Steve Horvath, Ph.D., Sc.D.

Laboratory Address:
Gonda 5545

Mailing Address:
Department of Human Genetics
Gonda Research Center
David Geffen School of Medicine
695 Charles E. Young Drive South
Box 708822
Los Angeles, CA 90095

Work Address:
Gonda 4357A
Campus - 708822
CA Gonda
Los Angeles, CA 90095 Gonda
Los Angeles, CA 90095

Professor, Human Genetics, Biostatistics
Research Interests
I am heading the Array Data Analysis Group (ADAG) at UCLA, which specializes in the analysis of DNA and tissue microarray data and is comprised of faculty and students in the departments of Human Genetics, Biostatistics, and the Bioinformatics Program. ADAG has 3 missions: education, data analysis and research. Below I highlight some research efforts of my group. Family-based Allelic Association Tests for Finding Complex Disease Genes Family-based allelic association tests (FBAT) are used to determine whether genetic markers are associated with disease occurrence. Family-based tests are attractive because they are robust to population admixture effects. Many complex genetic diseases, e.g., Alzheimer's disease, have late age of onset so that it can be difficult to obtain the genetic information of the patient's parents. We developed the sibship disequilibrium test that uses discordant sibships and we collaborated Profs Laird and Xu to develop and implement the family based allelic association test (FBAT) method and software The FBAT method provides haplotype tests for family-based studies that are efficient and robust to population admixture, phenotype distribution specification, and ascertainment based on phenotypes. It can handle missing parental genotypes and/or missing phase in both offspring and parents. It yields either haplotype-specific (univariate) tests or multi-haplotype (global) tests. Tissue Microarray Data: Random Forest Clustering We have been excited about the potential of tissue microarray data for cancer genetics. Tissue microarrays are a new high-throughput tool for the study of protein expression patterns in tissues and are increasingly used to evaluate the diagnostic, prognostic importance of tumor biomarkers. Lack of appropriate statistical methodology have inspired us to develop and apply appropriate data analysis methods. Since it is standard practice in the tumor marker community to use cut-off values for tumor marker expression values, we realized the value of using tree- and forest- based prediction methods for these data. In particular, we have focused on the use of random forest dissimilarities for tumor class discovery and have studied the theoretical properties of a random forest dissimilarity ( The random forest dissimilarity weighs the contribution of each covariate in a natural way: the more related the covariate is to other covariates the more it will affect the definition of the dissimilarity. Dependent markers may correspond to disease pathways, which drive the clinical outcomes of interest. Systems biology: weighted gene co-expression networks High-throughput approaches for analyzing the expressed genome provide an unprecedented opportunity to enhance our understanding of human disease. Identifying disease-associated genes that predict patient survival or that may be therapeutically targeted remains a significant challenge. A relatively new approach to analyzing complex microarray data involves application of graphical network models to identify topological relationships between genes. By elucidating the higher level organizational pattern of gene coexpression networks that regulate cellular phenotype, this approach has the potential to identify key disease genes. We have worked on gene co-expression network methods that can be used to explore the system-level functionality of genes. The gene network construction is conceptually straightforward: nodes represent genes and nodes are connected if the corresponding genes are significantly co-expressed across appropriately chosen tissue samples. In reality, it is tricky to define the connections between the nodes in such networks. An important question is whether it is biologically meaningful to encode gene co-expression using binary information (connected=1, unconnected=0). We have introduced a general framework for `soft' thresholding that assigns a connection weight to each gene pair. A technical report and an R tutorial can be found here:

Dr Horvath is an aging researcher and bioinformatician whose research lies at the intersection of epidemiology, chronic diseases, epigenetics, genetics, and systems biology. He developed systems biologic approaches such as weighted gene co-expression network analysis. He works on all aspects of biomarker development with a particular focus on genomic biomarkers of aging. He developed a highly accurate multi-tissue biomarker of aging known as the epigenetic clock. Salient features of the epigenetic clock include its high accuracy and its applicability to a broad spectrum of tissues and cell types. He develops and applies methods for analyzing and integrating gene expression-, DNA methylation-, microRNA, genetic marker-, and complex phenotype data. His lab members apply and develop data mining methods to study a broad spectrum of diseases, e.g. aging research, cancer, cardiovascular disease, HIV, Huntington's disease, neurodegenerative diseases.


A selected list of publications:

Maierhofer Anna, Flunkert Julia, Oshima Junko, Martin George M, Haaf Thomas, Horvath Steve   Accelerated epigenetic aging in Werner syndrome Aging, 2017; 9(4): 1143-1152.
Thompson Michael J, vonHoldt Bridgett, Horvath Steve, Pellegrini Matteo   An epigenetic aging clock for dogs and wolves Aging, 2017; 9(3): 1055-1068.
Crandall Carolyn J, Manson JoAnn E, Hohensee Chancellor, Horvath Steve, Wactawski-Wende Jean, LeBlanc Erin S, Vitolins Mara Z, Nassir Rami, Sinsheimer Janet S   Association of genetic variation in the tachykinin receptor 3 locus with hot flashes and night sweats in the Women's Health Initiative Study Menopause (New York, N.Y.), 2017; 24(3): 252-261.
Chuang Yu-Hsuan, Quach Austin, Absher Devin, Assimes Themistocles, Horvath Steve, Ritz Beate   Coffee consumption is associated with DNA methylation levels of human blood European journal of human genetics : EJHG, 2017; 25(5): 608-616.
Kozlenkov Alexey, Jaffe Andrew E, Timashpolsky Alisa, Apontes Pasha, Rudchenko Sergei, Barbu Mihaela, Byne William, Hurd Yasmin L, Horvath Steve, Dracheva Stella   DNA Methylation Profiling of Human Prefrontal Cortex Neurons in Heroin Users Shows Significant Difference between Genomic Contexts of Hyper- and Hypomethylation and a Younger Epigenetic Age Genes, 2017; 8(6): 209-219.
Sehl Mary E, Henry Jill E, Storniolo Anna Maria, Ganz Patricia A, Horvath Steve   DNA methylation age is elevated in breast tissue of healthy women Breast cancer research and treatment, 2017; 164(1): 209-219.
Ambatipudi Srikant, Horvath Steve, Perrier Flavie, Cuenin Cyrille, Hernandez-Vargas Hector, Le Calvez-Kelm Florence, Durand Geoffroy, Byrnes Graham, Ferrari Pietro, Bouaoun Liacine, Sklias Athena, Chajes Véronique, Overvad Kim, Severi Gianluca, Baglietto Laura, Clavel-Chapelon Françoise, Kaaks Rudolf, Barrdahl Myrto, Boeing Heiner, Trichopoulou Antonia, Lagiou Pagona, Naska Androniki, Masala Giovanna, Agnoli Claudia, Polidoro Silvia, Tumino Rosario, Panico Salvatore, Dollé Martijn, Peeters Petra H M, Onland-Moret N Charlotte, Sandanger Torkjel M, Nøst Therese H, Weiderpass Elisabete, Quirós J Ramón, Agudo Antonio, Rodriguez-Barranco Miguel, Huerta Castaño José María, Barricarte Aurelio, Fernández Ander Matheu, Travis Ruth C, Vineis Paolo, Muller David C, Riboli Elio, Gunter Marc, Romieu Isabelle, Herceg Zdenko   DNA methylome analysis identifies accelerated epigenetic ageing associated with postmenopausal breast cancer susceptibility European journal of cancer (Oxford, England : 1990), 2017; 75(4): 299-307.
Stölzel Friedrich, Brosch Mario, Horvath Steve, Kramer Michael, Thiede Christian, von Bonin Malte, Ammerpohl Ole, Middeke Moritz, Schetelig Johannes, Ehninger Gerhard, Hampe Jochen, Bornhäuser Martin   Dynamics of epigenetic age following hematopoietic stem cell transplantation Haematologica, 2017; 102(8): e321-e323.
Carroll Judith E, Irwin Michael R, Levine Morgan, Seeman Teresa E, Absher Devin, Assimes Themistocles, Horvath Steve   Epigenetic Aging and Immune Senescence in Women With Insomnia Symptoms: Findings From the Women's Health Initiative Study Biological psychiatry, 2017; 81(2): 136-144.
Quach Austin, Levine Morgan E, Tanaka Toshiko, Lu Ake T, Chen Brian H, Ferrucci Luigi, Ritz Beate, Bandinelli Stefania, Neuhouser Marian L, Beasley Jeannette M, Snetselaar Linda, Wallace Robert B, Tsao Philip S, Absher Devin, Assimes Themistocles L, Stewart James D, Li Yun, Hou Lifang, Baccarelli Andrea A, Whitsel Eric A, Horvath Steve   Epigenetic clock analysis of diet, exercise, education, and lifestyle factors Aging, 2017; 9(2): 419-446.
Wang James K T, Langfelder Peter, Horvath Steve, Palazzolo Michael J   Exosomes and Homeostatic Synaptic Plasticity Are Linked to Each other and to Huntington's, Parkinson's, and Other Neurodegenerative Diseases by Database-Enabled Analyses of Comprehensively Curated Datasets Frontiers in neuroscience, 2017; 11(2): 149.
Lu Ake T, Hannon Eilis, Levine Morgan E, Crimmins Eileen M, Lunnon Katie, Mill Jonathan, Geschwind Daniel H, Horvath Steve   Genetic architecture of epigenetic and neuronal ageing rates in human brain regions Nature communications, 2017; 8(6): 15353.
Leung Janice M, Fishbane Nick, Jones Meaghan, Morin Alexander, Xu Stella, Liu Joseph Cy, MacIsaac Julie, Milloy M-J, Hayashi Kanna, Montaner Julio, Horvath Steve, Kobor Michael, Sin Don D, Harrigan P Richard, Man S F Paul   Longitudinal study of surrogate aging measures during human immunodeficiency virus seroconversion Aging, 2017; 9(3): 687-705.
Simpkin Andrew J, Howe Laura D, Tilling Kate, Gaunt Tom R, Lyttleton Oliver, McArdle Wendy L, Ring Susan M, Horvath Steve, Smith George Davey, Relton Caroline L   The epigenetic clock and physical development during childhood and adolescence: longitudinal analysis from a UK birth cohort International journal of epidemiology, 2017; 46(2): 549-558.
Chandran Vijayendran, Coppola Giovanni, Nawabi Homaira, Omura Takao, Versano Revital, Huebner Eric A, Zhang Alice, Costigan Michael, Yekkirala Ajay, Barrett Lee, Blesch Armin, Michaelevski Izhak, Davis-Turak Jeremy, Gao Fuying, Langfelder Peter, Horvath Steve, He Zhigang, Benowitz Larry, Fainzilber Mike, Tuszynski Mark, Woolf Clifford J, Geschwind Daniel H   A Systems-Level Analysis of the Peripheral Nerve Intrinsic Axonal Growth Program Neuron, 2016; 89(5): 956-70.
Levine Andrew J, Quach Austin, Moore David J, Achim Cristian L, Soontornniyomkij Virawudh, Masliah Eliezer, Singer Elyse J, Gelman Benjamin, Nemanim Natasha, Horvath Steve   Accelerated epigenetic aging in brain is associated with pre-mortem HIV-associated neurocognitive disorders Journal of neurovirology, 2016; 22(3): 366-75.
Horvath Steve, Gurven Michael, Levine Morgan E, Trumble Benjamin C, Kaplan Hillard, Allayee Hooman, Ritz Beate R, Chen Brian, Lu Ake T, Rickabaugh Tammy M, Jamieson Beth D, Sun Dianjianyi, Li Shengxu, Chen Wei, Quintana-Murci Lluis, Fagny Maud, Kobor Michael S, Tsao Philip S, Reiner Alexander P, Edlefsen Kerstin L, Absher Devin, Assimes Themistocles L   An epigenetic clock analysis of race/ethnicity, sex, and coronary heart disease Genome biology, 2016; 17(1): 171.
Knight Anna K, Craig Jeffrey M, Theda Christiane, Bækvad-Hansen Marie, Bybjerg-Grauholm Jonas, Hansen Christine S, Hollegaard Mads V, Hougaard David M, Mortensen Preben B, Weinsheimer Shantel M, Werge Thomas M, Brennan Patricia A, Cubells Joseph F, Newport D Jeffrey, Stowe Zachary N, Cheong Jeanie L Y, Dalach Philippa, Doyle Lex W, Loke Yuk J, Baccarelli Andrea A, Just Allan C, Wright Robert O, Téllez-Rojo Mara M, Svensson Katherine, Trevisi Letizia, Kennedy Elizabeth M, Binder Elisabeth B, Iurato Stella, Czamara Darina, Räikkönen Katri, Lahti Jari M T, Pesonen Anu-Katriina, Kajantie Eero, Villa Pia M, Laivuori Hannele, Hämäläinen Esa, Park Hea Jin, Bailey Lynn B, Parets Sasha E, Kilaru Varun, Menon Ramkumar, Horvath Steve, Bush Nicole R, LeWinn Kaja Z, Tylavsky Frances A, Conneely Karen N, Smith Alicia K   An epigenetic clock for gestational age at birth based on blood methylation data Genome biology, 2016; 17(1): 206.
Ligthart Symen, Marzi Carola, Aslibekyan Stella, Mendelson Michael M, Conneely Karen N, Tanaka Toshiko, Colicino Elena, Waite Lindsay L, Joehanes Roby, Guan Weihua, Brody Jennifer A, Elks Cathy, Marioni Riccardo, Jhun Min A, Agha Golareh, Bressler Jan, Ward-Caviness Cavin K, Chen Brian H, Huan Tianxiao, Bakulski Kelly, Salfati Elias L, Salfati Elias L, Fiorito Giovanni, Fiorito Giovanni, Wahl Simone, Schramm Katharina, Sha Jin, Hernandez Dena G, Just Allan C, Smith Jennifer A, Sotoodehnia Nona, Pilling Luke C, Pankow James S, Tsao Phil S, Liu Chunyu, Zhao Wei, Guarrera Simonetta, Michopoulos Vasiliki J, Smith Alicia K, Peters Marjolein J, Melzer David, Vokonas Pantel, Fornage Myriam, Prokisch Holger, Bis Joshua C, Chu Audrey Y, Herder Christian, Grallert Harald, Yao Chen, Shah Sonia, McRae Allan F, Lin Honghuang, Horvath Steve, Fallin Daniele, Hofman Albert, Wareham Nicholas J, Wiggins Kerri L, Feinberg Andrew P, Starr John M, Visscher Peter M, Murabito Joanne M, Kardia Sharon L R, Absher Devin M, Binder Elisabeth B, Singleton Andrew B, Bandinelli Stefania, Peters Annette, Waldenberger Melanie, Matullo Giuseppe, Schwartz Joel D, Demerath Ellen W, Uitterlinden André G, van Meurs Joyce B J, Franco Oscar H, Chen Yii-Der Ida, Levy Daniel, Turner Stephen T, Deary Ian J, Ressler Kerry J, Dupuis Josée, Ferrucci Luigi, Ong Ken K, Assimes Themistocles L, Boerwinkle Eric, Koenig Wolfgang, Arnett Donna K, Baccarelli Andrea A, Benjamin Emelia J, Dehghan Abbas   DNA methylation signatures of chronic low-grade inflammation are associated with complex diseases Genome biology, 2016; 17(1): 255.
Chen Brian H, Marioni Riccardo E, Colicino Elena, Peters Marjolein J, Ward-Caviness Cavin K, Tsai Pei-Chien, Roetker Nicholas S, Just Allan C, Demerath Ellen W, Guan Weihua, Bressler Jan, Fornage Myriam, Studenski Stephanie, Vandiver Amy R, Moore Ann Zenobia, Tanaka Toshiko, Kiel Douglas P, Liang Liming, Vokonas Pantel, Schwartz Joel, Lunetta Kathryn L, Murabito Joanne M, Bandinelli Stefania, Hernandez Dena G, Melzer David, Nalls Michael, Pilling Luke C, Price Timothy R, Singleton Andrew B, Gieger Christian, Holle Rolf, Kretschmer Anja, Kronenberg Florian, Kunze Sonja, Linseisen Jakob, Meisinger Christine, Rathmann Wolfgang, Waldenberger Melanie, Visscher Peter M, Shah Sonia, Wray Naomi R, McRae Allan F, Franco Oscar H, Hofman Albert, Uitterlinden André G, Absher Devin, Assimes Themistocles, Levine Morgan E, Lu Ake T, Tsao Philip S, Hou Lifang, Manson JoAnn E, Carty Cara L, LaCroix Andrea Z, Reiner Alexander P, Spector Tim D, Feinberg Andrew P, Levy Daniel, Baccarelli Andrea, van Meurs Joyce, Bell Jordana T, Peters Annette, Deary Ian J, Pankow James S, Ferrucci Luigi, Horvath Steve   DNA methylation-based measures of biological age: meta-analysis predicting time to death Aging, 2016; 8(9): 1844-1865.
Lowe Donna, Horvath Steve, Raj Kenneth   Epigenetic clock analyses of cellular senescence and ageing Oncotarget, 2016; 7(8): 8524-31.
Lu Ake T, Hannon Eilis, Levine Morgan E, Hao Ke, Crimmins Eileen M, Lunnon Katie, Kozlenkov Alexey, Mill Jonathan, Dracheva Stella, Horvath Steve   Genetic variants near MLST8 and DHX57 affect the epigenetic age of the cerebellum Nature communications, 2016; 7(8): 10561.
Parikshak Neelroop N, Swarup Vivek, Belgard T Grant, Irimia Manuel, Ramaswami Gokul, Gandal Michael J, Hartl Christopher, Leppa Virpi, Ubieta Luis de la Torre, Huang Jerry, Lowe Jennifer K, Blencowe Benjamin J, Horvath Steve, Geschwind Daniel H   Genome-wide changes in lncRNA, splicing, and regional gene expression patterns in autism Nature, 2016; 540(7633): 423-427.
Horvath Steve, Langfelder Peter, Kwak Seung, Aaronson Jeff, Rosinski Jim, Vogt Thomas F, Eszes Marika, Faull Richard L M, Curtis Maurice A, Waldvogel Henry J, Choi Oi-Wa, Tung Spencer, Vinters Harry V, Coppola Giovanni, Yang X William   Huntington's disease accelerates epigenetic aging of human brain and disrupts DNA methylation levels Aging, 2016; 8(7): 1485-512.
Langfelder Peter, Cantle Jeffrey P, Chatzopoulou Doxa, Wang Nan, Gao Fuying, Al-Ramahi Ismael, Lu Xiao-Hong, Ramos Eliana Marisa, El-Zein Karla, Zhao Yining, Deverasetty Sandeep, Tebbe Andreas, Schaab Christoph, Lavery Daniel J, Howland David, Kwak Seung, Botas Juan, Aaronson Jeffrey S, Rosinski Jim, Coppola Giovanni, Horvath Steve, Yang X William   Integrated genomics and proteomics define huntingtin CAG length-dependent networks in mice Nature neuroscience, 2016; 19(4): 623-33.
Liu Xian, Grogan Tristan R, Hieronymus Haley, Hashimoto Takao, Mottahedeh Jack, Cheng Donghui, Zhang Lijun, Huang Kevin, Stoyanova Tanya, Park Jung Wook, Shkhyan Ruzanna O, Nowroozizadeh Behdokht, Rettig Matthew B, Sawyers Charles L, Elashoff David, Horvath Steve, Huang Jiaoti, Witte Owen N, Goldstein Andrew S   Low CD38 Identifies Progenitor-like Inflammation-Associated Luminal Cells that Can Initiate Human Prostate Cancer and Predict Poor Outcome Cell reports, 2016; 17(10): 2596-2606.
Hong Candice Sun, Graham Nicholas A, Gu Wen, Espindola Camacho Carolina, Mah Vei, Maresh Erin L, Alavi Mohammed, Bagryanova Lora, Krotee Pascal A L, Gardner Brian K, Behbahan Iman Saramipoor, Horvath Steve, Chia David, Mellinghoff Ingo K, Hurvitz Sara A, Dubinett Steven M, Critchlow Susan E, Kurdistani Siavash K, Goodglick Lee, Braas Daniel, Graeber Thomas G, Christofk Heather R   MCT1 Modulates Cancer Cell Pyruvate Export and Growth of Tumors that Co-express MCT1 and MCT4 Cell reports, 2016; 14(7): 1590-601.
Huh Christine J, Zhang Bo, Victor Matheus B, Dahiya Sonika, Batista Luis Fz, Horvath Steve, Yoo Andrew S   Maintenance of age in human neurons generated by microRNA-based neuronal conversion of fibroblasts eLife, 2016; 5(9): 2222-2231.
Levine Morgan E, Lu Ake T, Chen Brian H, Hernandez Dena G, Singleton Andrew B, Ferrucci Luigi, Bandinelli Stefania, Salfati Elias, Manson JoAnn E, Quach Austin, Kusters Cynthia D J, Kuh Diana, Wong Andrew, Teschendorff Andrew E, Widschwendter Martin, Ritz Beate R, Absher Devin, Assimes Themistocles L, Horvath Steve   Menopause accelerates biological aging Proceedings of the National Academy of Sciences of the United States of America, 2016; 113(33): 9327-32.
Li Xiaoxiao, LeBlanc James, Elashoff David, McHardy Ian, Tong Maomeng, Roth Bennett, Ippoliti Andrew, Barron Gildardo, McGovern Dermot, McDonald Keely, Newberry Rodney, Graeber Thomas, Horvath Steve, Goodglick Lee, Braun Jonathan   Microgeographic Proteomic Networks of the Human Colonic Mucosa and Their Association With Inflammatory Bowel Disease Cellular and molecular gastroenterology and hepatology, 2016; 2(5): 567-583.
Simpkin Andrew J, Hemani Gibran, Suderman Matthew, Gaunt Tom R, Lyttleton Oliver, Mcardle Wendy L, Ring Susan M, Sharp Gemma C, Tilling Kate, Horvath Steve, Kunze Sonja, Peters Annette, Waldenberger Melanie, Ward-Caviness Cavin, Nohr Ellen A, Sørensen Thorkild I A, Relton Caroline L, Smith George Davey   Prenatal and early life influences on epigenetic age in children: a study of mother-offspring pairs from two cohort studies Human molecular genetics, 2016; 25(1): 191-201.
Li Dongcui, Hsu Raymond, Figura Brian, Jacobs Robert, Li Sinan, Horvath Steve, Clifford Ted, Chari Krishnan   Rheology and structure of surface crosslinked surfactant-activated microgels Soft matter, 2016; 12(34): 7150-8.
Vidal-Bralo Laura, Lopez-Golan Yolanda, Mera-Varela Antonio, Rego-Perez Ignacio, Horvath Steve, Zhang Yuhua, Del Real Álvaro, Zhai Guangju, Blanco Francisco J, Riancho Jose A, Gomez-Reino Juan J, Gonzalez Antonio   Specific premature epigenetic aging of cartilage in osteoarthritis Aging, 2016; 8(9): 2222-2231.
Horvath Steve, Garagnani Paolo, Bacalini Maria Giulia, Pirazzini Chiara, Salvioli Stefano, Gentilini Davide, Di Blasio Anna Maria, Giuliani Cristina, Tung Spencer, Vinters Harry V, Franceschi Claudio   Accelerated epigenetic aging in Down syndrome Aging cell, 2015; 14(3): 491-5.
Rickabaugh Tammy M, Baxter Ruth M, Sehl Mary, Sinsheimer Janet S, Hultin Patricia M, Hultin Lance E, Quach Austin, Martínez-Maza Otoniel, Horvath Steve, Vilain Eric, Jamieson Beth D   Acceleration of age-associated methylation patterns in HIV-1-infected adults PloS one, 2015; 10(3): e0119201.
Marioni Riccardo E, Shah Sonia, McRae Allan F, Chen Brian H, Colicino Elena, Harris Sarah E, Gibson Jude, Henders Anjali K, Redmond Paul, Cox Simon R, Pattie Alison, Corley Janie, Murphy Lee, Martin Nicholas G, Montgomery Grant W, Feinberg Andrew P, Fallin M Daniele, Multhaup Michael L, Jaffe Andrew E, Joehanes Roby, Schwartz Joel, Just Allan C, Lunetta Kathryn L, Murabito Joanne M, Starr John M, Horvath Steve, Baccarelli Andrea A, Levy Daniel, Visscher Peter M, Wray Naomi R, Deary Ian J   DNA methylation age of blood predicts all-cause mortality in later life Genome biology, 2015; 16(3): 25.
Levine Morgan E, Hosgood H Dean, Chen Brian, Absher Devin, Assimes Themistocles, Horvath Steve   DNA methylation age of blood predicts future onset of lung cancer in the women's health initiative Aging, 2015; 7(9): 690-700.
Horvath Steve, Pirazzini Chiara, Bacalini Maria Giulia, Gentilini Davide, Di Blasio Anna Maria, Delledonne Massimo, Mari Daniela, Arosio Beatrice, Monti Daniela, Passarino Giuseppe, De Rango Francesco, D'Aquila Patrizia, Giuliani Cristina, Marasco Elena, Collino Sebastiano, Descombes Patrick, Garagnani Paolo, Franceschi Claudio   Decreased epigenetic age of PBMCs from Italian semi-supercentenarians and their offspring Aging, 2015; 7(12): 1159-70.
Walker Richard F, Liu Jia Sophie, Peters Brock A, Ritz Beate R, Wu Timothy, Ophoff Roel A, Horvath Steve   Epigenetic age analysis of children who seem to evade aging Aging, 2015; 7(5): 334-9.
Levine Morgan E, Lu Ake T, Bennett David A, Horvath Steve   Epigenetic age of the pre-frontal cortex is associated with neuritic plaques, amyloid load, and Alzheimer's disease related cognitive functioning Aging, 2015; 7(12): 1198-211.
Horvath Steve   Erratum to: DNA methylation age of human tissues and cell types Genome biology, 2015; 16(5): 96.
Horvath Steve, Levine Andrew J   HIV-1 Infection Accelerates Age According to the Epigenetic Clock The Journal of infectious diseases, 2015; 212(10): 1563-73.
Alavi Mohammed, Mah Vei, Maresh Erin L, Bagryanova Lora, Horvath Steve, Chia David, Goodglick Lee, Liu Alvin Y   High expression of AGR2 in lung cancer is predictive of poor survival BMC cancer, 2015; 15(43): 655.
van Eijk Kristel R, de Jong Simone, Strengman Eric, Buizer-Voskamp Jacobine E, Kahn René S, Boks Marco P, Horvath Steve, Ophoff Roel A   Identification of schizophrenia-associated loci by combining DNA methylation and gene expression data from whole blood European journal of human genetics : EJHG, 2015; 23(8): 1106-10.
Horvath Steve, Ritz Beate R   Increased epigenetic age and granulocyte counts in the blood of Parkinson's disease patients Aging, 2015; 7(12): 1130-42.
Boks Marco P, van Mierlo Hans C, Rutten Bart P F, Radstake Timothy R D J, De Witte Lot, Geuze Elbert, Horvath Steve, Schalkwyk Leonard C, Vinkers Christiaan H, Broen Jasper C A, Vermetten Eric   Longitudinal changes of telomere length and epigenetic age related to traumatic stress and post-traumatic stress disorder Psychoneuroendocrinology, 2015; 51(3): 506-12.
Mah Vei, Alavi Mohammad, Márquez-Garbán Diana C, Maresh Erin L, Kim Sara R, Horvath Steve, Bagryanova Lora, Huerta-Yepez Sara, Chia David, Pietras Richard, Goodglick Lee   Ribonucleotide reductase subunit M2 predicts survival in subgroups of patients with non-small cell lung carcinoma: effects of gender and smoking status PloS one, 2015; 10(5): e0127600.
Luo Yuping, Coskun Volkan, Liang Aibing, Yu Juehua, Cheng Liming, Ge Weihong, Shi Zhanping, Zhang Kunshan, Li Chun, Cui Yaru, Lin Haijun, Luo Dandan, Wang Junbang, Lin Connie, Dai Zachary, Zhu Hongwen, Zhang Jun, Liu Jie, Liu Hailiang, deVellis Jean, Horvath Steve, Sun Yi Eve, Li Siguang   Single-cell transcriptome analyses reveal signals to activate dormant neural stem cells Cell, 2015; 161(5): 1175-86.
Horvath Steve, Mah Vei, Lu Ake T, Woo Jennifer S, Choi Oi-Wa, Jasinska Anna J, Riancho José A, Tung Spencer, Coles Natalie S, Braun Jonathan, Vinters Harry V, Coles L Stephen   The cerebellum ages slowly according to the epigenetic clock Aging, 2015; 7(5): 294-306.
Marioni Riccardo E, Shah Sonia, McRae Allan F, Ritchie Stuart J, Muniz-Terrera Graciela, Harris Sarah E, Gibson Jude, Redmond Paul, Cox Simon R, Pattie Alison, Corley Janie, Taylor Adele, Murphy Lee, Starr John M, Horvath Steve, Visscher Peter M, Wray Naomi R, Deary Ian J   The epigenetic clock is correlated with physical and cognitive fitness in the Lothian Birth Cohort 1936 International journal of epidemiology, 2015; 44(4): 1388-96.
Duan Hongmei, Ge Weihong, Zhang Aifeng, Xi Yue, Chen Zhihua, Luo Dandan, Cheng Yin, Fan Kevin S, Horvath Steve, Sofroniew Michael V, Cheng Liming, Yang Zhaoyang, Sun Yi E, Li Xiaoguang   Transcriptome analyses reveal molecular mechanisms underlying functional recovery after spinal cord injury Proceedings of the National Academy of Sciences of the United States of America, 2015; 112(43): 13360-5.
Tian Yuan, Voineagu Irina, Paşca Sergiu P, Won Hyejung, Chandran Vijayendran, Horvath Steve, Dolmetsch Ricardo E, Geschwind Daniel H   Alteration in basal and depolarization induced transcriptional network in iPSC derived neurons from Timothy syndrome Genome medicine, 2014; 6(10): 75.
Li Yun, Chen Jason A, Sears Renee L, Gao Fuying, Klein Eric D, Karydas Anna, Geschwind Michael D, Rosen Howard J, Boxer Adam L, Guo Weilong, Pellegrini Matteo, Horvath Steve, Miller Bruce L, Geschwind Daniel H, Coppola Giovanni   An epigenetic signature in peripheral blood associated with the haplotype on 17q21.31, a risk factor for neurodegenerative tauopathy PLoS genetics, 2014; 10(3): e1004211.
Khalid Omar, Kim Jeffrey J, Kim Hyun-Sung, Hoang Michael, Tu Thanh G, Elie Omid, Lee Connie, Vu Catherine, Horvath Steve, Spigelman Igor, Kim Yong   Gene expression signatures affected by alcohol-induced DNA methylomic deregulation in human embryonic stem cells Stem cell research, 2014; 12(3): 791-806.
Levine Andrew J, Panos Stella E, Horvath Steve   Genetic, transcriptomic, and epigenetic studies of HIV-associated neurocognitive disorder Journal of acquired immune deficiency syndromes (1999), 2014; 65(4): 481-503.
Montoya Dennis, Inkeles Megan S, Liu Phillip T, Realegeno Susan, Teles Rosane M B, Vaidya Poorva, Munoz Marcos A, Schenk Mirjam, Swindell William R, Chun Rene, Zavala Kathryn, Hewison Martin, Adams John S, Horvath Steve, Pellegrini Matteo, Bloom Barry R, Modlin Robert L   IL-32 is a molecular marker of a host defense network in human tuberculosis Science translational medicine, 2014; 6(250): 250ra114.
Horvath Steve, Erhart Wiebke, Brosch Mario, Ammerpohl Ole, von Schönfels Witigo, Ahrens Markus, Heits Nils, Bell Jordana T, Tsai Pei-Chien, Spector Tim D, Deloukas Panos, Siebert Reiner, Sipos Bence, Becker Thomas, Röcken Christoph, Schafmayer Clemens, Hampe Jochen   Obesity accelerates epigenetic aging of human liver Proceedings of the National Academy of Sciences of the United States of America, 2014; 111(43): 15538-43.
Corominas Roser, Yang Xinping, Lin Guan Ning, Kang Shuli, Shen Yun, Ghamsari Lila, Broly Martin, Rodriguez Maria, Tam Stanley, Trigg Shelly A, Fan Changyu, Yi Song, Tasan Murat, Lemmens Irma, Kuang Xingyan, Zhao Nan, Malhotra Dheeraj, Michaelson Jacob J, Vacic Vladimir, Calderwood Michael A, Roth Frederick P, Tavernier Jan, Horvath Steve, Salehi-Ashtiani Kourosh, Korkin Dmitry, Sebat Jonathan, Hill David E, Hao Tong, Vidal Marc, Iakoucheva Lilia M   Protein interaction network of alternatively spliced isoforms from brain links genetic risk factors for autism Nature communications, 2014; 5(3): 3650.
De Jong Simone, Neeleman Marjolein, Luykx Jurjen J, ten Berg Maarten J, Strengman Eric, Den Breeijen Hanneke H, Stijvers Leon C, Buizer-Voskamp Jacobine E, Bakker Steven C, Kahn René S, Horvath Steve, Van Solinge Wouter W, Ophoff Roel A   Seasonal changes in gene expression represent cell-type composition in whole blood Human molecular genetics, 2014; 23(10): 2721-8.
Tong Maomeng, Li Xiaoxiao, Wegener Parfrey Laura, Roth Bennett, Ippoliti Andrew, Wei Bo, Borneman James, McGovern Dermot P B, Frank Daniel N, Li Ellen, Horvath Steve, Knight Rob, Braun Jonathan   A modular organization of the human intestinal mucosal microbiota and its association with inflammatory bowel disease PloS one, 2013; 8(11): e80702.
Ranola John Michael, Langfelder Peter, Lange Kenneth, Horvath Steve   Cluster and propensity based approximation of a network BMC systems biology, 2013; 7(4): 21.
Horvath Steve   DNA methylation age of human tissues and cell types Genome biology, 2013; 14(10): R115.
Miller Jeremy A, Woltjer Randall L, Goodenbour Jeff M, Horvath Steve, Geschwind Daniel H   Genes and pathways underlying regional and cell type changes in Alzheimer's disease Genome medicine, 2013; 5(5): 48.
Xue Zhigang, Huang Kevin, Cai Chaochao, Cai Lingbo, Jiang Chun-yan, Feng Yun, Liu Zhenshan, Zeng Qiao, Cheng Liming, Sun Yi E, Liu Jia-yin, Horvath Steve, Fan Guoping   Genetic programs in human and mouse early embryos revealed by single-cell RNA sequencing Nature, 2013; 500(7464): 593-7.
McHardy Ian H, Goudarzi Maryam, Tong Maomeng, Ruegger Paul M, Schwager Emma, Weger John R, Graeber Thomas G, Sonnenburg Justin L, Horvath Steve, Huttenhower Curtis, McGovern Dermot Pb, Fornace Albert J, Borneman James, Braun Jonathan   Integrative analysis of the microbiome and metabolome of the human intestinal mucosal surface reveals exquisite inter-relationships Microbiome, 2013; 1(1): 17.
Parikshak Neelroop N, Luo Rui, Zhang Alice, Won Hyejung, Lowe Jennifer K, Chandran Vijayendran, Horvath Steve, Geschwind Daniel H   Integrative functional genomic analyses implicate specific molecular pathways and circuits in autism Cell, 2013; 155(5): 1008-21.
Ho Melissa E, Quek Sue-Ing, True Lawrence D, Morrissey Colm, Corey Eva, Vessella Robert L, Dumpit Ruth, Nelson Peter S, Maresh Erin L, Mah Vei, Alavi Mohammed, Kim Sara R, Bagryanova Lora, Horvath Steve, Chia David, Goodglick Lee, Liu Alvin Y   Prostate cancer cell phenotypes based on AGR2 and CD10 expression Modern pathology : an official journal of the United States and Canadian Academy of Pathology, Inc, 2013; 26(6): 849-59.
Song Lin, Langfelder Peter, Horvath Steve   Random generalized linear model: a highly accurate and interpretable ensemble predictor BMC bioinformatics, 2013; 14(4): 5.
Levine Andrew J, Miller Jeremy A, Shapshak Paul, Gelman Benjamin, Singer Elyse J, Hinkin Charles H, Commins Deborah, Morgello Susan, Grant Igor, Horvath Steve   Systems analysis of human brain gene expression: mechanisms for HIV-associated neurocognitive impairment and common pathways with Alzheimer's disease BMC medical genomics, 2013; 6(4): 4.
Levine Andrew J, Horvath Steve, Miller Eric N, Singer Elyse J, Shapshak Paul, Baldwin Gayle C, Martínez-Maza Otoniel, Witt Mallory D, Langfelder Peter   Transcriptome analysis of HIV-infected peripheral blood monocytes: gene transcripts and networks associated with neurocognitive functioning Journal of neuroimmunology, 2013; 265(1-2): 96-105.
Langfelder Peter, Mischel Paul S, Horvath Steve   When is hub gene selection better than standard meta-analysis? PloS one, 2013; 8(4): e61505.
Weiss James N, Karma Alain, MacLellan W Robb, Deng Mario, Rau Christoph D, Rees Colin M, Wang Jessica, Wisniewski Nicholas, Eskin Eleazar, Horvath Steve, Qu Zhilin, Wang Yibin, Lusis Aldons J   "Good enough solutions" and the genetics of complex diseases Circulation research, 2012; 111(4): 493-504.
de Jong Simone, Boks Marco P M, Fuller Tova F, Strengman Eric, Janson Esther, de Kovel Carolien G F, Ori Anil P S, Vi Nancy, Mulder Flip, Blom Jan Dirk, Glenthøj Birte, Schubart Chris D, Cahn Wiepke, Kahn René S, Horvath Steve, Ophoff Roel A   A gene co-expression network in whole blood of schizophrenia patients is independent of antipsychotic-use and enriched for brain-expressed genes PloS one, 2012; 7(6): e39498.
Haas Blake E, Horvath Steve, Pietiläinen Kirsi H, Cantor Rita M, Nikkola Elina, Weissglas-Volkov Daphna, Rissanen Aila, Civelek Mete, Cruz-Bautista Ivette, Riba Laura, Kuusisto Johanna, Kaprio Jaakko, Tusie-Luna Teresa, Laakso Markku, Aguilar-Salinas Carlos A, Pajukanta Päivi   Adipose co-expression networks across Finns and Mexicans identify novel triglyceride-associated genes BMC medical genomics, 2012; 5(4): 61.
Horvath Steve, Zhang Yafeng, Langfelder Peter, Kahn René S, Boks Marco Pm, van Eijk Kristel, van den Berg Leonard H, Ophoff Roel A   Aging effects on DNA methylation modules in human brain and blood tissue Genome biology, 2012; 13(10): R97.
Hawrylycz Michael J, Lein Ed S, Guillozet-Bongaarts Angela L, Shen Elaine H, Ng Lydia, Miller Jeremy A, van de Lagemaat Louie N, Smith Kimberly A, Ebbert Amanda, Riley Zackery L, Abajian Chris, Beckmann Christian F, Bernard Amy, Bertagnolli Darren, Boe Andrew F, Cartagena Preston M, Chakravarty M Mallar, Chapin Mike, Chong Jimmy, Dalley Rachel A, Daly Barry David, Dang Chinh, Datta Suvro, Dee Nick, Dolbeare Tim A, Faber Vance, Feng David, Fowler David R, Goldy Jeff, Gregor Benjamin W, Haradon Zeb, Haynor David R, Hohmann John G, Horvath Steve, Howard Robert E, Jeromin Andreas, Jochim Jayson M, Kinnunen Marty, Lau Christopher, Lazarz Evan T, Lee Changkyu, Lemon Tracy A, Li Ling, Li Yang, Morris John A, Overly Caroline C, Parker Patrick D, Parry Sheana E, Reding Melissa, Royall Joshua J, Schulkin Jay, Sequeira Pedro Adolfo, Slaughterbeck Clifford R, Smith Simon C, Sodt Andy J, Sunkin Susan M, Swanson Beryl E, Vawter Marquis P, Williams Derric, Wohnoutka Paul, Zielke H Ronald, Geschwind Daniel H, Hof Patrick R, Smith Stephen M, Koch Christof, Grant Seth G N, Jones Allan R   An anatomically comprehensive atlas of the adult human brain transcriptome Nature, 2012; 489(7416): 391-9.
Song Lin, Langfelder Peter, Horvath Steve   Comparison of co-expression measures: mutual information, correlation, and model based indices BMC bioinformatics, 2012; 13(4): 328.
Vivanco Igor, Robins H Ian, Rohle Daniel, Campos Carl, Grommes Christian, Nghiemphu Phioanh Leia, Kubek Sara, Oldrini Barbara, Chheda Milan G, Yannuzzi Nicolas, Tao Hui, Zhu Shaojun, Iwanami Akio, Kuga Daisuke, Dang Julie, Pedraza Alicia, Brennan Cameron W, Heguy Adriana, Liau Linda M, Lieberman Frank, Yung W K Alfred, Gilbert Mark R, Reardon David A, Drappatz Jan, Wen Patrick Y, Lamborn Kathleen R, Chang Susan M, Prados Michael D, Fine Howard A, Horvath Steve, Wu Nian, Lassman Andrew B, DeAngelis Lisa M, Yong William H, Kuhn John G, Mischel Paul S, Mehta Minesh P, Cloughesy Timothy F, Mellinghoff Ingo K   Differential sensitivity of glioma- versus lung cancer-specific EGFR mutations to EGFR kinase inhibitors Cancer discovery, 2012; 2(5): 458-71.
Hilliard Austin T, Miller Julie E, Horvath Steve, White Stephanie A   Distinct neurogenomic states in basal ganglia subregions relate differently to singing behavior in songbirds PLoS computational biology, 2012; 8(11): e1002773.
Langfelder Peter, Horvath Steve   Fast R Functions for Robust Correlations and Hierarchical Clustering Journal of statistical software, 2012; 46(11): .
van Eijk Kristel R, de Jong Simone, Boks Marco P M, Langeveld Terry, Colas Fabrice, Veldink Jan H, de Kovel Carolien G F, Janson Esther, Strengman Eric, Langfelder Peter, Kahn René S, van den Berg Leonard H, Horvath Steve, Ophoff Roel A   Genetic analysis of DNA methylation and gene expression levels in whole blood of healthy human subjects BMC genomics, 2012; 13(4): 636.
Diekstra Frank P, Saris Christiaan G J, van Rheenen Wouter, Franke Lude, Jansen Ritsert C, van Es Michael A, van Vught Paul W J, Blauw Hylke M, Groen Ewout J N, Horvath Steve, Estrada Karol, Rivadeneira Fernando, Hofman Albert, Uitterlinden Andre G, Robberecht Wim, Andersen Peter M, Melki Judith, Meininger Vincent, Hardiman Orla, Landers John E, Brown Robert H, Shatunov Aleksey, Shaw Christopher E, Leigh P Nigel, Al-Chalabi Ammar, Ophoff Roel A, van den Berg Leonard H, Veldink Jan H   Mapping of gene expression reveals CYP27A1 as a susceptibility gene for sporadic ALS PloS one, 2012; 7(4): e35333.
Hilliard Austin T, Miller Julie E, Fraley Elizabeth R, Horvath Steve, White Stephanie A   Molecular microcircuitry underlies functional specification in a basal ganglia circuit dedicated to vocal learning Neuron, 2012; 73(3): 537-52.
Huynh Thu P, Mah Vei, Sampson Valerie B, Chia David, Fishbein Michael C, Horvath Steve, Alavi Mohammad, Wu Debbie C, Harper Jeffrey, Sarafian Ted, Dubinett Steven M, Langhans Sigrid A, Goodglick Lee, Rajasekaran Ayyappan K   Na,K-ATPase is a target of cigarette smoke and reduced expression predicts poor patient outcome of smokers with lung cancer American journal of physiology. Lung cellular and molecular physiology, 2012; 302(11): L1150-8.
Oldham Michael C, Langfelder Peter, Horvath Steve   Network methods for describing sample relationships in genomic datasets: application to Huntington's disease BMC systems biology, 2012; 6(1): 63.
Shirasaki Dyna I, Greiner Erin R, Al-Ramahi Ismael, Gray Michelle, Boontheung Pinmanee, Geschwind Daniel H, Botas Juan, Coppola Giovanni, Horvath Steve, Loo Joseph A, Yang X William   Network organization of the huntingtin proteomic interactome in mammalian brain Neuron, 2012; 75(1): 41-57.
Leuchter Andrew F, Cook Ian A, Hunter Aimee M, Cai Chaochao, Horvath Steve   Resting-state quantitative electroencephalography reveals increased neurophysiologic connectivity in depression PloS one, 2012; 7(2): e32508.
Luykx Jurjen J, Bakker Steven C, Lentjes Eef, Boks Marco P M, van Geloven Nan, Eijkemans Marinus J C, Janson Esther, Strengman Eric, de Lepper Anne M, Westenberg Herman, Klopper Kai E, Hoorn Hendrik J, Gelissen Harry P M M, Jordan Julian, Tolenaar Noortje M, van Dongen Eric P A, Michel Bregt, Abramovic Lucija, Horvath Steve, Kappen Teus, Bruins Peter, Keijzers Peter, Borgdorff Paul, Ophoff Roel A, Kahn René S   Season of sampling and season of birth influence serotonin metabolite levels in human cerebrospinal fluid PloS one, 2012; 7(2): e30497.
Horvath Steve, Nazmul-Hossain Abu Nm, Pollard Rodney Pe, Kroese Frans Gm, Vissink Arjan, Kallenberg Cees Gm, Spijkervet Fred Kl, Bootsma Hendrika, Michie Sara A, Gorr Sven U, Peck Ammon B, Cai Chaochao, Zhou Hui, Wong David Tw   Systems analysis of primary Sjögren's syndrome pathogenesis in salivary glands identifies shared pathways in human and a mouse model Arthritis research & therapy, 2012; 14(6): R238.
Gorr Sven-Ulrik, Wennblom Trevor J, Horvath Steve, Wong David T W, Michie Sara A   Text-mining applied to autoimmune disease research: the Sjögren's syndrome knowledge base BMC musculoskeletal disorders, 2012; 13(1): 119.
Langfelder Peter, Castellani Lawrence W, Zhou Zhiqiang, Paul Eric, Davis Richard, Schadt Eric E, Lusis Aldons J, Horvath Steve, Mehrabian Margarete   A systems genetic analysis of high density lipoprotein metabolism and network preservation across mouse models Biochimica et biophysica acta, 2011; 76(9): .
Bocklandt Sven, Lin Wen, Sehl Mary E, Sánchez Francisco J, Sinsheimer Janet S, Horvath Steve, Vilain Eric   Epigenetic predictor of age PloS one, 2011; 6(6): e14821.
Mah Vei, Marquez Diana, Alavi Mohammad, Maresh Erin L, Zhang Li, Yoon Nam, Horvath Steve, Bagryanova Lora, Fishbein Michael C, Chia David, Pietras Richard, Goodglick Lee   Expression levels of estrogen receptor beta in conjunction with aromatase predict survival in non-small cell lung cancer Lung cancer (Amsterdam, Netherlands), 2011; 474(7351): .
Huerta-Yepez Sara, Yoon Nam K, Hernandez-Cueto Angeles, Mah Vei, Rivera-Pazos Clara M, Chatterjee Devasis, Vega Mario I, Maresh Erin L, Horvath Steve, Chia David, Bonavida Benjamin, Goodglick Lee   Expression of phosphorylated raf kinase inhibitor protein (pRKIP) is a predictor of lung cancer survival BMC cancer, 2011; 11(9): 259.
Wang Anyou, Huang Kevin, Shen Yin, Xue Zhigang, Cai Chaochao, Horvath Steve, Fan Guoping   Functional modules distinguish human induced pluripotent stem cells from embryonic stem cells Stem cells and development, 2011; 20(11): 1937-50.
Dewey Frederick E, Perez Marco V, Wheeler Matthew T, Watt Clifton, Spin Joshua, Langfelder Peter, Horvath Steve, Hannenhalli Sridhar, Cappola Thomas P, Ashley Euan A   Gene coexpression network topology of cardiac development, hypertrophy, and failure Circulation. Cardiovascular genetics, 2011; 4(1): 26-35.
Park Christopher C, Gale Greg D, de Jong Simone, Ghazalpour Anatole, Bennett Brian J, Farber Charles R, Langfelder Peter, Lin Andy, Khan Arshad H, Eskin Eleazar, Horvath Steve, Lusis Aldons J, Ophoff Roel A, Smith Desmond J   Gene networks associated with conditional fear in mice identified using a systems genetics approach BMC systems biology, 2011; 5(7351): 43.
Langfelder Peter, Luo Rui, Oldham Michael C, Horvath Steve   Is my network module preserved and reproducible? PLoS computational biology, 2011; 7(1): e1001057.
Marquez-Garban Diana C, Mah Vei, Alavi Mohammad, Maresh Erin L, Chen Hsiao-Wang, Bagryanova Lora, Horvath Steve, Chia David, Garon Edward, Goodglick Lee, Pietras Richard J   Progesterone and estrogen receptor expression and activity in human non-small cell lung cancer Steroids, 2011; 76(9): 910-20.
Presson Angela P, Yoon Nam K, Bagryanova Lora, Mah Vei, Alavi Mohammad, Maresh Erin L, Rajasekaran Ayyappan K, Goodglick Lee, Chia David, Horvath Steve   Protein expression based multimarker analysis of breast cancer samples BMC cancer, 2011; 11(9): 230.
Miller Jeremy A, Cai Chaochao, Langfelder Peter, Geschwind Daniel H, Kurian Sunil M, Salomon Daniel R, Horvath Steve   Strategies for aggregating gene expression data: the collapseRows R function BMC bioinformatics, 2011; 12(11): 322.
Voineagu Irina, Wang Xinchen, Johnston Patrick, Lowe Jennifer K, Tian Yuan, Horvath Steve, Mill Jonathan, Cantor Rita M, Blencowe Benjamin J, Geschwind Daniel H   Transcriptomic analysis of autistic brain reveals convergent molecular pathology Nature, 2011; 474(7351): 380-4.
Manuyakorn Ananya, Paulus Rebecca, Farrell James, Dawson Nicole A, Tze Sheila, Cheung-Lau Gardenia, Hines Oscar Joe, Reber Howard, Seligson David B, Horvath Steve, Kurdistani Siavash K, Guha Chandhan, Dawson David W   Cellular histone modification patterns predict prognosis and treatment response in resectable pancreatic adenocarcinoma: results from RTOG 9704 Journal of clinical oncology : official journal of the American Society of Clinical Oncology, 2010; 28(8): 1358-65.
Mumford Jeanette A, Horvath Steve, Oldham Michael C, Langfelder Peter, Geschwind Daniel H, Poldrack Russell A   Detecting network modules in fMRI time series: a weighted network analysis approach NeuroImage, 2010; 52(4): 1465-76.
Maresh Erin L, Mah Vei, Alavi Mohammad, Horvath Steve, Bagryanova Lora, Liebeskind Emily S, Knutzen Laura A, Zhou Yong, Chia David, Liu Alvin Y, Goodglick Lee   Differential expression of anterior gradient gene AGR2 in prostate cancer BMC cancer, 2010; 10(6): 680.
Miller Jeremy A, Horvath Steve, Geschwind Daniel H   Divergence of human and mouse brain transcriptome highlights Alzheimer disease pathways Proceedings of the National Academy of Sciences of the United States of America, 2010; 107(28): 12698-703.
Yoon Nam K, Maresh Erin L, Elshimali Yahya, Li Ai, Horvath Steve, Seligson David B, Chia David, Goodglick Lee   Elevated MED28 expression predicts poor outcome in women with breast cancer BMC cancer, 2010; 10(28): 335.
Habeeb Omar, Goodglick Lee, Soslow Robert A, Rao Rajiv G, Gordon Lynn K, Schirripa Osvaldo, Horvath Steve, Braun Jonathan, Seligson David B, Wadehra Madhuri   Epithelial membrane protein-2 expression is an early predictor of endometrial cancer development Cancer, 2010; 116(20): 4718-26.
de Jong Simone, Fuller Tova F, Janson Esther, Strengman Eric, Horvath Steve, Kas Martien J H, Ophoff Roel A   Gene expression profiling in C57BL/6J and A/J mouse inbred strains reveals gene networks specific for brain regions independent of genetic background BMC genomics, 2010; 11(8): 20.
Le Brandon H, Cheng Chen, Bui Anhthu Q, Wagmaister Javier A, Henry Kelli F, Pelletier Julie, Kwong Linda, Belmonte Mark, Kirkbride Ryan, Horvath Steve, Drews Gary N, Fischer Robert L, Okamuro Jack K, Harada John J, Goldberg Robert B   Global analysis of gene activity during Arabidopsis seed development and identification of seed-specific transcription factors Proceedings of the National Academy of Sciences of the United States of America, 2010; 107(18): 8063-70.
Yoon Nam K, Maresh Erin L, Shen Dejun, Elshimali Yahya, Apple Sophia, Horvath Steve, Mah Vei, Bose Shikha, Chia David, Chang Helena R, Goodglick Lee   Higher levels of GATA3 predict better survival in women with breast cancer Human pathology, 2010; 41(12): 1794-801.
Cai Chaochao, Langfelder Peter, Fuller Tova F, Oldham Michael C, Luo Rui, van den Berg Leonard H, Ophoff Roel A, Horvath Steve   Is human blood a good surrogate for brain tissue in transcriptional studies? BMC genomics, 2010; 11(12): 589.
Ooi Aik T, Mah Vei, Nickerson Derek W, Gilbert Jennifer L, Ha Vi Luan, Hegab Ahmed E, Horvath Steve, Alavi Mohammad, Maresh Erin L, Chia David, Gower Adam C, Lenburg Marc E, Spira Avrum, Solis Luisa M, Wistuba Ignacio I, Walser Tonya C, Wallace William D, Dubinett Steven M, Goodglick Lee, Gomperts Brigitte N   Presence of a putative tumor-initiating progenitor cell population predicts poor prognosis in smokers with non-small cell lung cancer Cancer research, 2010; 70(16): 6639-48.
Plaisier Christopher L, Horvath Steve, Huertas-Vazquez Adriana, Cruz-Bautista Ivette, Herrera Miguel F, Tusie-Luna Teresa, Aguilar-Salinas Carlos, Pajukanta Päivi   A systems genetics approach implicates USF1, FADS3, and other causal candidate genes for familial combined hyperlipidemia PLoS genetics, 2009; 5(9): e1000642.
Farber Charles R, van Nas Atila, Ghazalpour Anatole, Aten Jason E, Doss Sudheer, Sos Brandon, Schadt Eric E, Ingram-Drake Leslie, Davis Richard C, Horvath Steve, Smith Desmond J, Drake Thomas A, Lusis Aldons J   An integrative genetics approach to identify candidate genes regulating BMD: combining linkage, gene expression, and association Journal of bone and mineral research : the official journal of the American Society for Bone and Mineral Research, 2009; 24(1): 105-16.
Kurian Sunil M, Heilman Raymond, Mondala Tony S, Nakorchevsky Aleksey, Hewel Johannes A, Campbell Daniel, Robison Elizabeth H, Wang Lin, Lin Wen, Gaber Lillian, Solez Kim, Shidban Hamid, Mendez Robert, Schaffer Randolph L, Fisher Jonathan S, Flechner Stuart M, Head Steve R, Horvath Steve, Yates John R, Marsh Christopher L, Salomon Daniel R   Biomarkers for early and late stage chronic allograft nephropathy by proteogenomic profiling of peripheral blood PloS one, 2009; 4(7): e6212.
Kleefuss-Lie Ailing, Friedl Waltraut, Cichon Sven, Haug Karsten, Warnstedt Maike, Alekov Alexi, Sander Thomas, Ramirez Alfredo, Poser Barbara, Maljevic Snezana, Hebeisen Simon, Kubisch Christian, Rebstock Johannes, Horvath Steve, Hallmann Kerstin, Dullinger Jörn S, Rau Birgit, Haverkamp Fritz, Beyenburg Stefan, Schulz Herbert, Janz Dieter, Giese Bernd, Müller-Newen Gerhard, Propping Peter, Elger Christian E, Fahlke Christoph, Lerche Holger   CLCN2 variants in idiopathic generalized epilepsy Nature genetics, 2009; 41(9): 954-5.
Guo Deliang, Prins Robert M, Dang Julie, Kuga Daisuke, Iwanami Akio, Soto Horacio, Lin Kelly Y, Huang Tiffany T, Akhavan David, Hock M Benjamin, Zhu Shaojun, Kofman Ava A, Bensinger Steve J, Yong William H, Vinters Harry V, Horvath Steve, Watson Andrew D, Kuhn John G, Robins H Ian, Mehta Minesh P, Wen Patrick Y, DeAngelis Lisa M, Prados Michael D, Mellinghoff Ingo K, Cloughesy Timothy F, Mischel Paul S   EGFR signaling through an Akt-SREBP-1-dependent, rapamycin-resistant pathway sensitizes glioblastomas to antilipogenic therapy Science signaling, 2009; 2(101): ra82.
van Nas Atila, Guhathakurta Debraj, Wang Susanna S, Yehya Nadir, Horvath Steve, Zhang Bin, Ingram-Drake Leslie, Chaudhuri Gautam, Schadt Eric E, Drake Thomas A, Arnold Arthur P, Lusis Aldons J   Elucidating the role of gonadal hormones in sexually dimorphic gene coexpression networks Endocrinology, 2009; 150(3): 1235-49.
Farber Charles R, Aten Jason E, Farber Emily A, de Vera Vincent, Gularte Rodrigo, Islas-Trejo Alma, Wen Pengzi, Horvath Steve, Lucero Michael, Lusis Aldons J, Medrano Juan F   Genetic dissection of a major mouse obesity QTL (Carfhg2): integration of gene expression and causality modeling Physiological genomics, 2009; 37(3): 294-302.
Seligson David B, Horvath Steve, McBrian Matthew A, Mah Vei, Yu Hong, Tze Sheila, Wang Qun, Chia David, Goodglick Lee, Kurdistani Siavash K   Global levels of histone modifications predict prognosis in different cancers The American journal of pathology, 2009; 174(5): 1619-28.
Yoon Nam K, Seligson David B, Chia David, Elshimali Yahya, Sulur Giri, Li Ai, Horvath Steve, Maresh Erin, Mah Vei, Bose Shikha, Bonavida Benjamin, Goodglick Lee   Higher expression levels of 14-3-3sigma in ductal carcinoma in situ of the breast predict poorer outcome Cancer biomarkers : section A of Disease markers, 2009; 5(4): 215-24.
Li Ai, Horvath Steve   Network module detection: Affinity search technique with the multi-node topological overlap measure BMC research notes, 2009; 2(9): 142.
Laks Dan R, Masterman-Smith Michael, Visnyei Koppany, Angenieux Brigitte, Orozco Nicholas M, Foran Ian, Yong William H, Vinters Harry V, Liau Linda M, Lazareff Jorge A, Mischel Paul S, Cloughesy Timothy F, Horvath Steve, Kornblum Harley I   Neurosphere formation is an independent predictor of clinical outcome in malignant glioma Stem cells (Dayton, Ohio), 2009; 27(4): 980-7.
Haug Karsten, Warnstedt Maike, Alekov Alexi K, Sander Thomas, Ramírez Alfredo, Poser Barbara, Maljevic Snezana, Hebeisen Simon, Kubisch Christian, Rebstock Johannes, Horvath Steve, Hallmann Kerstin, Dullinger Joern S, Rau Birgit, Haverkamp Fritz, Beyenburg Stefan, Schulz Herbert, Janz Dieter, Giese Bernd, Müller-Newen Gerhard, Propping Peter, Elger Christian E, Fahlke Christoph, Lerche Holger   Retraction: Mutations in CLCN2 encoding a voltage-gated chloride channel are associated with idiopathic generalized epilepsies Nature genetics, 2009; 41(9): 1043.
Sridharan Rupa, Tchieu Jason, Mason Mike J, Yachechko Robin, Kuoy Edward, Horvath Steve, Zhou Qing, Plath Kathrin   Role of the murine reprogramming factors in the induction of pluripotency Cell, 2009; 136(2): 364-77.
Mason Mike J, Fan Guoping, Plath Kathrin, Zhou Qing, Horvath Steve   Signed weighted gene co-expression network analysis of transcriptional regulation in murine embryonic stem cells BMC genomics, 2009; 10(9): 327.
Hu Shen, Zhou Michael, Jiang Jiang, Wang Jianghua, Elashoff David, Gorr Sven, Michie Sara A, Spijkervet Fred K L, Bootsma Hendrika, Kallenberg Cees G M, Vissink Arjan, Horvath Steve, Wong David T   Systems biology analysis of Sjögren's syndrome and mucosa-associated lymphoid tissue lymphoma in parotid glands Arthritis and rheumatism, 2009; 60(1): 81-92.
Winden Kellen D, Oldham Michael C, Mirnics Karoly, Ebert Philip J, Swan Christo H, Levitt Pat, Rubenstein John L, Horvath Steve, Geschwind Daniel H   The organization of the transcriptional network in specific neuronal classes Molecular systems biology, 2009; 5(1): 291.
MacLennan Nicole K, Dong Jun, Aten Jason E, Horvath Steve, Rahib Lola, Ornelas Loren, Dipple Katrina M, McCabe Edward R B   Weighted gene co-expression network analysis identifies biomarkers in glycerol kinase deficient mice Molecular genetics and metabolism, 2009; 98(1-2): 203-14.
Saris Christiaan G J, Horvath Steve, van Vught Paul W J, van Es Michael A, Blauw Hylke M, Fuller Tova F, Langfelder Peter, DeYoung Joseph, Wokke John H J, Veldink Jan H, van den Berg Leonard H, Ophoff Roel A   Weighted gene co-expression network analysis of the peripheral blood from Amyotrophic Lateral Sclerosis patients BMC genomics, 2009; 10(9): 405.
Cloughesy Tim F, Yoshimoto Koji, Nghiemphu Phioanh, Brown Kevin, Dang Julie, Zhu Shaojun, Hsueh Teli, Chen Yinan, Wang Wei, Youngkin David, Liau Linda, Martin Neil, Becker Don, Bergsneider Marvin, Lai Albert, Green Richard, Oglesby Tom, Koleto Michael, Trent Jeff, Horvath Steve, Mischel Paul S, Mellinghoff Ingo K, Sawyers Charles L   Antitumor activity of rapamycin in a Phase I trial for patients with recurrent PTEN-deficient glioblastoma PLoS medicine, 2008; 5(1): e8.
Langfelder Peter, Zhang Bin, Horvath Steve   Defining clusters from a hierarchical cluster tree: the Dynamic Tree Cut package for R Bioinformatics (Oxford, England), 2008; 24(5): 719-20.
Yoshimoto Koji, Dang Julie, Zhu Shaojun, Nathanson David, Huang Tiffany, Dumont Rebecca, Seligson David B, Yong William H, Xiong Zhenggang, Rao Nagesh, Winther Henrik, Chakravarti Arnab, Bigner Darell D, Mellinghoff Ingo K, Horvath Steve, Cavenee Webster K, Cloughesy Timothy F, Mischel Paul S   Development of a real-time RT-PCR assay for detecting EGFRvIII in glioblastoma samples Clinical cancer research : an official journal of the American Association for Cancer Research, 2008; 14(2): 488-93.
Oldham Michael C, Konopka Genevieve, Iwamoto Kazuya, Langfelder Peter, Kato Tadafumi, Horvath Steve, Geschwind Daniel H   Functional organization of the transcriptome in human brain Nature neuroscience, 2008; 11(11): 1271-82.
Lee Yohan, Scheck Adrienne C, Cloughesy Timothy F, Lai Albert, Dong Jun, Farooqi Haumith K, Liau Linda M, Horvath Steve, Mischel Paul S, Nelson Stanley F   Gene expression analysis of glioblastomas identifies the major molecular basis for the prognostic benefit of younger age BMC medical genomics, 2008; 1(11): 52.
Horvath Steve, Dong Jun   Geometric interpretation of gene coexpression network analysis PLoS computational biology, 2008; 4(8): e1000117.
Presson Angela P, Sobel Eric M, Papp Jeanette C, Suarez Charlyn J, Whistler Toni, Rajeevan Mangalathu S, Vernon Suzanne D, Horvath Steve   Integrated weighted gene co-expression network analysis with an application to chronic fatigue syndrome BMC systems biology, 2008; 2(1): 95.
Nakano Ichiro, Masterman-Smith Michael, Saigusa Kuniyasu, Paucar Andres A, Horvath Steve, Shoemaker Lorelei, Watanabe Momoko, Negro Alejandra, Bajpai Ruchi, Howes Amy, Lelievre Vincent, Waschek James A, Lazareff Jorge A, Freije William A, Liau Linda M, Gilbertson Richard J, Cloughesy Timothy F, Geschwind Daniel H, Nelson Stanley F, Mischel Paul S, Terskikh Alexey V, Kornblum Harley I   Maternal embryonic leucine zipper kinase is a key regulator of the proliferation of malignant brain tumors, including brain tumor stem cells Journal of neuroscience research, 2008; 86(1): 48-60.
Seligson David B, Rajasekaran Sigrid A, Yu Hong, Liu Xueli, Eeva Mervi, Tze Sheila, Ball William, Horvath Steve, deKernion Jean B, Rajasekaran Ayyappan K   Na,K-adenosine triphosphatase alpha1-subunit predicts survival of renal clear cell carcinoma The Journal of urology, 2008; 179(1): 338-45.
Aten Jason E, Fuller Tova F, Lusis Aldons J, Horvath Steve   Using genetic markers to orient the edges in quantitative trait networks: the NEO software BMC systems biology, 2008; 2(8): 34.
Chen Yanqing, Zhu Jun, Lum Pek Yee, Yang Xia, Pinto Shirly, MacNeil Douglas J, Zhang Chunsheng, Lamb John, Edwards Stephen, Sieberts Solveig K, Leonardson Amy, Castellini Lawrence W, Wang Susanna, Champy Marie-France, Zhang Bin, Emilsson Valur, Doss Sudheer, Ghazalpour Anatole, Horvath Steve, Drake Thomas A, Lusis Aldons J, Schadt Eric E   Variations in DNA elucidate molecular networks that cause disease Nature, 2008; 452(7186): 429-35.
Langfelder Peter, Horvath Steve   WGCNA: an R package for weighted correlation network analysis BMC bioinformatics, 2008; 9(1): 559.
Gong Ke Wei, Zhao Wei, Li Ning, Barajas Berenice, Kleinman Michael, Sioutas Constantinos, Horvath Steve, Lusis Aldons J, Nel Andre, Araujo Jesus A   Air-pollutant chemicals and oxidized lipids exhibit genome-wide synergistic effects on endothelial cells Genome biology, 2007; 8(7): R149.
Abba Martín C, Sun Hongxia, Hawkins Kathleen A, Drake Jeffrey A, Hu Yuhui, Nunez Maria I, Gaddis Sally, Shi Tao, Horvath Steve, Sahin Aysegul, Aldaz C Marcelo   Breast cancer molecular signatures as determined by SAGE: correlation with lymph node status Molecular cancer research : MCR, 2007; 5(9): 881-90.
Langfelder Peter, Horvath Steve   Eigengene networks for studying the relationships between co-expression modules BMC systems biology, 2007; 1(1): 54.
Seligson David B, Hongo Fumiya, Huerta-Yepez Sara, Mizutani Yoichi, Miki Tsuneharu, Yu Hong, Horvath Steve, Chia David, Goodglick Lee, Bonavida Benjamin   Expression of X-linked inhibitor of apoptosis protein is a strong predictor of human prostate cancer recurrence Clinical cancer research : an official journal of the American Association for Cancer Research, 2007; 13(20): 6056-63.
Yip Andy M, Horvath Steve   Gene network interconnectedness and the generalized topological overlap measure BMC bioinformatics, 2007; 8(1-2): 22.
Rahib Lola, MacLennan Nicole K, Horvath Steve, Liao James C, Dipple Katrina M   Glycerol kinase deficiency alters expression of genes involved in lipid metabolism, carbohydrate metabolism, and insulin signaling European journal of human genetics : EJHG, 2007; 15(6): 646-57.
Li Ai, Horvath Steve   Network neighborhood analysis with the multi-node topological overlap measure Bioinformatics (Oxford, England), 2007; 23(2): 222-31.
Carlson Marc R J, Pope Whitney B, Horvath Steve, Braunstein Jerome G, Nghiemphu Phioanh, Tso Cho-Lea, Mellinghoff Ingo, Lai Albert, Liau Linda M, Mischel Paul S, Dong Jun, Nelson Stanley F, Cloughesy Timothy F   Relationship between survival and edema in malignant gliomas: role of vascular endothelial growth factor and neuronal pentraxin 2 Clinical cancer research : an official journal of the American Association for Cancer Research, 2007; 13(9): 2592-8.
Eller C Daniel, Regelson Moira, Merriman Barry, Nelson Stan, Horvath Steve, Marahrens York   Repetitive sequence environment distinguishes housekeeping genes Gene, 2007; 390(1-2): 153-65.
Dong Jun, Horvath Steve   Understanding network concepts in modules BMC systems biology, 2007; 1(6-7): 24.
Fuller Tova F, Ghazalpour Anatole, Aten Jason E, Drake Thomas A, Lusis Aldons J, Horvath Steve   Weighted gene coexpression network analysis strategies applied to mouse weight Mammalian genome : official journal of the International Mammalian Genome Society, 2007; 18(6-7): 463-72.
Oldham Michael C, Horvath Steve, Geschwind Daniel H   Conservation and evolution of gene coexpression networks in human and chimpanzee brains Proceedings of the National Academy of Sciences of the United States of America, 2006; 103(47): 17973-8.
Mitchell Scherise, Ota Asuka, Foster William, Zhang Bin, Fang Zixing, Patel Shilpa, Nelson Stanley F, Horvath Steve, Wang Yibin   Distinct gene expression profiles in adult mouse heart following targeted MAP kinase activation Physiological genomics, 2006; 25(1): 50-9.
Bocklandt Sven, Horvath Steve, Vilain Eric, Hamer Dean H   Extreme skewing of X chromosome inactivation in mothers of homosexual men Human genetics, 2006; 118(6): 691-4.
Lam John S, Seligson David B, Yu Hong, Li Ai, Eeva Mervi, Pantuck Allan J, Zeng Gang, Horvath Steve, Belldegrun Arie S   Flap endonuclease 1 is overexpressed in prostate cancer and is associated with a high Gleason score BJU international, 2006; 98(2): 445-51.
Carlson Marc R J, Zhang Bin, Fang Zixing, Mischel Paul S, Horvath Steve, Nelson Stanley F   Gene connectivity, function, and sequence conservation: predictions from modular yeast co-expression networks BMC genomics, 2006; 7(1): 40.
Gargalovic Peter S, Imura Minori, Zhang Bin, Gharavi Nima M, Clark Michael J, Pagnon Joanne, Yang Wen-Pin, He Aiqing, Truong Amy, Patel Shilpa, Nelson Stanley F, Horvath Steve, Berliner Judith A, Kirchgessner Todd G, Lusis Aldons J   Identification of inflammatory gene modules based on variations of human endothelial cell responses to oxidized lipids Proceedings of the National Academy of Sciences of the United States of America, 2006; 103(34): 12741-6.
Ghazalpour Anatole, Doss Sudheer, Zhang Bin, Wang Susanna, Plaisier Christopher, Castellanos Ruth, Brozell Alec, Schadt Eric E, Drake Thomas A, Lusis Aldons J, Horvath Steve   Integrating genetic and network analysis to characterize genes related to mouse weight PLoS genetics, 2006; 2(8): e130.
MacLennan Nicole K, Rahib Lola, Shin Cynthia, Fang Zixing, Horvath Steve, Dean Jason, Liao James C, McCabe Edward R B, Dipple Katrina M   Targeted disruption of glycerol kinase gene in mice: expression analysis in liver shows alterations in network partners related to glycerol kinase activity Human molecular genetics, 2006; 15(3): 405-15.
Zhang Bin, Horvath Steve   A general framework for weighted gene co-expression network analysis Statistical applications in genetics and molecular biology, 2005; 4(3): Article17.
Lam John S, Shvarts Oleg, Said Jonathan W, Pantuck Allan J, Seligson David B, Aldridge Michael E, Bui Matthew H T, Liu Xueli, Horvath Steve, Figlin Robert A, Belldegrun Arie S   Clinicopathologic and molecular correlations of necrosis in the primary tumor of patients with renal cell carcinoma Cancer, 2005; 103(12): 2517-25.
Seligson David, Horvath Steve, Huerta-Yepez Sara, Hanna Stephanie, Garban Hermes, Roberts Alice, Shi Tao, Liu Xueli, Chia David, Goodglick Lee, Bonavida Benjamin   Expression of transcription factor Yin Yang 1 in prostate cancer International journal of oncology, 2005; 27(1): 131-41.
Seligson David B, Horvath Steve, Shi Tao, Yu Hong, Tze Sheila, Grunstein Michael, Kurdistani Siavash K   Global histone modification patterns predict risk of prostate cancer recurrence Nature, 2005; 435(7046): 1262-6.
Ouyang Yan, Salstrom Jennifer, Diaz-Perez Silvia, Nahas Shareef, Matsuno Youko, Dawson David, Teitell Michael A, Horvath Steve, Riggs Arthur D, Gatti Richard A, Marahrens York   Inhibition of Atm and/or Atr disrupts gene silencing on the inactive X chromosome Biochemical and biophysical research communications, 2005; 337(3): 875-80.
Mellinghoff Ingo K, Wang Maria Y, Vivanco Igor, Haas-Kogan Daphne A, Zhu Shaojun, Dia Ederlyn Q, Lu Kan V, Yoshimoto Koji, Huang Julie H Y, Chute Dennis J, Riggs Bridget L, Horvath Steve, Liau Linda M, Cavenee Webster K, Rao P Nagesh, Beroukhim Rameen, Peck Timothy C, Lee Jeffrey C, Sellers William R, Stokoe David, Prados Michael, Cloughesy Timothy F, Sawyers Charles L, Mischel Paul S   Molecular determinants of the response of glioblastomas to EGFR kinase inhibitors The New England journal of medicine, 2005; 353(19): 2012-24.
Lam John S, Yamashiro Joyce, Shintaku I Peter, Vessella Robert L, Jenkins Robert B, Horvath Steve, Said Jonathan W, Reiter Robert E   Prostate stem cell antigen is overexpressed in prostate cancer metastases Clinical cancer research : an official journal of the American Association for Cancer Research, 2005; 11(7): 2591-6.
Zhang Bin, Horvath Steve   Ridge regression based hybrid genetic algorithms for multi-locus quantitative trait mapping International journal of bioinformatics research and applications, 2005; 1(3): 261-72.
Shi Tao, Seligson David, Belldegrun Arie S, Palotie Aarno, Horvath Steve   Tumor classification by tissue microarray profiling: random forest clustering applied to renal cell carcinoma Modern pathology : an official journal of the United States and Canadian Academy of Pathology, Inc, 2005; 18(4): 547-57.
Kim Hyung L, Seligson David, Liu Xueli, Janzen Nicolette, Bui Matthew H T, Yu Hong, Shi Tao, Belldegrun Arie S, Horvath Steve, Figlin Robert A   Using tumor markers to predict the survival of patients with metastatic renal cell carcinoma The Journal of urology, 2005; 173(5): 1496-501.
Shvarts Oleg, Seligson David, Lam John, Shi Tao, Horvath Steve, Figlin Robert, Belldegrun Arie, Pantuck Allan J   p53 is an independent predictor of tumor recurrence and progression after nephrectomy in patients with localized renal cell carcinoma The Journal of urology, 2005; 173(3): 725-8.
Thomas George V, Horvath Steve, Smith Bradley L, Crosby Katherine, Lebel Lori A, Schrage Matthew, Said Jonathan, De Kernion Jean, Reiter Robert E, Sawyers Charles L   Antibody-based profiling of the phosphoinositide 3-kinase pathway in clinical prostate cancer Clinical cancer research : an official journal of the American Association for Cancer Research, 2004; 10(24): 8351-6.
Horvath Steve, Xu Xin, Lake Stephen L, Silverman Edwin K, Weiss Scott T, Laird Nan M   Family-based tests for associating haplotypes with general phenotype data: application to asthma genetics Genetic epidemiology, 2004; 26(1): 61-9.
Zhang Bin, Horvath Steve   Finding the best ridge regression subset by genetic algorithms: applications to multilocus quantitative trait mapping Conference proceedings : ... Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Conference, 2004; 4(3): 2793-6.
Freije William A, Castro-Vargas F Edmundo, Fang Zixing, Horvath Steve, Cloughesy Timothy, Liau Linda M, Mischel Paul S, Nelson Stanley F   Gene expression profiling of gliomas strongly predicts survival Cancer research, 2004; 64(18): 6503-10.
Flechner Stuart M, Kurian Sunil M, Head Steven R, Sharp Starlette M, Whisenant Thomas C, Zhang Jie, Chismar Jeffrey D, Horvath Steve, Mondala Tony, Gilmartin Timothy, Cook Daniel J, Kay Steven A, Walker John R, Salomon Daniel R   Kidney transplant rejection and tissue injury by gene profiling of biopsies and peripheral blood lymphocytes American journal of transplantation : official journal of the American Society of Transplantation and the American Society of Transplant Surgeons, 2004; 4(9): 1475-89.
Bui Matthew H T, Visapaa Harri, Seligson David, Kim Hyung, Han Ken-Ryu, Huang Yunda, Horvath Steve, Stanbridge Eric J, Palotie Aarno, Figlin Robert A, Belldegrun Arie S   Prognostic value of carbonic anhydrase IX and KI67 as predictors of survival for renal clear cell carcinoma The Journal of urology, 2004; 171(6 Pt 1): 2461-6.
Han Ken-Ryu, Seligson David B, Liu Xueli, Horvath Steve, Shintaku Peter I, Thomas George V, Said Jonathan W, Reiter Robert E   Prostate stem cell antigen expression is associated with gleason score, seminal vesicle invasion and capsular invasion in prostate cancer The Journal of urology, 2004; 171(3): 1117-21.
Liu Xueli, Minin Vladimir, Huang Yunda, Seligson David B, Horvath Steve   Statistical methods for analyzing tissue microarray data Journal of biopharmaceutical statistics, 2004; 14(3): 671-85.
Garraway Isla P, Seligson David, Said Jonathan, Horvath Steve, Reiter Robert E   Trefoil factor 3 is overexpressed in human prostate cancer The Prostate, 2004; 61(3): 209-14.
Kim Hyung L, Seligson David, Liu Xueli, Janzen Nicolette, Bui Matthew H T, Yu Hong, Shi Tao, Figlin Robert A, Horvath Steve, Belldegrun Arie S   Using protein expressions to predict survival in clear cell renal carcinoma Clinical cancer research : an official journal of the American Association for Cancer Research, 2004; 10(16): 5464-71.
Kraft Peter, Schadt Eric, Aten Jason, Horvath Steve   A family-based test for correlation between gene expression and trait values American journal of human genetics, 2003; 72(5): 1323-30.
Espineda Cromwell, Seligson David B, James Ball William, Rao JianYu, Palotie Aarno, Horvath Steve, Huang Yunda, Shi Tao, Rajasekaran Ayyappan K   Analysis of the Na,K-ATPase alpha- and beta-subunit expression profiles of bladder cancer using tissue microarrays Cancer, 2003; 97(8): 1859-68.
Choe Gheeyoung, Horvath Steve, Cloughesy Timothy F, Crosby Katherine, Seligson David, Palotie Aarno, Inge Landon, Smith Bradley L, Sawyers Charles L, Mischel Paul S   Analysis of the phosphatidylinositol 3'-kinase signaling pathway in glioblastoma patients in vivo Cancer research, 2003; 63(11): 2742-6.
Bui Matthew H T, Seligson David, Han Ken-ryu, Pantuck Allan J, Dorey Frederick J, Huang Yunda, Horvath Steve, Leibovich Bradley C, Chopra Shefali, Liao Shu-Yuan, Stanbridge Eric, Lerman Michael I, Palotie Aarno, Figlin Robert A, Belldegrun Arie S   Carbonic anhydrase IX is an independent predictor of survival in advanced renal clear cell carcinoma: implications for prognosis and therapy Clinical cancer research : an official journal of the American Association for Cancer Research, 2003; 9(2): 802-11.
Visapää Harri, Bui Matthew, Huang Yunda, Seligson David, Tsai Henry, Pantuck Allan, Figlin Robert, Rao Jian Y u, Belldegrun Arie, Horvath Steve, Palotie Aarno   Correlation of Ki-67 and gelsolin expression to clinical outcome in renal clear cell carcinoma Urology, 2003; 61(4): 845-50.
Shai Ruty, Shi Tao, Kremen Thomas J, Horvath Steve, Liau Linda M, Cloughesy Timothy F, Mischel Paul S, Nelson Stanley F   Gene expression profiling identifies molecular subtypes of gliomas Oncogene, 2003; 22(31): 4918-23.
Allen Elena, Horvath Steve, Tong Frances, Kraft Peter, Spiteri Elizabeth, Riggs Arthur D, Marahrens York   High concentrations of long interspersed nuclear element sequence distinguish monoallelically expressed genes Proceedings of the National Academy of Sciences of the United States of America, 2003; 100(17): 9940-5.
Mischel Paul S, Shai Ruty, Shi Tao, Horvath Steve, Lu Kan V, Choe Gheeyoung, Seligson David, Kremen Thomas J, Palotie Aarno, Liau Linda M, Cloughesy Timothy F, Nelson Stanley F   Identification of molecular subtypes of glioblastoma by gene expression profiling Oncogene, 2003; 22(15): 2361-73.
Visapää Harri, Seligson David, Huang Yunda, Rao Jian Yu, Belldegrun Arie, Horvath Steve, Palotie Aarno   Ki67, gelsolin and PTEN expression in sarcomatoid renal tumors Urological research, 2003; 30(6): 387-9.
Freedland Stephen J, Seligson David B, Liu Alvin Y, Pantuck Allan J, Paik Sun H, Horvath Steve, Wieder Jeffrey A, Zisman Amnon, Nguyen David, Tso Cho-Lea, Palotie Aarno V, Belldegrun Arie S   Loss of CD10 (neutral endopeptidase) is a frequent and early event in human prostate cancer The Prostate, 2003; 55(1): 71-80.
Kraft Peter, Bauman Lara, Yuan Jin Ying, Horvath Steve, Horvath Steve   Multivariate variance-components analysis of longitudinal blood pressure measurements from the Framingham Heart Study BMC genetics, 2003; 4 Suppl 1(1): S55.
Haug Karsten, Warnstedt Maike, Alekov Alexi K, Sander Thomas, Ramírez Alfredo, Poser Barbara, Maljevic Snezana, Hebeisen Simon, Kubisch Christian, Rebstock Johannes, Horvath Steve, Hallmann Kerstin, Dullinger Joern S, Rau Birgit, Haverkamp Fritz, Beyenburg Stefan, Schulz Herbert, Janz Dieter, Giese Bernd, Müller-Newen Gerhard, Propping Peter, Elger Christian E, Fahlke Christoph, Lerche Holger, Heils Armin   Mutations in CLCN2 encoding a voltage-gated chloride channel are associated with idiopathic generalized epilepsies Nature genetics, 2003; 33(4): 527-32.
Tilgen Nikola, Rebstock Johannes, Horvath Steve, Propping Peter, Elger Christian Erich, Heils Armin   Prodynorphin gene promoter polymorphism and temporal lobe epilepsy Annals of neurology, 2003; 53(2): 280-1; author reply 281-2.
Dewing Phoebe, Shi Tao, Horvath Steve, Vilain Eric   Sexually dimorphic gene expression in mouse brain precedes gonadal differentiation Brain research. Molecular brain research, 2003; 118(1-2): 82-90.
Kraft Peter, Horvath Steve   The genetics of gene expression and gene mapping Trends in biotechnology, 2003; 21(9): 377-8.
Tilgen Nikola, Pfeiffer Heike, Cobilanschi Joana, Rau Birgit, Horvath Steve, Elger Christian E, Propping Peter, Heils Armin   Association analysis between the human interleukin 1beta (-511) gene polymorphism and susceptibility to febrile convulsions Neuroscience letters, 2002; 334(1): 68-70.
Ide Hisamitsu, Seligson David B, Memarzadeh Sanaz, Xin Li, Horvath Steve, Dubey Purnima, Flick Maryann B, Kacinski Barry M, Palotie Aarno, Witte Owen N   Expression of colony-stimulating factor 1 receptor during prostate development and prostate cancer progression Proceedings of the National Academy of Sciences of the United States of America, 2002; 99(22): 14404-9.
Rao JianYu, Seligson David, Visapaa Harri, Horvath Steve, Eeva Mervi, Michel Kia, Pantuck Allan, Belldegrun Arie, Palotie Aarno   Tissue microarray analysis of cytoskeletal actin-associated biomarkers gelsolin and E-cadherin in urothelial carcinoma Cancer, 2002; 95(6): 1247-57.