Pankaj Chopra

Pankaj Chopra

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Pankaj Chopra

Pankaj Chopra

Publications by authors named "Pankaj Chopra"

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33Publications

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Species-Specific 5 mC and 5 hmC Genomic Landscapes Indicate Epigenetic Contribution to Human Brain Evolution.

Front Mol Neurosci 2018 14;11:39. Epub 2018 Feb 14.

Department of Psychiatry, University of Wisconsin-Madison, Madison, WI, United States.

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http://dx.doi.org/10.3389/fnmol.2018.00039DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5817089PMC
February 2018

Reply to Plüss et al.: The strength of PEMapper/PECaller lies in unbiased calling using large sample sizes.

Proc Natl Acad Sci U S A 2017 10 15;114(40):E8323. Epub 2017 Sep 15.

Department of Human Genetics, Emory University School of Medicine, Atlanta, GA 30322;

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http://dx.doi.org/10.1073/pnas.1714535114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5635938PMC
October 2017

Aspergillus Secondary Metabolite Database, a resource to understand the Secondary metabolome of Aspergillus genus.

Sci Rep 2017 08 4;7(1):7325. Epub 2017 Aug 4.

Division of Pharmacology & Toxicology, CSIR-IICT (Indian Institute of Chemical Technology), Ministry of Science & Technology (GOI), Uppal Road, Tarnaka, Hyderabad, Telangana, 500017, India.

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http://dx.doi.org/10.1038/s41598-017-07436-wDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5544713PMC
August 2017

Reactivation of FMR1 by CRISPR/Cas9-Mediated Deletion of the Expanded CGG-Repeat of the Fragile X Chromosome.

PLoS One 2016 21;11(10):e0165499. Epub 2016 Oct 21.

Department of Human Genetics, Emory University School of Medicine, Atlanta, Georgia, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0165499PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5074572PMC
June 2017

PEMapper and PECaller provide a simplified approach to whole-genome sequencing.

Proc Natl Acad Sci U S A 2017 03 21;114(10):E1923-E1932. Epub 2017 Feb 21.

Department of Human Genetics, Emory University School of Medicine, Atlanta, GA 30322;

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http://dx.doi.org/10.1073/pnas.1618065114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5347547PMC
March 2017

Genome-Wide Association Study Identifies African-Specific Susceptibility Loci in African Americans With Inflammatory Bowel Disease.

Gastroenterology 2017 01 28;152(1):206-217.e2. Epub 2016 Sep 28.

Department of Pediatrics, Emory University School of Medicine, Atlanta, Georgia; Department of Human Genetics, Emory University School of Medicine, Atlanta, Georgia. Electronic address:

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http://dx.doi.org/10.1053/j.gastro.2016.09.032DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5164948PMC
January 2017

Sex-specific hippocampal 5-hydroxymethylcytosine is disrupted in response to acute stress.

Neurobiol Dis 2016 Dec 26;96:54-66. Epub 2016 Aug 26.

Department of Psychiatry, University of Wisconsin, Madison, WI, USA. Electronic address:

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http://dx.doi.org/10.1016/j.nbd.2016.08.014DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5103857PMC
December 2016

Fabrication of poly(vinyl alcohol)-Carrageenan scaffolds for cryopreservation: Effect of composition on cell viability.

Carbohydr Polym 2016 08 8;147:509-516. Epub 2016 Apr 8.

Immunology and Molecular Medicine Laboratory, Department of Life Science, National Institute of Technology, Rourkela, Odisha, 769008, India. Electronic address:

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http://dx.doi.org/10.1016/j.carbpol.2016.04.027DOI Listing
August 2016

Identification of consensus binding sites clarifies FMRP binding determinants.

Nucleic Acids Res 2016 08 4;44(14):6649-59. Epub 2016 Jul 4.

Department of Cell Biology, Emory University School of Medicine, Atlanta, GA, USA Department of Neurology, Emory University School of Medicine, Atlanta, GA 30322, USA

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http://dx.doi.org/10.1093/nar/gkw593DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5001617PMC
August 2016

Synergistic combination of antioxidants, silver nanoparticles and chitosan in a nanoparticle based formulation: Characterization and cytotoxic effect on MCF-7 breast cancer cell lines.

J Colloid Interface Sci 2016 May 18;470:142-152. Epub 2016 Feb 18.

Immunology and Molecular Medicine Laboratory, Department of Life Science, National Institute of Technology, Rourkela, Odisha 769008, India. Electronic address:

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http://dx.doi.org/10.1016/j.jcis.2016.02.043DOI Listing
May 2016

Genome-wide alterations in hippocampal 5-hydroxymethylcytosine links plasticity genes to acute stress.

Neurobiol Dis 2016 Feb 18;86:99-108. Epub 2015 Nov 18.

Department of Psychiatry University of Wisconsin, Madison, WI, USA. Electronic address:

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http://dx.doi.org/10.1016/j.nbd.2015.11.010DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4713261PMC
February 2016

Differentially methylated plasticity genes in the amygdala of young primates are linked to anxious temperament, an at risk phenotype for anxiety and depressive disorders.

J Neurosci 2014 Nov;34(47):15548-56

Departments of Psychiatry, Psychology, the Health Emotion Research Institute, University of Wisconsin, Madison, Wisconsin 53719, Waisman Laboratory for Brain Imaging and Behavior, University of Wisconsin, Madison, Wisconsin 53705

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http://dx.doi.org/10.1523/JNEUROSCI.3338-14.2014DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4236392PMC
November 2014

Analysis of FMRP mRNA target datasets reveals highly associated mRNAs mediated by G-quadruplex structures formed via clustered WGGA sequences.

Hum Mol Genet 2014 Oct 29;23(20):5479-91. Epub 2014 May 29.

Department of Human Genetics, Departments of Biochemistry and Pediatrics, Emory University School of Medicine, Atlanta, GA, USA

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http://dx.doi.org/10.1093/hmg/ddu272DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4168832PMC
October 2014

Comparative meta-analysis between human and mouse cancer microarray data reveals critical pathways.

Int J Data Min Bioinform 2013 ;8(3):349-65

Department of Pathology, Asan Medical Center, University of Ulsan College of Medicine, Seoul, Korea 138-736.

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February 2014

Array-based assay detects genome-wide 5-mC and 5-hmC in the brains of humans, non-human primates, and mice.

BMC Genomics 2014 Feb 13;15:131. Epub 2014 Feb 13.

Department of Psychiatry, University of Wisconsin-Madison, 6001 Research Park Blvd,, Madison, Wisconsin 53719, USA.

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http://dx.doi.org/10.1186/1471-2164-15-131DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3930898PMC
February 2014

Genome-wide analysis validates aberrant methylation in fragile X syndrome is specific to the FMR1 locus.

BMC Med Genet 2013 Jan 29;14:18. Epub 2013 Jan 29.

Departments of Human Genetics, Emory University School of Medicine, 615 Michael Street, Atlanta, GA 30322, USA.

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http://bmcmedgenet.biomedcentral.com/articles/10.1186/1471-2
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http://dx.doi.org/10.1186/1471-2350-14-18DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3599197PMC
January 2013

Age-associated DNA methylation in pediatric populations.

Genome Res 2012 Apr 1;22(4):623-32. Epub 2012 Feb 1.

Department of Human Genetics, Emory University School of Medicine, Atlanta, Georgia 30322, USA.

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http://dx.doi.org/10.1101/gr.125187.111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3317145PMC
April 2012

Improving cancer classification accuracy using gene pairs.

PLoS One 2010 Dec 21;5(12):e14305. Epub 2010 Dec 21.

Department of Human Genetics, School of Medicine, Emory University, Atlanta, Georgia, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0014305PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3006158PMC
December 2010

Interaction of tomato lycopene and ketosamine against rat prostate tumorigenesis.

Cancer Res 2008 Jun;68(11):4384-91

Department of Biochemistry, University of Missouri-Columbia, Columbia, Missouri 65211, USA.

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http://cancerres.aacrjournals.org/cgi/doi/10.1158/0008-5472.
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http://dx.doi.org/10.1158/0008-5472.CAN-08-0108DOI Listing
June 2008

Microarray data mining using landmark gene-guided clustering.

BMC Bioinformatics 2008 Feb 11;9:92. Epub 2008 Feb 11.

Dept. of Computer Science and Engineering, Korea University, Seoul, Korea.

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http://dx.doi.org/10.1186/1471-2105-9-92DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2262871PMC
February 2008

Murine toxicology and pharmacokinetics of novel retinoic acid metabolism blocking agents.

Cancer Chemother Pharmacol 2007 Nov 8;60(6):899-905. Epub 2007 Mar 8.

Department of Pharmacology and Experimental Therapeutics, University of Maryland School of Medicine, Baltimore, MD 21201-1559, USA.

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http://dx.doi.org/10.1007/s00280-007-0438-3DOI Listing
November 2007

First pharmacophore-based identification of androgen receptor down-regulating agents: discovery of potent anti-prostate cancer agents.

Bioorg Med Chem 2007 May 13;15(10):3413-21. Epub 2007 Mar 13.

Department of Pharmacology & Experimental Therapeutics, University of Maryland School of Medicine, 685 West Baltimore Street, Baltimore, MD 21201-1559, USA.

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http://linkinghub.elsevier.com/retrieve/pii/S096808960700208
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http://dx.doi.org/10.1016/j.bmc.2007.03.019DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2063997PMC
May 2007

Retinoic acid metabolism blocking agents (RAMBAs) for treatment of cancer and dermatological diseases.

Bioorg Med Chem 2006 Jul 10;14(13):4323-40. Epub 2006 Mar 10.

Department of Pharmacology and Experimental Therapeutics, University of Maryland School of Medicine, Baltimore, 21201-1559, USA.

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http://dx.doi.org/10.1016/j.bmc.2006.02.041DOI Listing
July 2006

Retinoids in clinical use.

Med Chem 2006 Jul;2(4):431-8

Department of Pharmacology and Experimental Therapeutics, University of Maryland School of Medicine, Baltimore, MD 2101-1559, USA.

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July 2006

A new simple and high-yield synthesis of suberoylanilide hydroxamic acid and its inhibitory effect alone or in combination with retinoids on proliferation of human prostate cancer cells.

J Med Chem 2005 Jul;48(15):5047-51

Department of Pharmacology and Experimental Therapeutics, University of Maryland School of Medicine, 655 West Baltimore Street, Baltimore, Maryland 21201-1559, USA.

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http://dx.doi.org/10.1021/jm058214kDOI Listing
July 2005

Novel C-17-heteroaryl steroidal CYP17 inhibitors/antiandrogens: synthesis, in vitro biological activity, pharmacokinetics, and antitumor activity in the LAPC4 human prostate cancer xenograft model.

J Med Chem 2005 Apr;48(8):2972-84

Department of Pharmacology and Experimental Therapeutics, University of Maryland School of Medicine, Baltimore, 655 West Baltimore Street, Baltimore, Maryland 21201-1559, USA.

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http://pubs.acs.org/doi/abs/10.1021/jm040202w
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http://dx.doi.org/10.1021/jm040202wDOI Listing
April 2005