaid Morris

Sloan Kettering Institute

Career Start Year 2003

Number of shared co-authors 1

Zhandong Liu

Jan and Dan Duncan Neurological Research Institute at Texas Children's Hospital

Career Start Year 2003

Number of shared co-authors 0

Chunlei Wu

The Scripps Research Institute

Career Start Year 2002

Number of shared co-authors 0

Johan Rung

Uppsala University

Career Start Year 2001

Number of shared co-authors 1

Marcio Luis Acencio

Norwegian University of Science and Technology

Career Start Year 2000

Number of shared co-authors 0

Gary D Bader

University of Toronto

Career Start Year 2000

Number of shared co-authors 2

Hedi Peterson

Institute of Computer Science, University of Tartu

Career Start Year 2000

Number of shared co-authors 1

Joshua M Stuart

University of California at Santa Cruz

Career Start Year 2000

Number of shared co-authors 0

Ralf Herwig

Max Planck Institute for Molecular Genetics

Career Start Year 1998

Number of shared co-authors 0

Igor Jurisica

Schroeder Arthritis Institute

Career Start Year 1998

Number of shared co-authors 0

Trey Ideker (CM4AI)

University of California San Diego

Career Start Year 1996

Number of shared co-authors 4

Paul Pavlidis

University of British Columbia

Career Start Year 1994

Number of shared co-authors 1

Andrea Califano

Columbia University

Career Start Year 1993

Number of shared co-authors 1

Jill P Mesirov

University of California San Diego

Career Start Year 1992

Number of shared co-authors 0

Robert Gentleman

Center for Computational Biomedicine, Harvard Medical School

Career Start Year 1991

Number of shared co-authors 0

John Quackenbush

Harvard T. H. Chan School of Public Health

Career Start Year 1989

Number of shared co-authors 1

row(s) 1 - 30 of 30

Olga G Troyanskaya

Lewis-Sigler Institute for Integrative Genomics, Princeton University

Co-authored papers 11

Aaron K Wong

Flatiron Institute, Simons Foundation

Co-authored papers 8

Santhosh Girirajan

The Huck Institutes of Life Sciences, University Park, Pennsylvania State University

Co-authored papers 4

Qian Zhu

Boston Children's Hospital

Co-authored papers 4

Ran Zhang

University of Wisconsin School of Medicine and Public Health

Co-authored papers 3

Young-Suk Lee

Center for RNA Research, Institute for Basic Science

Co-authored papers 3

Stuart C Sealfon

Icahn School of Medicine at Mount Sinai

Co-authored papers 2

Kara Dolinski

Lewis-Sigler Institute for Integrative Genomics, Princeton University

Co-authored papers 2

Casey S Greene

Dartmouth College Geisel School of Medicine, Princeton University, University of Colorado Anschutz Medical Campus, University of Pennsylvania Perelman School of Medicine

Co-authored papers 2

Casey S Greene

Co-authored papers 2

Chandra L Theesfeld

Lewis-Sigler Institute for Integrative Genomics, Princeton University

Co-authored papers 2

Vessela N Kristensen

Faculty of Clinical Medicine, University of Oslo

Co-authored papers 2

Christopher Y Park

NYU Robert I. Grossman School of Medicine

Co-authored papers 1