DSLab: Data Science Laboratory

Dr. Deepak Singla (PhD)

Assistant Professor (Bioinformatics)
P.A.U Ludhiana
E-mail: deepak@pau.edu
Contact: +91-9582943705

Collaborators

Prof. Richard Baxter, Temple University,Phailadelphia.
Dr. Sandeep Kumar Dhanda, La Jolla Institute for Allergy and Immunology, California

Reviewer
BMC Genomics, Journal of Cheminformatics, BMC Bioinformatics, Gene Report, RSC Advance, Frontiers in Plant Science, Frontiers in Genetics, Frontiers in Bioengineering and Biotechnology

Membership
Australian Bioinformatics and Computational Biology Society
MidSouth Computational Biology and Bioinformatics Society

Research Experience
Assistant Professor, Punjab Agricultural University, Ludhiana. (2018-Continue)
Research Associate, ICMR-National Institute of Malaria Research, New Delhi, India. (2017-2018)
Research Associate, ICAR-Indian Agricultural Statistical Research Institute, New Delhi, India. (2015-2017)
Post Doc Fellow, University of Kansas, Lawrence, Kansas, USA. (2014-2015)
Scientist-1, ICMR-National Institute of Pathology, New Delhi, India. (2013-2014)
Project Assistant, CSIR-Institute of Microbial Technology, Chandigarh, India (2008-2010).

Teaching Experience
Lecturer: Bioinformatics, M.M Modi College, Patiala, Panjab, India (2008-2009).
Lecturer: Biotechnology and Environmental Science, Ch. Devi Lal Memorial Engineering College, Sirsa, India (2007-2008).

Publications




1. Kaur G, Pathak M, Singla D, Sharma A, Chhuneja P, and Sarao NK: High-Density GBS-Based Genetic Linkage Map Construction and QTL Identification Associated With Yellow Mosaic Disease Resistance in Bitter Gourd (Momordica charantia L.). Front Plant Sci. 2021
2. Kumari S, Chauhan C2021, Tevatiya S, Singla D, DasDe T, Sharma P, Thomas T, Rani J, Savargaonkar S, Pandey KC, Pande V, Dixit R: Genetic changes of Plasmodium vivax tempers host tissue-specific responses in Anopheles stephensi. Curr. Res. Immunol. 2021
3. Kumar P, Choudhary M, Jat BS, Kumar B, Singh V, Kumar V, Singla D, Rakshit S: Skim sequencing: an advanced NGS technology for crop improvement. Journal of Genetics 2021
4. Sidhu NS, Pruthi G, Singh S, Bishnoi R, Singla D*: Genome-wide identification and analysis of GRAS transcription factors in the bottle gourd genome. Scientific Reports 2020
5. Yadav AK, Singla D*: VacPred: Sequence-based prediction of plant vacuole proteins using machine-learning techniques. Journal of BioSciences 2020
6. Bishnoi R, Contet A, Day CJ, Hou DCF, Profitt LA, Singla D, Sousa GL, Jennings MP, Povelones M, Valentine AM, Baxter RHG: Solution structure, glycan specificity and of phenol oxidase inhibitory activity of Anopheles C-type lectins CTL4 and CTLMA2. Scientific Reports 2019
7. Fourati et al. A crowdsourced analysis to identify ab initio molecular signatures predictive of susceptibility to viral infection. Nat. Comm.2018
8. De TD, Thomas T, Verma S, Singla D, Chauhan C, Srivastava V, Sharma P, Kumari S, Tevatiya S, Rani J, Hasija Y, Pandey KC, Dixit R: A synergistic transcriptional regulation of olfactory genes drives blood feeding associated complex behavioral responses in the mosquito Anopheles culicifacies Frontiers in Physiology 2018
9. De TD, Sharma P, Thomas T, Singla D, Tevatiya S, Kumari S, Chauhan C, Rani J, Srivastava V, Kaur R, Pandey KC, Dixit R: Interorgan Molecular Communication Strategies of" Local" and" Systemic" Innate Immune Response in Mosquito Anopheles stephensi Frontiers in Immunology 2018
10. IquebalMA, Tomar RS, Parakhia MV, Singla D, Jaiswal S, Rathod VM, S. Padhiyar M, Kumar N, Rai A and Kumar D: Draft whole genome sequence of groundnut stem rot fungus Athelia rolfsii revealing genetic architect of its pathogenicity and virulence Nature Scientific Report 2017
11. Iquebal MA, Soren KR, Gangwar P, Shanmugavadevel PS, Kumar A, Singla D, Jaiswal S, Jasrotia RS, Chaturvedi SK, Singh NP, Varshney RK, Rai A and Kumar D*: Discovery of putative herbicide resistance genes and its regulatory network in chickpea using transcriptome sequencing Front. Plant Sci. 2017
12. Dixit S and Singla D*: CAPi: Computational Model for Apicoplast Inhibitors Prediction Against Plasmodium Parasite Curr Comput Aided Drug Des. 2017.
13. Bishnoi R and Singla D*: APMicroDB: A microsatellite database of Acyrthosiphon pisum. Genomics Data 2017 12:11-15.
14. Singla D*: Whole genome analysis (WGA) of five pea aphids biotypes for the identification and classification of SNPs. Can J Biotech 2017, 1:214.
15. Singla D*: A Lesson from Unmapped Reads in Next-Generation Sequencing Data. SM Journal of Bioinformatics and Proteomics 2016 1(2).
16. Dhanda SK, Vir P, Singla D, Gupta S, Kumar S, Raghava GPS: A Web-Based Platform for Designing Vaccines against Existing and Emerging Strains of Mycobacterium tuberculosis. PlosOne 2016 11:4.
17. Kirys T, Ruvinsky AM, Singla D, Tuzikov AV, Kundrotas PJ and Vakser IA: Simulated unbound structures for benchmarking of protein docking in the DOCKGROUND resource. BMC Bioinformatics 2015 16:243.
18. Singh H, Singh S, Singla D, Agarwal SM, and Raghava G.P.S: QSAR based model for discriminating EGFR inhibitors and non-inhibitors using Random forest. Biology Direct 2015 10:10.
19. Sharma A, Singla D, Rashid M and Raghava G.P.S: Designing of peptides with desired half-life in intestine-like environment. BMC Bioinformatics 2014, 15(1): 282.
20. Chauhan JS, Dhanda SK, Singla D, Open Source Drug Discovery Consortium, Agarwal SM, Raghava G.P.S: QSAR-Based Models for Designing Quinazoline/
Imidazothiazoles/Pyrazolopyrimidines Based Inhibitors against Wild and Mutant EGFR. PLoS One 2014, 9(7).
21. Kumar R, Chaudhary K, Singla D, Gautam A and Raghava G.P.S: Designing of promiscuous inhibitors against pancreatic cancer cell lines. Sci Rep. 2014; 4: 4668
22. Mishra NK, Singla D, Agarwal S, and Raghava G.P.S: ToxiPred: A server for prediction of aqueous toxicity small chemical molecules against T. pyriformis. J. Trans. Toxicology 2014, 1(1): 21-27.
23. Dhanda SK, Singla D, Mondal AK, Raghava G.P.S.: DrugMint: A webserver for predicting and designing of drug-like molecules. Biology Direct 2013, 8:28.
24. Singla D, Tewari R, Kumar A, Open Source Drug Discovery Consortium, and Raghava G.P.S.: MDRIpred: Designing of inhibitors against drug tolerant Mycobacterium tuberculosis (H37Rv). Chemistry Central 2013, 7:49.
25. Singla D, Anurag M, Dass D, and Raghava G.P.S: GDoQ: A Webserver for Prediction of Inhibitors against GlmU Protein. BMC Pharmacology 2011, 11:5.
26. Singla D, Kaur J, Panwar B, Sharma A, and Raghava G.P.S: BIAdb: A database of Benzylisoquinoloine. BMC Pharmacology 2010, 10:4.
27. Rashid M, Singla D, Sharma A, Kumar M, and Raghava G.P.S: Hmrbase: a database of hormones and their receptors. BMC Genomics 2009, 10:307.
Review Articles
28. Singla D, Dhanda SK, Chauhan JS, Open Source Drug Discovery Consortium, and Raghava G.P.S. Open source software and web services for designing therapeutic molecules. Current Topics in Medicinal Chemistry 2013, 13(10): 1172-1191.
Book Chapters
29. Singla D* Bishnoi R, Dhanda SK, and Asthana S*: Drug transporters as therapeutic targets: Computational models, challenges, and future perspective. Soft computing for biological sciences 2018 Springer Publishers.

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