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Dr. Ashok Kumar Patel

Assistant Professor,

Kusuma School of Biological Sciences,

Room No. 306, Block1A

Indian Institute Of Technology Delhi

Hauz Khas, New Delhi – 110016, India.

Contact: 011-2659-7528

Email: ashokpatel@bioschool.iitd.ac.in , ashokmbu@gmail.com

 

 

 

 

 

 

 

 

IITD Home                                        KusumaTrust                                               Bioschool-IITD

 

 

 

AKP lab

 

 

Research Activities:

 

 

1.             Chromatin and diseases, Epigenetics, Chromatin remodeling, Transcriptional factors, Kinases, cancer, DNA damage repair, histone modifications.

 

 

 

 

 

 

 

 

 

 

 

Chromatin remodeling Project:

           

The packaging of DNA into nucleosomes and into chromatin fibers can take a range of functionally distinct forms. The regulation of chromatin environment is achieved by a complex web of factors by enzymes which add and remove covalent modifications to histone proteins (resulting in various patterns of methylation, acetylation, phosphorylation, ubiquitination, etc) and by ATP-dependent chromatin remodelers that assemble, move, and evict histones from DNA. By chemically modifying histone proteins and changing histone positioning on DNA, these factors create particular chromatin environments required for gene expression and silencing. Disruption of these factors cause severe imbalances in gene expression, and cancer. Our lab is trying to understand the chromodomain helicase DNA-binding (CHD) family of ATP-dependent chromatin remodelers, which has emerged as important regulators of cellular differentiation. CHD proteins are thought to function in the nucleus via binding to DNA and regulating gene transcription. CHD7, a member of the CHD family, encodes a protein mutated in human CHARGE syndrome, a multiple anomaly disorder that affects hearing, vision, and cardiac, craniofacial, and nervous system development. Our strategy is to obtain structural information of CHD7 using X-ray crystallography and cryoEM to understand the process of chromatin remodeling. The structural understanding of chromatin remodelers may allow identifying targets, biomarkers and diagnostic tools relevant for biomedical application for novel therapeutics.

 

 

Principal Investigator

 

About: Ashok K. Patel

 

Ashok’s early training at BSc. and MSc. Level was in Physics at BHU, Varanasi, India. He joined the Molecular Biology Unit, Institute of Medical Sciences, BHU, Varanasi for Ph.D. with Prof. J.V. Medicherla where he carried out structural and biophysical studies of proteins from natural source. His active interest in proteins led him to get training from Prof. David W. Rice, University of Sheffield, UK (2007); Prof B.W. Dijkstra, University of Groningen, The Netherlands (2008) and Prof. Petri Kursula at University of Oulu, Finland (2009) on the travel fellowship by Boehringer Ingelheim Fonds (BIF) Germany. He worked as postdoc fellow with Prof. Gregory Bowman in Johns Hopkins University, USA during 2009-2013 where he worked on chromatin remodeling. Currently He is working as an Assistant Professor in Kusuma school of Biological Sciences, IIT Delhi.

 

 

Expertise and interest: Biomolecular X-Ray Crystallography, Molecular and Structural Virology, Structure & function study of Chikungunya and Dengue Virus, host-pathogen interaction, molecular intervention, Chromatin Remodeling and diseases etc. 

Teaching:

1) SBL-201: 3-0-0 credit : “High Dimensional Biology”

2) SBL-100: 3-0-2- credit:Introductory Biology for Engineers”

3) SBL-713: 3-0-0 credit : “Introduction to Structural Biology”

4) SBL720: 3-0-0 credit:  Genome and Healthcare”

5) SBL721: 3-0-0 Credit: “Techniques In Bio-molecular Interactions”

6)                1-0-0 credit: “Stem Cells”

 

 

 

Personal Profile (Ashok K. Patel)

Education:

2009

Ph.D. (Molecular Biology)

Molecular Biology Unit, IMS, BHU, Varanasi, India

Molecular and Structural Biology, Biophysics, Biochemistry

2004

MSc. (Physics)

Banaras Hindu University, Varanasi, India

Advanced Spectroscopy and laser Science

2001

BSc. (Physics)

Banaras Hindu University, Varanasi, India

Physics (Hons.), Chemistry and Mathematics

 

 

Experience:

 

30th  December 2013 – present

Assistant Professor

Kusuma School of Biological Sciences, IIT Delhi, India

01st  August 2009 –29th  December 2013

Postdoctoral research

Department of Biophysics, Johns Hopkins University, USA under Prof Gregory Bowman

01st  April 2005 –23rd  July 2009

Ph.D.

Molecular Biology Unit, Institute of Medical Sciences, Banaras Hindu University, Varanasi, India under Prof J. V. Medicherla

2009 (90 days)

Research trainee

University of Oulu, Finland under Prof Petri Kursula

2008 (90 days)

Research trainee

University of Groningen, Netherlands under Prof Bauke W. Dijkstra

2007 (90 days)

Research trainee

University of Sheffield, UK under Prof David W. Rice

 

Publications

 

 

13.      Ashok Patel, Srinivas Chakravarthy, Seamus Morrone, Ilana M. Nodelman, Jeffrey N. McKnight and     Gregory D. Bowman. “Decoupling nucleosome recognition from DNA binding dramatically alters the properties of the Chd1 chromatin remodeler”. Nucleic Acid Research December 2012, 41, 1637-1648. Publisher: Oxford Journals. doi: 10.1093/nar/gks1440 (Journal impact factor 9.11).

 

12.      Srinivas Chakravarthy, Ashok Patel and Gregory D. Bowman. “The basic linker of macroH2A stabilizes DNA at the entry/exit site of the nucleosome” Nucleic Acid Research June 2012, 40, 17, 8285-8295. Publisher: Oxford Journals doi: 10.1093/nar/gks645. (Journal impact factor 9.11).

 

11.      Ashok Patel, Jeffrey N. McKnight, Pavol Genzor, and Gregory D. Bowman, “Identification Of Residues In Chromo-Helicase-DNA-Binding Protein 1 (Chd1) Required For Coupling ATP Hydrolysis To Nucleosome Sliding ” Journal of Biological Chemistry. (JBC) December 2011,VOL. 286(51), pp 43984-43993 Publisher: American Society for Biochemistry and Molecular Biology, doi/10.1074/jbc.M111.282970. (Journal impact factor 4.65).

 

10.      Ravi Prakash Yadav, Ashok Patel and M.V. Jagannadham, “Neriifolin S, a Dimeric Serine Protease from Euphorbia neriifolia Linn: Purification and Biochemical characterization" Food Chemistry December 2011 132, 1296–1304. Publisher: Elsevier DOI. http://dx.doi.org/10.1016/j.foodchem.2011.11.107.  (Journal Impact factor: 3.39).

 

9.         Ravi Prakash Yadav, Ashok Patel, M.V. Jagannadham “Purification and Biochemical characterization of a            chymotrypsin-like serine protease from Euphorbia neriifolia Linn” Process Biochemistry 2011; 46, 1654-1662. Publisher: Elsevier   doi.org/10.1016/j.procbio.2011.05.013.(Journal Impact factor: 2.52).

 

8.         Ashok Patel, Ravi P. Yadav, Viivi Majava, Inari Kursula, Petri Kursula  “Structure of the Dimeric Autoinhibited Conformation of DAPK2, a Pro-Apoptotic Protein Kinase” Journal of Molecular Biology (JMB), April    2011; 409(3): 369-83 Publisher: Elsevier. doi: 0.1016/j.jmb.2011.03.065. (Journal Impact factor: 4.33).

 

7.         Ashok Patel, Vijay K. Singh, Ulrich Bergmann, Medicherla V. Jagannadham, Petri Kursula, “Purification, crystallization and preliminary X-ray crystallographic analysis of MIL, a glycosylated jacalin-related lectin from mulberry (Morus indica) latex” Acta crystallographica. Section F, Structural biology and crystallization communications, March 2011; F 67(Pt5): 608-12. Publisher: International Union of Crystallography, doi: 10.1107/S174430911101013X. (Journal Impact factor: 0.55).

 

6.         Ashok Patel, Vijay K. Singh, Ravi P. Yadav, Arthur J.G. Moir, Medicherla. V. Jagannadham “Purification and characterization of a new chitinase from latex of Ipomoea carnea” Process Biochemistry.December 2009; 45; 5, 675-681. Publisher: Elsevier.doi.org/10.1016/j.procbio.2009.12.016. (Journal Impact factor: 2.52).

 

5.         Ashok Patel, Vijay K. Singh, Ravi P. Yadav, Arthur J.G. Moir, Medicherla. V. JagannadhamICChI, a glycosylated chitinase from the latex of Ipomoea carneaPhytochemistry, August 2009; 70; 1210-1216;  Publisher: Elsevier doi: 10.1016/ j.phytochem.2009.07.005. (Journal Impact factor: 3.05).

 

4.         Ashok Patel, Niels van Oosterwijk, Vijay K. singh, Henriette J. Rozeboom,Kor H. Kalk, RJ Siezen, M. V. Jagannadham, Bauke W. Dijkstra “Crystallization and preliminary X-ray analysis of carnein, a serine protease from Ipomoea carneaActa crystallographica. Section F, Structural biology and crystallization communications, 2009; F 65, 383-385. Publisher: International Union of Crystallography, doi: 10.1107/S1744309109008288.             (Journal Impact factor: 0.55).

 

3.         Ashok Patel, Vijay K. Singh, A. J. Moir, Medicherla V. Jagannadham “Biochemical and Spectroscopic Characterization of Morning Glory Peroxidase from an Invasive and Hallucinogenic Plant Weed Ipomoea carnea      Journal of Agricultural and Food Chemistry, 2008, 56, 9236–9245.; Publisher: American Chemical Society  DOI: 10.1021/jf801699y. (Journal Impact factor: 2.91).

 

2.         Vijay K. Singh, Ashok Patel, A. J. Moir, Medicherla V. JagannadhamIndicain, a dimeric serine protease from Morus indica cv. K2” Phytochemistry, 2008, 69, 2110-2119. Publisher: Elsevier DOI: 10.1016/j.phytochem.2008.05.005. (Journal Impact factor: 3.05).

 

1.         Ashok Patel, Vijay Kumar Singh, Medicherla V JagannadhamCarnein, a serine protease from noxious plant weed Ipomoea carnea (morning glory)” Journal of Agricultural and Food Chemistry 2007, 55, 5809-5818, Publisher: American Chemical Society. DOI: 10.1021/jf063700h (Journal Impact factor: 2.91).