Dr. Dwijesh Chandra Mishra
Dr. Dwijesh Chandra Mishra
Scientist
dwijesh.mishra@icar.gov.in
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Citations and H index



Research Interest


  • Genome-wide association study
  • Comparative Genomics
  • Proteomics
  • Computational Biology
  • Statistical Genetics
  • Data Mining Techniques
  • System Biology
  • Computational Genomics
  • Genomic Variant Study

Academic areas of specialization


  • Teaching - Courses Taught
  • Faculty member of PG School, IARI in the discipline of Bioinformatics and involved in teaching M. Sc. and Ph. D. courses.

Teaching


  • Mathematical Foundation for Computer Application (4L+0P)
  • Advanced Bioinformatics (2L+1P)
  • Computational Biology (2L+1P)
  • Computational Genomics (2L+1P)
  • Genome Assembly and Annotation (1L+2P)
  • Chemoinformatics and IPR Issues (2L+1P)
  • Advances in Data Mining Techniques (2L+1P)

Training Courses/Teaching Material


  • Delivered invited lectures of theory with hands-on session on “Application of SAS software in Basic Statistical Analysis, Correlation and Regression Analysis, Multivariate Analysis and Analysis of the data of Designed Experiments” at Maharana Pratap University of Agriculture and Technology (MPUAT), Udaipur.
  • Delivered invited lectures on “Statistical Data Mining using MATLAB” at Maharaja Agrasen Institute of Technology, New Delhi
  • Delivered a training lecture of theory with hands-on session on “Machine Learning and Resampling Techniques” conducted in the short course “Bioinformatics in Agriculture” at IASRI, New Delhi
  • Delivered training lecture of theory with hands-on session on “Microarray data analysis, Cluster Analysis and Diallel Analysis” at Indian Agricultural Statistics Research Institute (IASRI), New Delhi.
  • Delivered a lecture on “Dimensionality Reduction Techniques” in the winter school training at IASRI, New Delhi
  • Delivered a lecture on “Exploratory Data Analysis using SAS” at Indian Agricultural Statistics Research Institute (IASRI), New Delhi.
  • Organized 21 days CAFT training programme title “Advances in Omics Data Analysis: Learning by examples” during December, 03-23, 2014 held at IASRI, New Delhi as a Co-course Director of the training programme.
  • Prepared 3 lectures notes and delivered lectures with hands on session on the topics title “Techniques of Genome Assembly”, “Model Evaluation Techniques” and“Network Biology” in CAFT training programme title “Advances in Omics Data Analysis: Learning by examples” during December, 03-23, 2014 held at IASRI, New Delhi.
  • Prepared 4 lecture notes and delivered lectures with hands on session on the topics title “Estimation of Variance Components”, “Best Linear Unbiased Predictors”, “GxE Interaction and Models for Stability Analysis” and “Analysis of Diallel” in International Training Programme on “Importance of Statistical and Experimental Designs, Data Analysis and Biometrical Techniques in Agriculture” Research organized during November 17, 2014 – February 07, 2015 at IASRI, New Delhi.
  • Prepared lecture note and delivered lecture with hands on session on the topics title “Variance Component Estimation from Experimental data on Horticultural Crops” in CAFT training programme title “Advances in Statistical Techniques for Horticultural Research” during January, 02-22, 2014 held at IASRI, New Delhi.
  • Prepared lecture notes and delivered three lectures with hands on session on the topics title “Application of Mixed Model in Quantitative Genetics”, “Microarray Data Analysis” and “Next Generation Sequencing Techniques” in CAFT training programme title “Recent Advances in Statistical Genetics” during February, 03-23, 2014 held at IASRI, New Delhi.

Important Projects


  • Rapeseed Mustard germplasm core-collection through standard statistical method (2010-11)
  • Study of synonymous codon usage and its relation with gene expressivity in halophilic bacteria (2011-12)
  • Web Based Software for Codon Usage Analysis for Gene Expression Identification (2012-13)
  • Algorithm for gene classification based on gene expression data (2012-14)
  • Methodology for protein structure comparison and its web implementation (2013-15)
  • Modeling network of gene responses to abiotic stress in rice (2013-continue)
  • Computational Identification And Modelling Of Genetic Variation In Relation To Performance Traits In Buffaloes (2015-continue)
  • RiceMetaSys: Understanding rice gene network for blast resistance and drought tolerance through system biology approach (2015-continue)
  • Gene Regulatory Networks modelling for Heat Stress Responses of Source and Sink for Development of Climate Smart Wheat (2015-continue)

Important Publications


  • Mishra Dwijesh Chandra *, Kumar Sanjeev, Lal SB, Saha Arijit,Chaturvedi KK,Budhlakoti Neeraj and Rai Anil (2018). TAGPT: A Web Server for Prediction of Trait Associated Genes using Gene Expression Data. Annals of Genetics and Genetic Disorders. 1(1): 1003.

  • Hukam C. Rawal, S. V. Amitha Mithra, Kirti Arora, Vishesh Kumar, Neha Goel, Dwijesh Chandra Mishra, K. K. Chaturvedi, Anil Rai, S. Vimala Devi, T. R. Sharma and Amolkumar U. Solanke (2018) . Genome-Wide Analysis in Wild and Cultivated Oryza Species Reveals Abundance of NBS Genes in Progenitors of Cultivated Rice. Plant Molecular Biology Reporter. Pages 1-14, iconpdf

  • Kumar RR, Goswami S, Singh K, Dubey K, Rai GK, Singh B, Singh S, Grover M, Mishra D, Kumar S, Bakshi S, Rai A, Pathak H, Chinnusamy V, Praveen S, Characterization of Novel Heat-Responsive Transcription Factor (TaHSFA6e) Gene Involved in Regulation of Heat Shock Proteins (HSPs) — A Key Member of Heat Stress-Tolerance Network of Wheat, Journal of Biotechnology (2010),NAAS Rating : 8.667 iconpdf

  • Kumar A, Farooqi MS, Mishra DC, Kumar S, Rai A, Chaturvedi KK, Lal SB, Sharma, A. (2018). Prediction of miRNA and Identification of their Relationship Network Related to Late Blight Disease of Potato. Microrna. 7(1):11-19. doi: 10.2174/2211536607666171213123038. PubMed PMID: 29237394.

  • Das Samarendra, Rai Anil, Mishra D. C. & Rai. Shesh N. (2018). Statistical Approach for Selection of Biologically Informative Genes. Gene. iconpdf

  • Das Samarendra, Rai Anil, Mishra D. C. & Rai. Shesh N. (2018). Statistical Approach for Gene Set Analysis with Trait Specific Quantitative Trait Loci. Nature Scientific Reports. 8:2391 | DOI:10.1038/s41598-018-19736-w.

  • Singh Indra, Smita Shuchi, Mishra Dwijesh C., Kumar Sanjeev, Singh Binay K., Rai Anil.Abiotic Stress Responsive miRNA-Target Network and Related Markers (SSR and SNP) in Brassica juncea. Frontiers in Plant Science.iconpdf

  • D.C Mishra, Smita, S, Singh I, Devi, MN, Kumar S, Farooqi, MS, Chaturvedi, KK, Rai, A (2017). Prediction of novel putative miRNAs and their targets in buffalo. Indian Journal of Animal Sciences, 87(1), 59–63.

  • Monendra Grover,D. C. Mishra, Naveen Sharma, Sudhir Srivastava, Anil Rai (2017) The maximum computational capacity of proteins involved in abiotic stress differs significantly from the proteins not involved in abiotic stress, National Academy Science Letters, 1-3, 10.1007/s40009-017-0557-2.

  • Srivastava, S, Lal, SB, Mishra, DC, Angadi, UB, Chaturvedi, KK, Rai, SN and Rai, A (2016). An efficient algorithm for protein structure comparison using elastic shape analysis. Algorithms for Molecular Biology, 11, 27, DOI: 10.1186/s13015-016-0089-1.

  • Rai, N, Mishra, DC, Kumar, S, Rai, A, Chaturvedi, KK, Lal, SB, Kumar, A, Farooqi, MS, Majumdar, PG, and Archak, S. (2016). Genome analysis of Rhizobium species using codon usage bias tools International Conference on Bioinformatics and Systems Biology (BSB, 2016). IEEE Xplore digital library, Page(s):1 – 4.

  • Kumar, RR, Goswami, S, Singh, K, Dubey, K, Singh, S, Sharma, R, Verma, N, Kala, YK, Rai, G, Grover, M, Mishra, DC, Singh, B, Pathak, H, Chinnusamy, V, Rai, A and Praveen, S (2016). Identification of putative RuBisCo activase (TaRca1) ˗ the catalytic chaperone regulating carbon assimilatory pathway in wheat (Triticum aestivum) under the heat stress. Frontier in Plant Sciences. DOI: 10.3389/fpls.2016.00986.

  • Goswami, S, Kumar, RR, Dubey, K, Singh, JP, Tiwari, S, Kumar, A Smita, S, Mishra, DC, Kumar, S, Grover, M, Padaria, JC, Kala,YK, Singh, GP, Himanshu Pathak, H, Chinnusamy, V, Rai, A, Praveen, S and Rai, RD (2016). SSH analysis of endosperm transcripts and characterization of heat stress regulated expressed sequence tags in bread wheat. Frontiers in Plant Science, 7, 1230

  • Singh, BK, Mishra, DC, Yadav, S, Ambawat, S, Vaidya, E, Tribhuvan, KU, Kumar, A, Kumar, S, Kumar, S, Chaturvedi, KK, Rani R, Yadav, P, Rai, A, Rai, PK, Singh, VV, Singh, D (2016). Identification, characterization, validation and cross-species amplification of genic-SSRs in Indian Mustard (Brassica juncea). Journal of Plant Biochemistry and Biotechnology. DOI: 10.1007/s13562-016-0353-y.

  • Suneha Goswami, Ranjeet R. Kumar, Kavita Dubey, Jyoti P. Singh, Sachidanand Tiwari, Ashok Kumar, Shuchi Smita, Dwijesh C. Mishra, Sanjeev Kumar, Monendra Grover, Jasdeep C. Padaria, Yugal K. Kala, Gyanendra P. Singh, Himanshu Pathak, Viswanathan Chinnusamy, Anil Rai, Shelly Praveen and Raj D. Rai. (2016). SSH analysis of endosperm transcripts and characterization of heat stress regulated expressed sequence tags in bread wheat. Frontiers in Plant Science, 7, 1230.

  • Md. Samir Farooqi, Mishra D. C., Niyati Rai, DP Singh, Anil Rai, Chaturvedi, K.K., Ratna Prabha and Manjeet Kaur (2016). Genome-wide relative analysis of codon usage bias and codon context pattern in the bacteria Salinibacter ruber, Chromohalobacter salexigens and Rhizobium etli. in Biochemistry and Analytical Biochemistry. 5:257. doi:10.4172/2161-1009.1000257.

  • Singh Binay K, Mishra D. C., Yadav Sushma, Ambawat Supriya, Vaidya Era, Tribhuvan Kishor U, Kumar Arun, Kumar Sujith, Sanjeev Kumar, Chaturvedi, K.K., Rani Reema, Yadav Prashant, Rai Anil, Rai P. K, Singh V. V, Singh Dhiraj. (2016). “Identification, characterization, validation and cross-species amplification of genic-SSRs in Indian Mustard (Brassica juncea)”. Journal of Plant Biochemistry and Biotechnology. DOI: 10.1007/s13562-016-0353-y.

  • Nigam Deepti, Kadimi Puneet K, Sanjeev Kumar, Mishra D. C., and Rai Anil. (2015). “Computational analysis of miRNA-targets Community Network reveals cross talk of different metabolism” Genomics Data. http://dx.doi.org/ 10.1016/j.gdata.2015.04.028.

  • Grover Monendra, Mishra D. C.,(2015). Development of computational methods for classification and determination of function in proteins related to abiotic stress in Poaceae. Journal of Applied BioScience Research 12, 1-3.

  • Grover Monendra, Sudeep Kumar, Rajesh Kumar, Mishra D. C., (2015). What does it mean to Gain Complete Understanding of Biological Systems (or for that matter universe)?. Journal of Applied BioScience Research 12, 4-5.

  • Farooqi Md. Samir, Sanjukta R K, Mishra D. C., Singh D P, Rai Anil, Chaturvedi K K and Sharma Naveen (2014) In silico analysis of synonymous codon usage pattern of Rhizobium etli CFN 42, Proceedings of the National Academy of Sciences, India Section B: Biological Sciences. http://dx.doi.org/10.1007/s40011-014-0457-x.

  • Chilana Poonam, Bhati Jyotika, Sharma Anu, Mishra D. C., Rai Anil (2014). “Analysis of Codon Usage Pattern and Prediction of Potentially Highly Expressed Genes in Drosophila”, European Journal of Molecular Biology and Biochemistry, 1(4), 144-150.

  • Grover Monendra, Mishra Dwijesh, Kumar Rajesh, Trivedi A.K. and Srivastava Sudhir (2014). “Computation, Mathematics or Aesthetic Realism: Revisiting the foundations of modern biology and agriculture”, International Journal of Current Research and Academic Review, Vol 2(8), pg 175-177.

  • Nigam, D., Sanjeev Kumar, Mishra D. C., Rai Anil, Smita Suchi and Saha Arijit (2014) Synergistic regulatory networks mediated bymicroRNAs and transcription factors under drought, heat and salt stresses in Oryza Sativa spp, Gene, http://dx.doi.org/10.1016/j.gene.2014.10.054.

  • Chauhan, JS, Singh, KH and Mishra D. C., (2013). AMMI and bi-plot analyses to identify stablegenotypes of Indian mustard (Brassica juncea L.) for oil and seed meal quality characters. SABRAOJ. Breed. Genet., 45(2): 195-202.

  • Kumar A., Mishra D. C., Rai A., Sharma M.K. and Gajula M.N.V.P. (2013). In Silico Analysis of Protein-Protein Interaction between Resistance and Virulence Protein during Leaf Rust Disease in Wheat (Triticum aestivum L.), World Research Journal of Peptide and Protein ISSN: 2278-4586 & E-ISSN: 2278-4608”.

  • Anu Sharma, S. B. Lal, Mishra D. C., Sudhir Srivastava and Anil Rai (2013). A web Based Software for Synonymous Codon Usage Indices.International Journal of Information and Computation Technology, 3(3): 147-152.

  • Priyamedha, Singh V V, Chauhan J S, Meena M L, Mishra D. C., (2013). Correlation and path coefficient analysis for yield and yield components in early generation lines of Indian Mustard (Brassica juncea L.). Current Advances in Agricultural Sciences, 5(1): 37-40.

  • Mohammad Samir Farooqi, Rajkumari Sanjukta, Naveen Sharma, Anil Rai, Mishra D. C., Dhananjaya P Singh & K K Chaturvedi (2013). Statistical and computational methods for detection of synonymous codon usage patterns and gene expression. International Journal of Agricultural and Statistical Sciences, 9(1): 303-310. iconpdf

  • Sanjukta RK, Anil Rai, Niyati Rai, Md. Samir Farooqi, Naveen Sharma, Mishra D. C., and Dhananjaya P Singh (2013). Expression Analysis of Genes Responsible for Amino Acid Biosynthesis in Halophilic Bacterium Salinibacter ruber. Indian Journal of Biochemistry and Biophysics, 50(3): 177-185. iconpdf

  • Sanjukta RK, Farooqi MS, Sharma N, Rai N, Mishra D. C., Rai A, Singh DP, Chaturvedi KK (2013). Statistical analysis of codon usage in extremely halophilic bacterium Salinibacter ruber DSM13855. Online Journal of Bioinformatics, 14(1): 15-31. iconpdf

  • K.K. Chaturvedi, S.B. Lal, Naveen Sharma, Md. Samir Farooqi, Mishra D. C., (2013). सूक्ष्मजीवों में जीनों की अभिव्यक्ति. नई उम्मीद, 5(1).

  • Rajkumari Sanjukta, Mohammad Samir Farooqi, Naveen Sharma, Anil Rai, Mishra D. C. and Dhananjaya P Singh (2012). Trends in the codon usage patterns of Chromohalobacter salexigens genes. Bioinformation, 8(22): 1087-1095. iconpdf

  • Singh Nripendra V., Singh Sanjay K., Singh Anand K.,Meshram Deodas T.,Surosh Sachin S. and Mishra D. C., (2012). Arbuscular Mycorrhizal Fungi (AMF) induced hardening of micropropagated pomegranate (Punica granatum L.) plantlets. Scientia Horticulturae, 136: 122-127.

  • Sud, U.C., Mishra D. C., (2008). Estimation of Finite Population Mean Using Double Ranked Set Sampling. Journal of the Indian Society of Agricultural Statistics, 62(3): 203-207.

  • Sud, U.C., Mishra D. C., (2006). Estimation of Finite Population Mean Using Two Stage Ranked Set Sampling Design. Journal of the Indian Society of Agricultural Statistics, 60(2): 108-117.



  • Book Chapter:



  • Mishra D. C., Sanjeev Kumar, Anil Rai, Sudhir Srivastava (2013). Machine Learning Techniques and Its Application in Bioinformatics. Information and Knowledge Management: Tools, Techniques and Practices. Publisher: New India Publishing Agency.

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