Works by Peddada, Shyamal D.

Results: 62

Parkinson's disease and Parkinson's disease medications have distinct signatures of the gut microbiome.

Published in:

2017

By:

Hill‐Burns, Erin M.;
Debelius, Justine W.;
Morton, James T.;
Wissemann, William T.;
Lewis, Matthew R.;
Wallen, Zachary D.;
Peddada, Shyamal D.;
Factor, Stewart A.;
Molho, Eric;
Zabetian, Cyrus P.;
Knight, Rob;
Payami, Haydeh;
Hill-Burns, Erin M

Publication type:

journal article

Unique microRNA alterations in hepatocellular carcinomas arising either spontaneously or due to chronic exposure to Ginkgo biloba extract (GBE) in B6C3F1/N mice.

Published in:

Archives of Toxicology, 2020, v. 94, n. 7, p. 2523, doi. 10.1007/s00204-020-02749-8

By:

Yamashita, Haruhiro;
Surapureddi, Sailesh;
Kovi, Ramesh C.;
Bhusari, Sachin;
Ton, Thai Vu;
Li, Jian-Liang;
Shockley, Keith R.;
Peddada, Shyamal D.;
Gerrish, Kevin E.;
Rider, Cynthia V.;
Hoenerhoff, Mark J.;
Sills, Robert C.;
Pandiri, Arun R.

Publication type:

Article

Identification of a core set of signature cell cycle genes whose relative order of time to peak expression is conserved across species.

Published in:

Nucleic Acids Research, 2012, v. 40, n. 7, p. 2823

By:

Fernández, Miguel A.;
Rueda, Cristina;
Peddada, Shyamal D.

Publication type:

Article

Principal component analysis-based filtering improves detection for Affymetrix gene expression arrays.

Published in:

Nucleic Acids Research, 2011, v. 39, n. 13, p. e86, doi. 10.1093/nar/gkr241

By:

Lu, Jun;
Kerns, Robnet T.;
Peddada, Shyamal D.;
Bushel, Pierre R.

Publication type:

Article

A geometric approach to determine association and coherence of the activation times of cell-cycling genes under differing experimental conditions.

Published in:

Bioinformatics, 2004, v. 20, n. 16, p. 2521, doi. 10.1093/bioinformatics/bth274

By:

Delong Liu;
Clarice R. Weinberg;
Shyamal D. Peddada

Publication type:

Article

A hierarchical functional data analytic approach for analyzing physiologically based pharmacokinetic models.

Published in:

Environmetrics, 2013, v. 24, n. 3, p. 172, doi. 10.1002/env.2198

By:

Mandal, Siddhartha;
Sen, Pranab K.;
Peddada, Shyamal D.

Publication type:

Article

Associations of Thigh and Abdominal Adipose Tissue Radiodensity with Glucose and Insulin in Nondiabetic African-Ancestry Men.

Published in:

2020

By:

Tilves, Curtis;
Zmuda, Joseph M.;
Kuipers, Allison L.;
Carr, J. Jeffrey;
Terry, James G.;
Wheeler, Victor;
Peddada, Shyamal D.;
Nair, Sangeeta;
Miljkovic, Iva

Publication type:

journal article

Pitman's Measure of Closeness: A Comparison of Statistical Estimators (Book).

Published in:

1994

By:

Peddada, Shyamal D.

Publication type:

Book Review

Reduced Disc Shedding and Phagocytosis of Photoreceptor Outer Segment Contributes to Kava Kava Extract–induced Retinal Degeneration in F344/N Rats.

Published in:

Toxicologic Pathology, 2018, v. 46, n. 5, p. 564, doi. 10.1177/0192623318778796

By:

Yamashita, Haruhiro;
Hoenerhoff, Mark J.;
Shockley, Keith R.;
Peddada, Shyamal D.;
Gerrish, Kevin E.;
Sutton, Deloris;
Cummings, Connie A.;
Wang, Yu;
Julie, Foley F.;
Behl, Mamta;
Waidyanatha, Suramya;
Sills, Robert C.;
Pandiri, Arun R.

Publication type:

Article

Chemical Exacerbation of Light-induced Retinal Degeneration in F344/N Rats in National Toxicology Program Rodent Bioassays.

Published in:

Toxicologic Pathology, 2016, v. 44, n. 6, p. 892, doi. 10.1177/0192623316650050

By:

Yamashita, Haruhiro;
Hoenerhoff, Mark J.;
Peddada, Shyamal D.;
Sills, Robert C.;
Pandiri, Arun R.

Publication type:

Article

Renal Cell Carcinomas in Vinylidene Chloride–exposed Male B6C3F1 Mice Are Characterized by Oxidative Stress and TP53 Pathway Dysregulation.

Published in:

Toxicologic Pathology, 2016, v. 44, n. 1, p. 71, doi. 10.1177/0192623315610820

By:

Hayes, Schantel A.;
Pandiri, Arun R.;
Ton, Thai-vu T.;
Hong, Hue-Hua L.;
Clayton, Natasha P.;
Shockley, Keith R.;
Peddada, Shyamal D.;
Gerrish, Kevin;
Wyde, Michael;
Sills, Robert C.;
Hoenerhoff, Mark J.

Publication type:

Article

Genomic Profiling Reveals Unique Molecular Alterations in Hepatoblastomas and Adjacent Hepatocellular Carcinomas in B6C3F1 Mice.

Published in:

Toxicologic Pathology, 2015, v. 43, n. 8, p. 1114, doi. 10.1177/0192623315599853

By:

Bhusari, Sachin;
Pandiri, Arun R.;
Nagai, Hiroaki;
Wang, Yu;
Foley, Julie;
Hong, Hue-Hua L.;
Ton, Thai-Vu;
DeVito, Michael;
Shockley, Keith R.;
Peddada, Shyamal D.;
Gerrish, Kevin E.;
Malarkey, David E.;
Hooth, Michelle J.;
Sills, Robert C.;
Hoenerhoff, Mark J.

Publication type:

Article

Gene Expression of Mesothelioma in Vinylidene Chloride–exposed F344/N Rats Reveal Immune Dysfunction, Tissue Damage, and Inflammation Pathways.

Published in:

Toxicologic Pathology, 2015, v. 43, n. 2, p. 171, doi. 10.1177/0192623314537885

By:

Blackshear, Pamela E.;
Pandiri, Arun R.;
Nagai, Hiroaki;
Bhusari, Sachin;
Hong, Hue-Hua;
Ton, Thai-Vu T.;
Clayton, Natasha P.;
Wyde, Michael;
Shockley, Keith R.;
Peddada, Shyamal D.;
Gerrish, Kevin E.;
Sills, Robert C.;
Hoenerhoff, Mark J.

Publication type:

Article

Spontaneous Mesotheliomas in F344/N Rats Are Characterized by Dysregulation of Cellular Growth and Immune Function Pathways.

Published in:

Toxicologic Pathology, 2014, v. 42, n. 5, p. 863, doi. 10.1177/0192623313501894

By:

Blackshear, Pamela E.;
Pandiri, Arun R.;
Ton, Thai-Vu T.;
Clayton, Natasha P.;
Shockley, Keith R.;
Peddada, Shyamal D.;
Gerrish, Kevin E.;
Sills, Robert C.;
Hoenerhoff, Mark J.

Publication type:

Article

Differential Transcriptomic Analysis of Spontaneous Lung Tumors in B6C3F1 Mice: Comparison to Human Non–Small Cell Lung Cancer.

Published in:

Toxicologic Pathology, 2012, v. 40, n. 8, p. 1141, doi. 10.1177/0192623312447543

By:

Pandiri, Arun R.;
Sills, Robert C.;
Ziglioli, Vincent;
Ton, Thai-Vu T;
Hong, Hue–Hua L.;
Lahousse, Stephanie A.;
Gerrish, Kevin E.;
Auerbach, Scott S.;
Shockley, Keith R.;
Bushel, Pierre R.;
Peddada, Shyamal D.;
Hoenerhoff, Mark J.

Publication type:

Article

Aloe vera Non-Decolorized Whole Leaf Extract-Induced Large Intestinal Tumors in F344 Rats Share Similar Molecular Pathways with Human Sporadic Colorectal Tumors.

Published in:

Toxicologic Pathology, 2011, v. 39, n. 7, p. 1065, doi. 10.1177/0192623311422081

By:

Pandiri, Arun R.;
Sills, Robert C.;
Hoenerhoff, Mark J.;
Peddada, Shyamal D.;
Ton, Thai-Vu T.;
Hong, Hue-Hua L.;
Flake, Gordon P.;
Malarkey, David E.;
Olson, Greg R.;
Pogribny, Igor P.;
Walker, Nigel J.;
Boudreau, Mary D.

Publication type:

Article

Global Gene Profiling of Spontaneous Hepatocellular Carcinoma in B6C3F1 Mice: Similarities in the Molecular Landscape with Human Liver Cancer.

Published in:

Toxicologic Pathology, 2011, v. 39, n. 4, p. 678, doi. 10.1177/0192623311407213

By:

HOENERHOFF, MARK J.;
PANDIRI, ARUN R.;
LAHOUSSE, STEPHANIE A.;
HU-HUA HONG;
TAI-VU TON;
MASINDE, TIWANDA;
AUERBACH, SCOTT S.;
GERRISH, KEVIN;
BUSHEL, PIERRE R.;
SHOCKLEY, KEITH R.;
PEDDADA, SHYAMAL D.;
SILLS, ROBERT C.

Publication type:

Article

Comparison of NTP Historical Control Tumor Incidence Rates in Female Harlan Sprague Dawley and Fischer 344/N Rats.

Published in:

Toxicologic Pathology, 2010, v. 38, n. 5, p. 765, doi. 10.1177/0192623310373777

By:

DINSE, GREGG E.;
PEDDADA, SHYAMAL D.;
HARRIS, SHAWN F.;
ELMORE, SUSAN A.

Publication type:

Article

Points to Consider on the Statistical Analysis of Rodent Cancer Bioassay Data When Incorporating Historical Control Data.

Published in:

Toxicologic Pathology, 2009, v. 37, n. 5, p. 672, doi. 10.1177/0192623309339606

By:

Elmore, Susan A.;
Peddada, Shyamal D.

Publication type:

Article

Epididymal Sperm Granuloma Induced by Chronic Administration of 2-Methylimidazole in B6C3F 1 Mice.

Published in:

Toxicologic Pathology, 2005, v. 33, n. 3, p. 313, doi. 10.1080/01926230590922866

By:

Tani, Yoshiro;
Foster, Paul M.;
Sills, Robert C.;
Chan, Po C.;
Peddada, Shyamal D.;
Nyska, Abraham

Publication type:

Article

Neonatal Genome-Wide Methylation Patterns in Relation to Birth Weight in the Norwegian Mother and Child Cohort.

Published in:

American Journal of Epidemiology, 2014, v. 179, n. 7, p. 834, doi. 10.1093/aje/kwt433

By:

Engel, Stephanie M.;
Joubert, Bonnie R.;
Wu, Michael C.;
Olshan, Andrew F.;
Håberg, Siri E.;
Ueland, Per Magne;
Nystad, Wenche;
Nilsen, Roy M.;
Vollset, Stein Emil;
Peddada, Shyamal D.;
London, Stephanie J.

Publication type:

Article

ANALYSIS OF NONLINEAR REGRESSION MODELS: A CAUTIONARY NOTE.

Published in:

Dose-Response, 2005, v. 3, n. 3, p. 342, doi. 10.2203/dose-response.003.03.005

By:

Peddada, Shyamal D.;
Haseman, Joseph K.

Publication type:

Article

Potential impact of the COVID‐19 pandemic on financial toxicity in cancer survivors.

Published in:

Head & Neck, 2020, v. 42, n. 6, p. 1332, doi. 10.1002/hed.26187

By:

Baddour, Khalil;
Kudrick, Lauren D.;
Neopaney, Aakriti;
Sabik, Lindsay M.;
Peddada, Shyamal D.;
Nilsen, Marci L.;
Johnson, Jonas T.;
Ferris, Robert L.;
Mady, Leila J.

Publication type:

Article

Chronic Inhalation Exposure to Antimony Trioxide Exacerbates the MAPK Signaling in Alveolar Bronchiolar Carcinomas in B6C3F1/N Mice.

Published in:

Toxicologic Pathology, 2023, v. 51, n. 1/2, p. 39, doi. 10.1177/01926233231157322

By:

Ton, Thai-Vu T.;
Hong, Hue-Hua L.;
Kovi, Ramesh C.;
Shockley, Keith R.;
Peddada, Shyamal D.;
Gerrish, Kevin E.;
Janardhan, Kyathanahalli S.;
Flake, Gordon;
Stout, Mathew D.;
Sills, Robert C.;
Pandiri, Arun R.

Publication type:

Article

A multiple testing procedure for multi-dimensional pairwise comparisons with application to gene expression studies.

Published in:

BMC Bioinformatics, 2016, v. 17, p. 104, doi. 10.1186/s12859-016-0937-5

By:

Grandhi, Anjana;
Guo, Wenge;
Peddada, Shyamal D.

Publication type:

Article

Genetic Alterations in Cancer Knowledge System: Analysis of Gene Mutations in Mouse and Human Liver and Lung Tumors.

Published in:

Toxicological Sciences, 2006, v. 90, n. 2, p. 400, doi. 10.1093/toxsci/kfj101

By:

Jackson, Marcus A.;
Lea, Isabel;
Rashid, Asif;
Peddada, Shyamal D.;
Dunnick, June K.

Publication type:

Article

Longitudinal assessment of hormonal and physical alterations during normal puberty in boys. IV: Predictions of adult height by the Bayley-Pinneau, Roche-Wainer-Thissen, and Tanner-Whitehouse methods compared.

Published in:

American Journal of Human Biology, 1997, v. 9, n. 3, p. 371, doi. 10.1002/(SICI)1520-6300(1997)9:3<371::AID-AJHB9>3.0.CO;2-0

By:

Roemmich, James N.;
Blizzard, Robert M.;
Peddada, Shyamal D.;
Malina, Robert M.;
Roche, Alex F.;
Tanner, James M.;
Rogol, Alan D.

Publication type:

Article

Exposures Related to House Dust Microbiota in a U.S. Farming Population.

Published in:

Environmental Health Perspectives, 2018, v. 126, n. 6, p. 1, doi. 10.1289/EHP3145

By:

Mi Kyeong Lee;
Carnes, Megan U.;
Butz, Natasha;
Azcarate-Peril, M. Andrea;
Richards, Marie;
Umbach, David M.;
Thorne, Peter S.;
Freeman, Laura E. Beane;
Peddada, Shyamal D.;
London, Stephanie J.

Publication type:

Article

DNA Methylation Score as a Biomarker in Newborns for Sustained Maternal Smoking during Pregnancy.

Published in:

Environmental Health Perspectives, 2017, v. 125, n. 4, p. 760, doi. 10.1289/EHP333

By:

Reese, Sarah E.;
Zhao, Shanshan;
Wu, Michael C.;
Joubert, Bonnie R.;
Parr, Christine L.;
Håberg, Siri E.;
Ueland, Per Magne;
Nilsen, Roy M.;
Midttun, Øivind;
Vollset, Stein Emil;
Peddada, Shyamal D.;
Nystad, Wenche;
London, Stephanie J.

Publication type:

Article

Research on the Premotor Symptoms of Parkinson’s Disease: Clinical and Etiological Implications.

Published in:

Environmental Health Perspectives, 2013, v. 121, n. 11/12, p. 1245, doi. 10.1289/ehp.1306967

By:

Honglei Chen;
Burton, Edward A.;
Webster Ross, G.;
Xuemei Huang;
Savica, Rodolfo;
Abbott, Robert D.;
Ascherio, Alberto;
Caviness, John N.;
Xiang Gao;
Gray, Kimberly A.;
Jau-Shyong Hong;
Kamel, Freya;
Jennings, Danna;
Kirshner, Annette;
Lawler, Cindy;
Rui Liu;
Miller, Gary W.;
Nussbaum, Robert;
Peddada, Shyamal D.;
Comstock Rick, Amy

Publication type:

Article

450K Epigenome-Wide Scan Identifies Differential DNA Methylation in Newborns Related to Maternal Smoking during Pregnancy.

Published in:

Environmental Health Perspectives, 2012, v. 120, n. 10, p. 1425, doi. 10.1289/ehp.1205412

By:

Joubert, Bonnie R.;
Håberg, Siri E.;
Nilsen, Roy M.;
Wang, Xuting;
Vollset, Stein E.;
Murphy, Susan K.;
Huang, Zhiqing;
Hoyo, Cathrine;
Midttun, Øivind;
Cupul-Uicab, Lea A.;
Ueland, Per M.;
Wu, Michael C.;
Nystad, Wenche;
Bell, Douglas A.;
Peddada, Shyamal D.;
London, Stephanie J.

Publication type:

Article

A Biologist's Guide to Analysis of DNA Micro-Array Data. Steen Knudsen, Wiley, New York, 2002. No. of pages: xiii + 125. ISBN 0-471-22490-1.

Published in:

Statistics in Medicine, 2003, v. 22, n. 14, p. 2385, doi. 10.1002/sim.1490

By:

Shyamal D. Peddada

Publication type:

Article

Novel Developmental Analyses Identify Longitudinal Patterns of Early Gut Microbiota that Affect Infant Growth

Published in:

PLoS Computational Biology, 2013, v. 9, n. 5, p. 1, doi. 10.1371/journal.pcbi.1003042

By:

White, Richard A.;
Bjørnholt, Jørgen V.;
Baird, Donna D.;
Midtvedt, Tore;
Harris, Jennifer R.;
Pagano, Marcello;
Hide, Winston;
Rudi, Knut;
Moen, Birgitte;
Iszatt, Nina;
Peddada, Shyamal D.;
Eggesbø, Merete

Publication type:

Article

Structural zeros in high-dimensional data with applications to microbiome studies.

Published in:

2017

By:

KAUL, ABHISHEK;
DAVIDOV, ORI;
PEDDADA, SHYAMAL D.

Publication type:

journal article

Bayesian nonparametric inference on stochastic ordering.

Published in:

Biometrika, 2008, v. 95, n. 4, p. 859, doi. 10.1093/biomet/asn043

By:

David B. Dunson;
Shyamal D. Peddada

Publication type:

Article

Estimation of order-restricted means from correlated data.

Published in:

Biometrika, 2005, v. 92, n. 3, p. 703, doi. 10.1093/biomet/92.3.703

By:

Peddada, Shyamal D.;
Dunson, David B.;
Xiaofeng Tan

Publication type:

Article

Sexual behavior is linked to changes in gut microbiome and systemic inflammation that lead to HIV-1 infection in men who have sex with men.

Published in:

Communications Biology, 2024, v. 7, n. 1, p. 1, doi. 10.1038/s42003-024-06816-z

By:

Lin, Huang;
Chen, Yue;
Abror-Lacks, Grace;
Price, Meaghan;
Morris, Alison;
Sun, Jing;
Palella, Frank;
Chew, Kara W.;
Brown, Todd T.;
Rinaldo, Charles R.;
Peddada, Shyamal D.

Publication type:

Article

Fat and vitamin intakes during pregnancy have stronger relations with a proinflammatory maternal microbiota than does carbohydrate intake.

Published in:

Microbiome, 2016, v. 4, p. 1, doi. 10.1186/s40168-016-0200-3

By:

Mandal, Siddhartha;
Godfrey, Keith M.;
McDonald, Daniel;
Treuren, Will V.;
Bjørnholt, Jørgen V.;
Midtvedt, Tore;
Moen, Birgitte;
Rudi, Knut;
Knight, Rob;
Brantsæter, Anne Lise;
Peddada, Shyamal D.;
Eggesbø, Merete

Publication type:

Article

Order restricted inference for oscillatory systems for detecting rhythmic signals.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 22, p. 1, doi. 10.1093/nar/gkw771

By:

Larriba, Yolanda;
Rueda, Cristina;
Fernández, Miguel A.;
Peddada, Shyamal D.

Publication type:

Article

Threshold knot selection for large-scale spatial models with applications to the Deepwater Horizon disaster.

Published in:

Journal of Statistical Computation & Simulation, 2019, v. 89, n. 11, p. 2121, doi. 10.1080/00949655.2019.1610884

By:

Jelsema, Casey M.;
Kwok, Richard K.;
Peddada, Shyamal D.

Publication type:

Article

Mixed directional false discovery rate control in multiple pairwise comparisons using weighted p-values.

Published in:

Biometrical Journal, 2015, v. 57, n. 1, p. 144, doi. 10.1002/bimj.201300242

By:

Zhao, Haibing;
Peddada, Shyamal D.;
Cui, Xinping

Publication type:

Article

A Bootstrap Based Measure Robust to the Choice of Normalization Methods for Detecting Rhythmic Features in High Dimensional Data.

Published in:

Frontiers in Genetics, 2018, p. 1, doi. 10.3389/fgene.2018.00024

By:

Larriba, Yolanda;
Rueda, Cristina;
Fernández, Miguel A.;
Peddada, Shyamal D.

Publication type:

Article

Tests for a simple tree order restriction with application to dose–response studies.

Published in:

Journal of the Royal Statistical Society: Series C (Applied Statistics), 2006, v. 55, n. 4, p. 493, doi. 10.1111/j.1467-9876.2006.00549.x

By:

Peddada, Shyamal D.;
Haseman, Joseph K.;
Xiaofeng Tan;
Travlos, Greg

Publication type:

Article

A survival-adjusted quantal response test for comparing tumour incidence rates.

Published in:

Journal of the Royal Statistical Society: Series C (Applied Statistics), 2005, v. 54, n. 1, p. 51, doi. 10.1111/j.1467-9876.2005.00469.x

By:

Peddada, Shyamal D.;
Dinse, Gregg E.;
Haseman, Joseph K.

Publication type:

Article

Determination of Temporal Order among the Components of an Oscillatory System.

Published in:

PLoS ONE, 2015, v. 10, n. 7, p. 1, doi. 10.1371/journal.pone.0124842

By:

Barragán, Sandra;
Rueda, Cristina;
Fernández, Miguel A.;
Peddada, Shyamal D.

Publication type:

Article

Linear Mixed Effects Models under Inequality Constraints with Applications.

Published in:

PLoS ONE, 2014, v. 9, n. 1, p. 1, doi. 10.1371/journal.pone.0084778

By:

Farnan, Laura;
Ivanova, Anastasia;
Peddada, Shyamal D.

Publication type:

Article

A Minimal Set of Tissue-Specific Hypomethylated CpGs Constitute Epigenetic Signatures of Developmental Programming.

Published in:

PLoS ONE, 2013, v. 8, n. 9, p. 1, doi. 10.1371/journal.pone.0072670

By:

Colaneri, Alejandro;
Wang, Tianyuan;
Pagadala, Vijayakanth;
Kittur, Jaya;
Staffa Jr, Nickolas G.;
Peddada, Shyamal D.;
Isganaitis, Elvira;
Patti, Mary Elizabeth;
Birnbaumer, Lutz

Publication type:

Article

Gene Expression in Uterine Leiomyoma from Tumors Likely to Be Growing (from Black Women over 35) and Tumors Likely to Be Non-Growing (from White Women over 35).

Published in:

PLoS ONE, 2013, v. 8, n. 6, p. 1, doi. 10.1371/journal.pone.0063909

By:

Davis, Barbara J.;
Risinger, John I.;
Chandramouli, Gadisetti V. R.;
Bushel, Pierre R.;
Baird, Donna Day;
Peddada, Shyamal D.

Publication type:

Article

A Practical Simulation Method to Calculate Sample Size of Group Sequential Trials for Time-to-Event Data under Exponential and Weibull Distribution.

Published in:

PLoS ONE, 2012, v. 7, n. 9, p. 1, doi. 10.1371/journal.pone.0044013

By:

Zhiwei Jiang;
Ling Wang;
Chanjuan Li;
Jielai Xia;
Hongxia Jia;
Peddada, Shyamal D.

Publication type:

Article

Circular piecewise regression with applications to cell-cycle data.

Published in:

Biometrics, 2016, v. 72, n. 4, p. 1266, doi. 10.1111/biom.12512

By:

Rueda, Cristina;
Fernández, Miguel A.;
Barragán, Sandra;
Mardia, Kanti V.;
Peddada, Shyamal D.

Publication type:

Article