School of Computational and Integrative Sciences (SCIS),
Jawaharlal Nehru University, New Mehrauli Road, New Delhi 110067
2014-2018
MD
Biochemistry
All India Institute of Medical Sciences (AIIMS),
Ansari Nagar, New Delhi 110029
1999-2001
MBBS
Pre-&Para-/Medical/ Surgical subjects
University College of Medical Sciences (UCMS),
Dilshad Garden, New Delhi 110095
1992-1996
Memberships
1.
Society for Mathematical Biology (SMB): Life member (ID:36503496)
2.
European Society for Mathematical and Theoretical Biology (ESMTB) : Life member ID: 50143836
3.
Elected member Sigma Xi society ( Scientific Research Honors Society)
Award/recognition:
AIIMS excellence research award ( Certificate of commendation)
1.
2022
Kundu S#*. TemporalGSSA: a numerically robust R-wrapper to facilitate computation of a metabolite-specific and simulation time-dependent trajectory from stochastic simulation algorithm (SSA)-generated datasets. Jour Bioinf. Comp. Biol. 2022, 20(4):2250018. PMID: 35941839
Kundu S#*. Mathematical modeling and stochastic simulations suggest that low-affinity peptides can bisect MHC1-mediated export of high-affinity peptides into “early”- and “late”-phases. Heliyon. 2021, 7(7):e07466. PMID: 34286133
(Preprint) Kundu S#*. Construction, analysis and assessment of relevance of an algebraic model for a class of biochemical networks. (https://doi.org/10.1101/2024.03.07.583960)
Kundu S#*. A mathematically rigorous algorithm to define, compute and assess relevance of the probable dissociation constants in characterizing a biochemical network. Scientific Reports2024, 14. PMID: 38347039 [SCIR2024] (Additional Material).
2023
Kundu S#*. ReDirection: an R-package to compute the probability dissociation constant for every reaction of a user-defined biochemical network. Front Mol Biosci. 2023, 10. PMID: 37942290 [FMBI2023]. (Additional Material)
2022
1.Kundu S#*. Modeling ligand-macromolecular interactions as eigenvalue-based transition-state dissociation constants may offer insights into biochemical function of the resulting complexes. Math Biosci Eng. 2022, 19(12): 13252-275.[MBE2022] (Additional Material).
2.Kundu S#*. TemporalGSSA: a numerically robust R-wrapper to facilitate computation of a metabolite-specific and simulation time-dependent trajectory from stochastic simulation algorithm (SSA)-generated datasets. Jour Bioinf. Comp. Biol. 2022, 20(4):2250018. PMID: 35941839[JBCB2022] (Additional Material).)
2021
1. Kundu S#*. ProTG4: A Web Server to Approximate the Sequence of a Generic Protein From an in Silico Library of Translatable G-Quadruplex (TG4)-Mapped Peptides. Bioinform Biol Insights. 2021, Sep 28;15:11779322211045878. PMID: 34602814. [BBI2021] (Additional Material).
2. Kundu S#*.Mathematical modeling and stochastic simulations suggest that low-affinity peptides can bisect MHC1-mediated export of high-affinity peptides into “early”- and “late”-phases. Heliyon. 2021, 7(7):e07466. PMID:.34286133 [HYON2021] (Additional Material)
3. Kundu S#*.Fe(2)OG:An integrated HMM profile-based web server to predict and analyze putative non-haemiron(II)- and 2-oxoglutarate- dependent dioxygenase function in protein sequences. BMC Res Notes. 2021, 14(1):80. PMID: 33648553. [BMRN2021] (Additional Material).
2020
Kundu S#*. Mathematical model of a short translatable G-quadruplex and an assessment of its relevance to misfolding-induced proteostasis. Math Biosci Eng.2020, 17(3): 2470-2493. PMID: 32233549.[MBE2020](Additional Material)
2019
Kundu S#*. Insights into the mechanism(s) of digestion of crystalline cellulose by plant class C GH9 endoglucanases. J Mol Model. 2019 Jul 23;25(8):240. PMID: 31338614[JMM-2019](Additional Material)
2018
Kundu S#*. Mathematical basis of predicting dominant function in protein sequences by a generic HMM-ANN algorithm. ActaBiotheor. 2018 Jun;66(2):135-148. PMID: 29700659,32385619[ACBI2018](Additional Material)
Kundu S*, Sharma R*. Origin, evolution, and divergence of plant class C GH9 endoglucanases. BMC Evol. Biol. 2018 May 30;18(1):79. PMID: 29848310.[BMEB2018](Additional Material)
2017
Kundu S#*. Mathematical basis of improved protein subfamily classification by a HMM-based sequence filter. Math Biosci. 2017 Nov;293:75-80. doi:10.1016/j.mbs.2017.09.001. Epub 2017 Sep 13. PubMed PMID: 28916136. (Additional Material)
2016
Kundu S*, Sharma R*. In silico Identification and Taxonomic Distribution of Plant Class C GH9 Endoglucanases. Front Plant ci. 2016 Aug 12;7:1185. PMID: 27570528 [FPS2016](Additional Material).
Kundu S#*. Stochastic modelling suggests that an elevated superoxide anion-hydrogen peroxide ratio can drive extravascular phagocyte transmigration by lamellipodium formation. J Theor Biol. 2016 Oct 21;407:143-54. PMID: 27380944. (Additional Material).
2015
Kundu S#*. Co-operative intermolecular kinetics of 2-oxoglutarate dependent dioxygenases may be essential for system-level regulation of plant cell physiology. Front Plant Sci. 2015 Jul 15;6:489. PMID: 26236316.[FPS2015a](Additional Material).
Kundu S#*. Unity in diversity, a systems approach to regulating plant cellphysiology by 2-oxoglutarate-dependent dioxygenases. Front Plant Sci. 2015 Mar 11;6:98. PMID: 25814993 [FPS2015b](Additional Material)..
2012
Kundu S#*. Distribution and prediction of catalytic domains in 2-oxoglutarate dependent dioxygenases. BMC Res Notes. 2012 Aug 4;5:410. PMID: 22862831[BMRN2012](Additional Material).
2011
Kundu S*, Subodh S. Gradient sensing in vectorial chemotaxis – a novel role for Reactive Oxygen Species. International Journal of Trends in Medicine. 2011 1; 54-59. [IJTM2011]
2002
Singh N, Khanna N, Sharma H, Kundu S, Azmi S. Insights into the molecular mechanism of apoptosis induced by TNF-alpha in mouse epidermal JB6-derived RT-101cells. Biochem Biophys Res Commun. 2002 Jul 5;295(1):24-30. PMID:12083761. [BBRC2002]
(#) Single author; (*)Corresponding author
Positions held
Position
Subject/Work
University/Institution
Year
Associate Professor
Assistant Professor
Biochemistry
All India Institute of Medical Sciences (AIIMS), Ansari Nagar, New Delhi 110029
2023-2019-2023
Associate Professor
Biochemistry
Army College of Medical Sciences (ACMS), Brar Square, Delhi Cantt., New Delhi – 110010
2015-2018
Dr. Baba SahebAmbedkar Medical College and Hospital (BSAMCH), Govt. of NCT of Delhi, Rohini, Delhi 110085
2018-2019
Assistant Professor
Biochemistry
Army College of Medical Sciences (ACMS), Brar Square, Delhi Cantt.,New Delhi – 110010
2009-2014
Scientist ‘D’ (Medical)
Program Officer
Indian Council of Medical Research (ICMR), V. RamalingaswamiBhawan, Ansari Nagar, New Delhi 110029
07-10/2019
Senior Level Consultant
Program Director
Information Technology Research Academy (ITRA), Digital India Corporation (formerly Media Lab Asia), Ministry of Electronics and Information Technology, C-DOT campus, New Delhi 110030
2016-2017
Research Consultant
Computational Biology
India Research Labs (IRL) IBM
2002-2003
Research Associate/Fellow/Scientist
PostDoctoral work
International Center for Genetic Engineering and Biotechnology (ICGEB)
