Doctorates' Information System

     Nithin C

Ph.D. fromIndian Institute of Technology, Kharagpur - Department of Biotechnology (thesis submitted)
Supervisor(s)  Dr Ranjit Prasad Bahadur
Ph.D. status  Joined in 2012 :: In progress
AddressComputational Structural Biology Lab, Department of Biotechnology, IIT Kharagpur - 721302
Phone9093922074
Emailnithin_aneesh@iitkgp.ac.in
Formal Education
Exam / Degree Board / UnivBranchYear
10CBSE (AISSE) / Sabarigiri School, PunalurEnglish Comm., Malayalam, Mathematics, Science and Tech, Social Science2004
12CBSE (AISSCE) / Sabarigiri Residential School, AnchalEnglish Core, Mathematics, Physics, Chemistry, Biology, Malayalam2006
B.Tech.University of Kerala / Sree Chitra Thirunal College of Engineering, ThiruvanathapuramBiotechnology and Biochemical Engineering (with equivalance to Chemical Engineering)2010
M.Tech.Indian Institute of Technology, KharagpurBiotechnology and Biochemical Engineering2012

Research Areas
  • Bioinformatics and Computational Biology
  • Computational prediction of miRNAs and their targets
  • Protein-RNA interactions

Skills
  • Sequence Analysis
  • Structural Analysis
  • non-coding RNAs - miRNAs, lncRNAs
  • Next-Generation Sequencing (NGS) data Analysis
  • Protein RNA interactions
  • Programming - CPP, STL, Bash, MATLAB, Python
  • Parallel Processing - OpenMP, fork
  • Software Packages - CCP4, GROMACS, FASTX toolkit
  • Others - MS Office, Linux Desktop

Awards
  • Poster Award at EMBL Conference on Revolutions in Structural Biology - Celebrating the 100th Anniversary of Sir John Kendrew, EMBL Heidelberg, Nov 2017
  • Third Rank for Bachelor of Techonology (Biotechnology and Biochemical Engg), University of Kerala
  • Travel Award from IIT Kharagpur to attend the EMBO conference - The Non-Coding Genome under Best Academic International Conferences, EMBL Heidelberg, Germany, Oct 2015
  • International Travel Support from SERB, DST, GOI to attend 4th International Work-Conference on Bioinformatics and Biomedical Engineering, University of Granada, Spain, April 2016
  • Travel Award from IIT Kharagpur to attend the EMBO conference From Functional Genomics to Systems Biology under Non-SAARC category, EMBL Heidelberg, Germany, Nov 2016
  • GATE 2015 Computer Science
  • GATE 2014 Biotechnology
  • GATE 2013 Chemical Engineering
  • GATE 2010 Biotechnology
  • Life Member of Indian Biophysical Society (948)
  • Student Member of the International Society for Computational Biology (ISCB)

Experience
  • Research Associate at Laboratory of Bioinformatics and Protein Engineering, International Institute of Molecular and Cell Biology in Warsaw, Warsaw, Poland since 2nd November 2017

Teaching Experience
  • Pairwise and Multiple Sequence Alignment (Bioinformatics)(L) at Indian Institute of Technology Kharagpur B. Tech 3rd year (2014 - 2016) (3 terms)
  • Spectroscopy (Analytical Biochemistry Laboratory)(P) at Indian Institute of Technology, Kharagpur B. Tech 3rd year (2013 - 2015) (3 terms)
  • Photosynthesis (Biochemical Engineering and Bioenergetics)(L) at Indian Institute of Technology, Kharagpur B. Tech 2nd year (2011 - 2015) (5 terms)
  • Enzyme Kinetics (Bioprocess Engineering)(L) at Indian Institute of Technology, Kharagpur B. Tech 4th year (2013) (1 terms)
  • PDB file handling, C (Bioinformatics)(P) at Indian Institute of Technology, Kharagpur B. Tech 3rd year (2013) (1 terms)

Fellowships / Scholarships
  • Institute Fellowship (Joint) for PhD (2012- till date)
  • GATE Fellowship M. Tech (2010-2012)

Papers Published in Journals
  • Genome-wide identification of miRNAs and lncRNAs in Cajanus cajan by Chandran Nithin, Amal Thomas,Jolly Basak and Ranjit Prasad Bahadur BMC Genomics 18, 878 (2017)
  • A non-redundant protein-RNA docking benchmark version 2.0 by Nithin C, Mukherjee S and Bahadur RP Proteins Structure, Function, and Bioinformatics 85(2),256-267 (2017)
  • Targeting non-coding RNAs in Plants with the CRISPR-Cas technology is a challenge yet worth accepting by Jolly Basak, Chandran Nithin Frontiers in Plant Science 6, 1001 (2015)
  • Computational prediction of miRNAs and their targets in Phaseolus vulgaris using simple sequence repeat signatures by Chandran Nithin, Nisha Patwa, Amal Thomas, Ranjit Prasad Bahadur and Jolly Basak BMC Plant Biology 15(140),1-16 (2015)
  • Probing binding hot spots at protein-RNA recognition sites by Barik A, Nithin C, Karampudi NBR, Mukherjee S and Bahadur RP Nucleic Acids Research 10.1093/nar/gkv876 (2015)
  • Molecular architecture of protein-RNA recognition sites by Barik A, Nithin C, Pilla SP,Bahadur RP Journal of Biomolecular Structure and Dynamics 33(12), 2738 - 2751 (2015)
  • A protein-RNA docking benchmark (I) Nonredundant cases by Amita Barik, Nithin C, Manasa P, Ranjit Prasad Bahadur Proteins Structure, Function, and Bioinformatics 80(7), 1866-1871 (2012)

Papers Presented at Conferences
  • A structure-based model for the accurate prediction of protein-RNA binding affinity by Nithin C, Mukherjee S and Bahadur RP EMBL Conference on Revolutions in Structural Biology - Celebrating the 100th Anniversary of Sir John Kendrew Poster (2017)
  • A multi-class SVM classifier using single sequence repeat signatures to distinguish between ncRNA types by Nithin C, Mukherjee S and Bahadur RP EMBO Conference From Functional Genomics to Systems Biology Poster (2016)
  • A mathematical model for the accurate prediction of protein-RNA binding affinity using structural and physiochemical parameters by Nithin C, Mukherjee S and Bahadur RP 4th International Work-Conference on Bioinformatics and Biomedical Engineering (IWBBIO 2016) Poster (2016)
  • An effective computational strategy for predicting miRNAs in plants - Discovering new miRNAs and their targets in P. vulgaris by Nithin C, Patwa N, Thomas A, Bahadur RP, Basak J Keystone Symposia on Molecular and Cellular Biology - Small RNA Silencing - Little Guides, Big Biology (A6) Abstract (2016)
  • Computational identification of miRNAs and lncRNAs in Cajanus cajan by Nithin C, Amal Thomas, Jolly Basak, Ranjit Prasad Bahadur EMBO/EMBL Symposium The Non-Coding Genome Poster (2015)
  • Computational prediction of miRNAs and their targets in Phaseolus vulgaris using simple sequence repeat signatures by Nithin C, Amal Thomas, Ranjit Prasad Bahadur, Jolly Basak National Symposium on Biophysics and Golden Jubilee Meeting of Indian Biophysical Society Oral (2015)
  • A structure based binding affinity benchmark for Protein-RNA complexes by Nithin C, Ranjit Prasad Bahadur Annual Conference of Indian Biophysical Society entitled Molecular Architechure, Dynamics and Assembly in Living Systems, Saha Institute of Nuclear Physics, Kolkata Poster (2014)
  • A structure based binding affinity benchmark for Protein-RNA complexes by Nithin C, Ranjit Prasad Bahadur International Conference on Biomolecular Forms and Functions-A celebration of 50 years of the Ramachandran Map, IISC Bengaluru Poster (2013)
  • A protein RNA docking benchmark by Amita Barik, Nithin C, Manasa P, Ranjit Prasad Bahadur 100th Indian Science Congress, Kolkata Poster (2013)
  • A protein RNA docking benchmark by Amita Barik, Nithin C, Manasa P, Ranjit Prasad Bahadur International Interdisciplinary Science Conference 2011, held at Jamia Millia Islamia, New Delhi Poster (2011)

Indian Institute of Technology, Kharagpur-721 302, INDIA
Telephone Number +91-3222-255221 | FAX : +91-3222-255303