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Publications

Year 2025

  • Dinesh Balasaheb Jadhav and Sougata Roy. Circadian Proteomics Reassesses the Temporal Regulation of Metabolic Rhythms by Chlamydomonas Clock. Plant, Cell & Environment, 2025; 1–17. https://doi.org/10.1111/pce.15354.

Year 2024

  • Nageswaran A, Mitra P, Rai M, Anand D, Pratap Y, Padmanabhan A ARP2/3 regulates cell surface dynamics of CeTOCA-1 in the C. elegans zygote. Journal of Biosciences (accepted)
  • Sharma I, Padmanabhan A Mechano-regulation of germline development, maintenance, and differentiation BBA Advances, Vol.6, 2024, 100127 (doi – 10.1016/j.bbadva.2024.100127)
  • Karve. Evolutionary novelties in bacteria and the missing backdrop of the environment. Environmental Microbiology. In revision.
  • Patil, A. Siji, D. Mallur, N. Gheewalla, S.Karve, M. Kavathekar, B. Tarai, M. Naik, B. S. Kruthika, V. Hegde, J. Rangineni, V. Gupta, V. Chandru, B. E. Pradeep, R. Arora. PathCrisp: An Innovative Molecular Diagnostic Tool for Early Detection of NDM-Resistant Infections. Scientific Reports. In revision.
  • Bijay Pattnaik, Sryma PB, Naveen Bhatraju, …, Anurag Agrawal, Randeep Guleria, Karan Madan (2024), Utility of microRNAs analysis in Exhaled Breath Condensate (EBC) of Sarcoidosis and Mediastinal Tuberculosis (TB) patients: A pilot study. ERJ Open Research 10(5):00078-2024.
  • Sarkar S, Shit B, Bose J, De S, Kawecki TJ, Khan I. Evolutionary history with chronic malnutrition enhances pathogen susceptibility at older ages. bioRxiv 2024. https://doi.org/10.1101/2024.10.04.616684
  • Seal S, Kumar D, Thunga P, Khangar P, Gupta M, Basu DN, Raychoudhury R, Khan I. Microbiota drives the sexually dimorphic infection outcomes in mealworm beetles. bioRxiv. https://doi.org/10.1101/2024.09.10.611485
  • Chandrakanth, M., Kumar, N., Sura, C., and Tung, S. Additive and context-dependent effects of developmental and adult diet on life-history traits and their associations in outbred Drosophila melanogaster population. bioRxiv 2024.09.18.613663; DOI: 1101/2024.09.18.613663
  • Ruchitha, B.G., Kumar, N., Sura, C., and Tung, S., 2024. Selection for greater dispersal in early life leads to increased rate of age-dependent decline in locomotor activity and shorter lifespan. Journal of Evolutionary Biology, voae097. DOI: 1093/jeb/voae097
  • Seal S, Basu DN, Ghosh K, Ramachandran A, Kutum R, Shelke T, Gupta I & Khan I (2024). Pathogen growth and virulence dynamics drive the host evolution against coinfections.https://www.biorxiv.org/content/10.1101/2024.05.01.592035v1.abstract
  • Bhattacharya A, Bhattacharya S, Mishra R. Current status of research in rare genetic disorders and drug discovery in India. J Biosci. 2024;49:39. PMID: 38384247.
  • Singh A., Thutupalli S. Kumar M., Ameta S.(2024) Constrained dynamics of oligonucleotides in phase-separated droplets. , 123, 1-9 https://doi.org/10.1016/j.bpj.2023.12.025
  • C Dilsha, Salima Shiju, Neel Ajay Shah, Mandar M. Inamdar, L S Shashidhara. Differences in Cellular mechanics and ECM dynamics shape differential development of wing and haltere in Drosophila. 2024. bioRxiv. https://doi.org/10.1101/2024.04.26.591286
  • Kacker, S., Krishna, S., Das, A., & Shahabuddin, G. (2024). Patterns of tree regeneration and their implications for succession in Himalayan pine-oak forests, India. Forest Ecology and Management, 562, 121941. (https://doi.org/10.1016/j.foreco.2024.121941)
  • Michael, D., Wolde, B., &Krishna, S. (2024). Impacts of reduced water availability on vegetative and reproductive traits of a Solanum species. Plant Species Biology (https://doi.org/10.1111/1442-1984.12452)
  • Subissi L, Otieno JR, Worp N, Attar Cohen H, Oude Munnink BB, Abu-Raddad LJ, …, Agrawal Aand Kerkhove M. An updated framework for SARS-CoV-2 variants reflects the unpredictability of viral evolution. Nature Medicine [ahead of print]. 2024 May 8; Available from: https://doi.org/10.1038/s41591-024-02949-0
  • Naghavi, M,…..Agrawal A,…Murray CJ. Global burden of 288 causes of death and life expectancy decomposition in 204 countries and territories and 811 subnational locations, 1990–2021: a systematic analysis for the Global Burden of Disease Study 2021. The Lancet [ahead of print]. 2024
  • Arvind, M., Pattnaik, B.,  Gheware, A.,  Prakash, Y. S.,  Srivastava, M.,  Agrawal, A., &  Bhatraju, N. K. (2024). Plausible role of INPP4A dysregulation in idiopathic pulmonary fibrosis. Physiological Reports, 12, e16032. https://doi.org/10.14814/phy2.16032
  • Garg KM, Dovih P, Chattopadhyay B. (2024) Hybrid de novogenome assembly of the sexually dimorphic Lady Amherst’s pheasant. DNA Research, 31(1):dsae001.
  • Garg KM, Gwee CY, Chattopadhyay B, Ng NS, Prawiradilaga DM, David G, Fuchs J, Le Manh H, Martinez J, Olsson U, Tu VT, Chinn S, Alström P, Lei F, Rheind FE. (2024) When colors mislead: Genomics and bioacoustics prompt re-classification of Asian flycatcher radiation (Aves: Niltavinae). Molecular Phylogenetics and Evolution, 93:107999.
  • Lamba V, Herlekar I, Chatterjee D, Patel K, Garg KM, Chattopadhyay B. 2024. Signature of viral fossils: a comparative genomics approach to understand the diversity of endogenous retroviruses in bat. Virus Research, 350, 199484.
  • Luo W, Tang Q, Chattopadhyay B, Garg KM, Rheindt FE, Wee AKS. 2024. The last stand: demographic and population genomic analysis reveals terminal endangerment in tropical timber species Vatica guangxiensis. Conservation Letters, 17:e13036.
  • Khan A, Sil M, Thekaekara T, Garg KM, Sinha I, Khurana R, Sukumar R, Ramakrishnan U. Divergence and serial colonization shape genetic variation and define conservation units in Asian elephants. Current Biology, 34, 1–12. 1016/j.cub.2024.08.062
  • Karjee R, Iyer V, Chatterjee D, Ray R, Garg KM, Chattopadhyay B. Tropical island endemic birds’ demographic responses to climate are modulated by habitat availability and species traits. bioRxiv, https://www.biorxiv.org/content/10.1101/2024.11.14.623644v1.full.pdf
  • Singh, A. and Tung, S., 2024. Comparison of six methods for stabilizing metapopulation dynamics and for their robustness against census noise. bioRxiv04.578847; DOI: 10.1101/2024.02.04.578847
  • Catherine Lawson, Andriy Kryshtafovych, Grigore Pintilie et al. Outcomes of the EMDataResource Cryo-EM Ligand Modeling Challenge, 24 January 2024, PREPRINT (Version 1) available at Research Square [https://doi.org/10.21203/rs.3.rs-3864137/v1]
  • Prakash A, Fenner F, Shit B, Salminen TS, Monteith KM, Khan I& Vale P (In press). IMD-mediated innate immune priming increases Drosophila survival and reduces pathogen transmission. PLOS Pathogens (online preprint)
  • Shivansh Singhal, Chhavi Choudhary, Dipendra Nath Basu, Srijan Seal, Imroze Khan, Jayendra Nath Shukla, Deepa Agashe. Genome assembly and annotation of the red flour beetle (Tribolium castaneum)from India (online preprint)
  • Ruchitha, B.G., Kumar, D., Chandrakanth, M., Farooq, I., Kumar, N., Sura, C., Chetan, S. and Tung, S., 2024. Effect of developmental and adult diet composition on reproductive aging in Drosophila melanogaster. Experimental Gerontology 194, 112501. https://doi.org/10.1016/j.exger.2024.112501
  • Lawson, C.L., Kryshtafovych, A., Pintilie, G.D. et al. Outcomes of the EMDataResource cryo-EM Ligand Modeling Challenge. Nat Methods 21, 1340–1348 (2024). https://doi.org/10.1038/s41592-024-02321-7
  • Manjima Das, Vivek Kumar, Rishav Madhukalya, Rohit Gupta, Vidushi Agarwal, Shweta Choudhary, Mandar Bhutkar, Shailly Tomar, Dilip Kumar*, Rajesh Kumar*. Purification and Characterization of Kyasanur Forest Disease Virus EDIII domain of major Envelope Glycoprotein. Journal of Virological Methods (Accepted).
  • Schwinger C, Kaldenbach S, Berkley JA, Walson JL, Argaw A, Chowdhury R, Strand TA, Rollins N & WHO Risk Stratification Working Group (WHO-RSWG). Cohort profile: the WHO Child Mortality Risk Stratification Multi-Country Pooled Cohort (WHO-CMRS) to identify predictors of mortality through early childhood. BMJ Open. 2024 Nov 28;14(11):e085164. doi: 10.1136/bmjopen-2024-085164.PMID: 39613436 (please note that I, Trilok kumar geeta am a part of the risk stratification group,WHO who are all coauthors)
  • Gusain Y, Malik A, Filteau S, Pathak R, Sachdev HS, Trilok-Kumar G. Markers of chronic disease risk in term low birthweight Indian children aged 8-14 years. Front Pediatr. 2024 Aug 29;12:1339808. doi: 10.3389/fped.2024.1339808. eCollection 2024.PMID: 39268361
  • Joliffe DA…………Trilok-Kumar G, et al. Vitamin D supplementation to prevent acute respiratory infections: systematic review and meta-analysis of stratified aggregate data. The Lancet Diabetes & Endocrinology(accepted)
  • Aghi K., Anderson B. M., Castellano B. M., Cunningham A., Delano M., Dickinson E. S., von Diezmann L., Forslund-Startceva S. K., Grijseels D. M., Groh S. S., Guthman E. M., Jayasinghe I., Johnston J., Long S., McLaughlin J. F, McLaughlin M, Miyagi M., Rajaraman B., Sancheznieto F., Scheim A. I., Sun S. E. D, Titmuss F. D., Walsh R. J., Weinberg Z. Y. Rigorous science demands support of transgender scientists. Cell. 2024 Mar 14;187(6):1327-1334. doi: 10.1016/j.cell.2024.02.021. PMID: 38490174.
  • Weissman J. L., Chappell C. R., Francesco Rodrigues de Oliveira B., Evans N., Fagre A. C., Forsythe D., Frese S. A., Gregor R., Ishaq S. L, .Johnston J., Bittu K. R., Matsuda S. B., McCarren S.,  Alvarez de la Campa M. O.,  Roepke T. A., Sinnott-Armstrong N. Stobie C. S., Talluto L., Vargas-Muñiz J. M., The Advancing Queer and Trans Equity in Science (AQTES) Consortium. (2024) Queer- and trans-inclusive faculty hiring—A call for change. PLoS Biol 22(11): e3002919. https://doi.org/10.1371/journal.pbio.3002919
  • Singh A., Kalra S., Kumari K., Pal S. and Rajaraman B.K. 2024. Decoy effect in shoaling decision making in zebrafish (Danio rerio). Uploaded at https://www.biorxiv.org/content/10.1101/2022.08.31.506011v1 and under submission to journals.
  • Ghosh A., Dasoju V., Borgohain J., Rahman A. and Rajaraman B. K. 2024. Syntopic call diversity among morphologically similar calling morphs of the paleotropical katydid of genus Mecopoda (Tettigoniidae) from an Indo-Burma biodiversity hotspot. Submitted to Bioacoustics – the International Journal of Animal Sound and its Recording and uploaded at https://www.biorxiv.org/content/10.1101/2024.11.20.624612v1
  • Ghosh A., Middha P., Rao A. M., Rai S., and Rajaraman B. K. 2024. Social isolation reduces metabolic rate and social preference in Wild-type Zebrafish (Danio rerio). Submitted to Etholgy Ecology and Evolution and uploaded at https://www.biorxiv.org/content/10.1101/2024.11.22.624675v1
  • Kunte K., Basu D.N. Two new taxa of brush-footed butterflies (Lepidoptera: Nymphalidae) from the Western Ghats biodiversity hotspot, southern India. Zootaxa, 5543 (3): 343–367. DOI: https://doi.org/10.11646/zootaxa.5543.3.3
  • Aabeer Basu and Laasya Samhita*, Context-dependent fitness benefits of antibiotic resistance mutations, Proceedings of the Royal Society B, 2024, doi
  • Jyotsna Karan, Sreya Mandal, Gulafsha Khan, Harshit Arya and Laasya Samhita*, Enhanced extraction of low molecular weight DNA from wastewater for comprehensive assessment of antimicrobial resistance, JoVE, 2024, doi
  • Singh, Nishant, Raman Kaushik, Anubhav Prakash, Surjit Singh Saini, Sonal Garg, Adrija Adhikary, and Raj K. Ladher. “Mosaic Atoh1 deletion in the chick auditory epithelium reveals a homeostatic mechanism to restore hair cell number.” Developmental Biology 516 (2024): 35-46.
  • Prakash, Anubhav, Sukanya Raman, Raman Kaushik, Anton S. Iyer, and Raj K. Ladher. “Mechanical coupling of compartments drives polarity and patterning of mouse auditory epithelium.” bioRxiv
  • Raman Kaushik, Shivangi Pandey, Anubhav Prakash, Takaya Abe, Hiroshi Kiyonari, Raj K. Ladher. “Role Of Pcdh15 In The Development Of Intrinsic Polarity Of Inner Ear Hair Cells” bioRxiv

Year 2023

  • Lakhiani R, Shanavas S, and Melnattur K (2023). Comparative biology of sleep in diverse animals. Journal of Experimental Biology. https://doi.org/10.1242/jeb.245677
  • Soumen Khan, Saurabh J. Pradhan, Guillaume Giraud, Françoise Bleicher, Rachel Paul, Samir Merabet and S. Shashidhara (2023). A Micro-evolutionary Change in Target Binding Sites as a Key Determinant of Ultrabithorax Function in Drosophila. Journal of Molecular Evolution. https://doi.org/10.1007/s00239-023-10123-2
  • Prakash A, Agashe D & Khan I (2023). Disruption of flour beetle microbiota limits experimentally evolved immune priming response, but not pathogen resistance. Journal of Evolutionary Biology. https://doi.org/10.1111/jeb.14213
  • Prakash A, Fenner F, Shit B, Salminen TS, Monteith KM, Khan I & Vale P. The immune regulation and epidemiological consequences of immune priming in fruit flies. bioRxiv: https://doi.org/10.1101/2023.02.22.529244
  • Sengupta U and Krishna S (2023) More is not always better: Impact of nutrient-addition on floral traits important for buzz pollination. Acta Oecologica. https://doi.org/10.1016/j.actao.2023.103957
  • Vijayasarathy M, Kumar S, Das R, Balaram P (2023). Cysteine-free cone snail venom peptides: Classification of precursor proteins and identification of mature peptides. J Pept Sci. https://doi.org/10.1002/psc.3554
  • Ballut L, Violot S, Kumar S, Aghajari N, Balaram H (2023). GMP Synthetase: Allostery, Structure, and Function. https://doi.org/10.3390/biom13091379
  • Singh G, Kumar S, Das R (2023). Decoding the Assembly of Mixed and Branched Heterotypic Ubiquitin Chains. Anal Chem. https://doi.org/10.1021/acs.analchem.3c01425
  • Mudunuri, A., Chandrakanth, M., Khan, S., Kumar, N., Sura, C., and Tung, S., 2024. Diet-induced plasticity of life-history traits and gene expression in outbred Drosophila melanogaster population. Ecology & Evolution, 14(2):e10976. DOI: 10.1002/ece3.10976.
  • Singh, A. and Tung, S., 2024. Comparison of six methods for stabilizing metapopulation dynamics and for their robustness against census noise. bioRxiv 02.04.578847; DOI: 10.1101/2024.02.04.578847
  • Sougata Roy*, Sudeep Roy, Bidesh Mahata, Jhuma Pramanik, Marco L. Hennrich, Anne-Claude Gavin, Sarah A. Teichmann. 2023. CLICK-chemoproteomics and molecular dynamics simulation reveals pregnenolone targets and their binding conformations in Th2 cells. Immunol., Volume 14, https://doi.org/10.3389/fimmu.2023.1229703
  • Dinesh Balasaheb Jadhav and Sougata Roy*. Circadian proteomics reveal rampant tuning of post-transcriptional apparatus by Chlamydomonas clock. bioRxiv.550970; https://doi.org/10.1101/2023.07.28.550970
  • Gheewalla, J. Jagannadham, R. Kutum & S. Karve. India needs more whole-genome sequencing of diverse priority pathogens for effective study and surveillance of antimicrobial resistance. bioRxiv. https://biorxiv.org/cgi/content/short/2023.11.23.568416v1
  • Ghosh A., Jaiswara R., Moonal, Sabhwarwa S., Dasoju V., Bhattarcharjee A. and Rajaraman B. K. 2023. Description of three new species of predatory Genus Hexacentrus (Orthoptera: Tettigoniidae) from India, with bioacoustic and morphological characterizations. Zootaxa, 5249(3), 335–356. https://doi.org/10.11646/zootaxa.5249.3.2 Impact factor 1.09
  • Raman, D., & Rajaraman, B. K. Self-efficacy assessment hinders improvement on a deliberate cricket bowling practice task. Frontiers in Psychology, 14 – 2023, | https://doi.org/10.3389/fpsyg.2023.1214767
  • Trilok-Kumar G, Malik A, Gusain Y, Millerot E, Pathak R, Filteau S. Dietary patterns of Indian school-aged children and associations with markers of chronic disease risk. Food Sci Nutr. 2023;00:1-10
  • Middlekoop, K, Stewart J, …..Trilok-Kumar G…et al. Vitamin D supplementation to prevent tuberculosis infection in South African schoolchildren: multicentre phase 3 double-blind randomised placebo-controlled trial (ViDiKids). Int J Infect Dis 2023 19;S1201-9712(23)00562-3. doi: 10.1016/j.ijid.2023.05.010
  • Shin YH, Hwang J, Kwon R, Lee SW, Kim MS, Shin JI, et al. Global, regional, and national burden of allergic disorders and their risk factors in 204 countries and territories, from 1990 to 2019: A systematic analysis for the Global Burden of Disease Study 2019. Allergy. 2023 Aug;78(8):2232–54.
  • Global, regional, and national incidence of six major immune-mediated inflammatory diseases: findings from the global burden of disease study 2019. EClinicalMedicine. 2023 Oct;64:102193.
  • Agrawal A. Laying an equitable data foundation for foundation models. Lancet Reg Health Southeast Asia. 2023 Jun;13:100221.
  • Agrawal A, Kickbusch I, Medhora R, Ndili N, Holly L. Making digital transformations work for health: introducing a new consortium to take forward recommendations from the Lancet and Financial Times Commission. Lancet.2023 Oct 11;S0140-6736(23)02041-X.
  • Pattnaik B, Negi V, Chaudhuri R, Desiraju K, Faizan MI, Akhtar A, et al. MiR-326-mediated overexpression of NFIB offsets TGF-beta induced epithelial to mesenchymal transition and reverses lung fibrosis. Cell Mol Life Sci. 2023 Nov 11;80(12):357.
  • Bhakta NR, Bime C, Kaminsky DA, McCormack MC, Thakur N, Stanojevic S, et al. Race and Ethnicity in Pulmonary Function Test Interpretation: An Official American Thoracic Society Statement. Am J Respir Crit Care Med. 2023 Apr 15;207(8):978–95.
  • Christopher DJ, Oommen AM, George K, Premkumar PS, Shankar D, Agrawal A, et al. Rural South Indian spirometry values show wide variation compared to existing prediction equations. Lung India. 2023 Jun;40(3):193–9.
  • Worp N, Subissi L, Perkins MD, Van Kerkhove MD, Agrawal A, Chand M, et al. Towards the development of a SARS-CoV-2 variant risk assessment tool: expert consultation on the assessment of scientific evidence on emerging variants. Lancet Microbe. 2023 Oct;4(10):e830–6.
  • Garg KM, Lamba V, Chattopadhyay B. Genomic Insights Into the Evolution and Demographic History of the SARS-CoV-2 Omicron Variant: Population Genomics Approach. JMIR Bioinformatics and Biotechnology. 2023 Jun 12;4(1):e40673.
  • Debodyuti Mondal, Megha Rai, Anup Padmanabhan Cortical F-actin filament organization corrals E-cadherin/ HMR-1 during cytokinetic furrow ingression in elegans embryos 2023. bioRxiv. https://www.biorxiv.org/content/10.1101/2023.12.07.570732v1
  • Hui Zhen Tan, Justin JFJ Jansen, Gary A Allport, Kritika M Garg, Balaji Chattopadhyay, Martin Irestedt, Sean EH Pang, Glen Chilton, Chyi Yin Gwee, Frank E Rheindt (2023) Megafaunal extinctions, not climate change, may explain Holocene genetic diversity declines in Numenius shorebirds eLife 12:e85422
  • Garg KM, Lamba V, Sanyal A, Dovih P, Chattopadhyay B. Next Generation Sequencing Revolutionizes Organismal Biology Research in Bats. J Mol Evol. 2023 Aug;91(4):391-404. doi: 10.1007/s00239-023-10107-2. Epub 2023 May 8. PMID: 37154841
  • Ameta S, Kumar M, Chakraborty N, Matsubara YJ, S P, Gandavadi D, Thutupalli S. Multispecies autocatalytic RNA reaction networks in coacervates. Commun Chem. 2023 May 8;6(1):91. doi: 10.1038/s42004-023-00887-5. PMID: 37156998
  • Gowri Sankar S, Alwin Prem Anand A, Chattopadhyay B. Editorial: Trends in dengue evolution, immune pathogenesis, and pathology. Front Cell Infect Microbiol. 2023 May 25; 13:1210316. doi: 10.3389/fcimb.2023.1210316. eCollection 2023. PMID: 37305420
  • Christopher DJ, Oommen AM, George K, Premkumar PS, Shankar D, Agrawal A, Thangakunam B. Rural South Indian spirometry values show wide variation compared to existing prediction equations. Lung India. 2023 May-Jun;40(3):193-199. doi: 10.4103/lungindia.lungindia_336_22. PMID: 37148014
  • Gill AL, Hudson WH, Valanparambil RM, Ahn E, McGuire DJ, Wieland A, McManus DT, Kissick HT, Akondy RS, Ahmed R. Longitudinal Analysis of the Phenotype, Transcriptional Profile, and Anatomic Location of Memory CD8 T Cell Subsets after Acute Viral Infection. J Virol. 2023 Jan 31;97(1):e0155622. doi: 10.1128/jvi.01556-22. Epub 2022 Dec 21. PMID: 36541799
  • Agrawal A. Laying an equitable data foundation for foundation models. Lancet Reg Health Southeast Asia. 2023 Jun 12; 13:100221. doi: 10.1016/j.lansea.2023.100221. eCollection 2023 Jun. PMID: 37383558
  • Middelkoop K, Stewart J, Walker N, Delport C, Jolliffe DA, Coussens AK, Nuttall J, Tang JCY, Fraser WD, Griffiths CJ, Kumar GT, Filteau S, Hooper RL, Wilkinson RJ, Bekker LG, Martineau AR. Vitamin D supplementation to prevent tuberculosis infection in South African schoolchildren: multicenter phase 3 double-blind randomized placebo-controlled trial (ViDiKids). Int J Infect Dis. 2023 May 20;134:63-70. doi: 10.1016/j.ijid.2023.05.010. Online ahead of print. PMID: 37211272
  • Chakraborty S, Haldar S. Single-molecule covalent magnetic tweezers. Trends Biochem Sci. 2023 May 26: S0968-0004(23)00126-3. doi: 10.1016/j.tibs.2023.05.002. Online ahead of print. PMID: 37246021
  • Joshi S, et al. Proceedings of the 3rd Indian Cancer Genome Atlas Conference 2022: Biobanking to Omics: Collecting the Global Experience. JCO Glob Oncol. 2023 Jan; 9: e2200176. doi: 10.1200/GO.22.00176. PMID: 36657087
  • Nivedita D, et al. A tale of two waves: Delineating diverse genomic and transmission landscapes driving the COVID-19 pandemic in Pune, India. J Infect Public Health. 2023 Aug;16(8):1290-1300. doi: 10.1016/j.jiph.2023.06.004. Epub 2023 Jun 9. PMID: 37331277
  • Khan S, Pradhan SJ, Giraud G, Bleicher F, Paul R, Merabet S, Shashidhara LS. A Micro-evolutionary Change in Target Binding Sites as a Key Determinant of Ultrabithorax Function in Drosophila. J Mol Evol. 2023 Jun 21. doi: 10.1007/s00239-023-10123-2. Online ahead of print. PMID: 37341745
  • Shashidhara LS, Joshi A. Not teaching evolution is an injustice. Science. 2023 Jun 30; 380 (6652) :1303. doi: 10.1126/science. adj3557. Epub 2023 Jun 29. PMID: 37384710
  • Ghosh A., Jaiswara R., Moonal, Sabhwarwa S., Dasoju V., Bhattarcharjee A. and Rajaraman B. K. 2023. Description of three new species of predatory Genus Hexacentrus (Orthoptera: Tettigoniidae) from India, with bioacoustic and morphological characterizations. Zootaxa, 5249(3), 335–356. https://doi.org/10.11646/zootaxa.5249.3.2
  • Asokan et al. (2023). Interim results from comparison of immune responses elicited by an inactivated and a vectored SARS-CoV-2 vaccine in seronegative and seropositive participants in India. MedRxiv 10.1101/2023.01.03.22284082; https://medrxiv.org/cgi/content/short/2023.01.03.22284082v1.
  • Iyer LR, Chandel N, Verma AK, Thakur V, Paul J, Mandal AK, Bhattacharya A. Effect of Entamoeba histolytica infection on gut microbial diversity and composition in diarrheal patients from New Delhi. Parasitol Res. 2023 Jan;122(1):285-298. doi: 10.1007/s00436-022-07728-9. Epub 2022 Nov 18. PMID: 36399171.
  • Melnattur, K. (2023). Sleep, Ageing, and Cognitive Decline. In: Jagota, A. (eds) Sleep and Clocks in Aging and Longevity. Healthy Ageing and Longevity, vol 18. Springer, Cham. https://doi.org/10.1007/978-3-031-22468-3_9
  • Garg KM, Chattopadhyay B, Paramanatha Swami Doss D, Vinoth Kumar AK, Kandula S. Bat Societies across Habitat Types: Insights from a Commonly Occurring Fruit Bat Cynopterus sphinx. InUrban Bats: Biology, Ecology, and Human Dimensions 2023 Jan 3 (pp. 61-71). Cham: Springer International Publishing.
  • Chattopadhyay B, Garg KM, Ray R, Mendenhall IH, Rheindt FE. Genetic Impoverishment in the Anthropocene: A Tale from Bats. InUrban Bats: Biology, Ecology, and Human Dimensions 2023 Jan 3 (pp. 19-31). Cham: Springer International Publishing.
  • Ng EY, Li S, Zhang D, Garg KM, Song G, Martinez J, Hung LM, Tu VT, Fuchs J, Dong L, Olsson U. Genome‐wide SNPs confirm plumage polymorphism and hybridisation within a Cyornis flycatcher species complex. Zoologica Scripta. 2023 Jan;52(1):1-6.
  • Holly L, Wong BLH, van Kessel R, Awah I, Agrawal A, Ndili N. Optimising adolescent wellbeing in a digital age. bmj. 2023;380
  • Kalra A, Jose AP, Prabhakaran P, Kumar A, Agrawal A, Roy A, et al. The burgeoning cardiovascular disease epidemic in Indians–perspectives on contextual factors and potential solutions. The Lancet Regional Health-Southeast Asia. 2023
  • Salvi S, Ghorpade D, Vanjare N, Madas S, Agrawal A. Interpreting lung oscillometry results: Z-scores or fixed cut-off values? ERJ Open Research. 2023;9
  • Vadala R, Pattnaik B, Bangaru S, Rai D, Tak J, Kashyap S, et al. A review on electronic nose for diagnosis and monitoring treatment response in lung cancer. Journal of Breath Research. 2023;
  • Banerjee, S., Chowdhury, D., Chakraborty, S. and Haldar, S.* (2023) “Force-regulated chaperone activity of BiP/ERdj3 is opposite to their homologs DnaK/DnaJ: explained by strain energy” (under review); https://www.biorxiv.org/content/10.1101/2023.03.16.532907v1
  • Reshma Maiya, Swagata Dey, Krishanu Ray and Gautam I. Menon. The interplay of active and passive mechanisms in slow axonal transport. Biophys J., (2023); https://doi.org/10.1016/j.bpj.2022.12.011
  • Swati Agarwala, Mayank Saini, Danitra Parker, Kasturi Mitra* Enrichment of carcinogen-driven “mitochondria-primed” human skin stem cells and their identification using single-cell analyses. STAR Protocols, Volume 4, Issue 3, 2023, 102545, ISSN 2666-1667, https://doi.org/10.1016/j.xpro.2023.102545.
  • Swati Agarwala, Shukhamay Dhabal and Kasturi Mitra*. Significance of quantitative analyses of the impact of heterogeneity in mitochondrial content and shape on cell differentiation. Open Biology (RSOB); in Press
  • Mariame S Kane 1 , Gloria A Benavides, Edie Osuma, Michelle Johnson, Helen E Collins, Yecheng He,David Westbrook, Silvio H Litovsky 1 , Kasturi Mitra , John C Chatham, Victor Darley-Usmar, Martin E Young,* and Jianhua Zhang*. The Interplay between Sex, Time of day, Fasting Status, and their Impact on Cardiac Mitochondrial Structure, Function, and Dynamics. Scientific Reports; in Press.
  • Agarwal, K., Choudhury, B., Robinson, L.S., Morrill, S.R., Bouchibiti, Y., Fuentes, D.C., Rosenthal, S.B., Fisch, K.M., Peipert, J.F., Lebrilla, C.B., Allworth, J.E., Lewis, A.L., Lewis, W.G. (2023). Resident microbes shape the vaginal epithelial glycan landscape. Science Translational Medicine, 724, doi: 10.1126/scitranslmed.abp959.
  • Iyer LR, Chandel N, Verma AK, Thakur V, Paul J, Mandal AK, Bhattacharya A.Effect of Entamoeba histolytica infection on gut microbial diversity and composition in diarrheal patients from New Delhi. Parasitol Res. 2023 Jan;122(1):285-298. doi: 10.1007/s00436-022-07728-9. Epub 2022 Nov 18. PMID: 36399171.
  • Mazumder M, Kumar S, Kumar D, Bhattacharya A, Gourinath S. Machine learning-based modulation of Ca2+-binding affinity in EF-hand proteins and comparative structural insights into site-specific cooperative binding. Int J Biol Macromol. 2023 Sep 1;248:125866. doi: 0.1016/j.ijbiomac.2023.125866. Epub 2023 Jul 19. PMID: 37473887.

  • Sudha Bhattacharya. Episomal and chromosomal DNA replication and recombination in Entamoeba histolytica, 2023, Front Mol Biosci. 2023, Jun 8:10:1212082. doi: 10.3389/fmolb.2023.1212082.

Year 2022

  • Karve* & A. Wagner. Environmental complexity is more important than mutation in driving the evolution of latent novel traits in E. coli. Nature communications 13.1 (2022): 1-12. (* co-corresponding author)
  • Karve, P. Dasmeh, J. Zheng & A. Wagner. Low protein expression enhances phenotypic evolvability by intensifying selection on folding stability. Nature Ecology & Evolution 6.8 (2022): 1155-1164.
  • Ruchitha, B.G., Kumar, N., Sura, C., and Tung, S., 2022. Selection for greater dispersal in early life leads to increased rate of age-dependent decline in locomotor activity and shorter lifespan. bioRxiv. DOI: 10.1101/2022.07.03.498422
  • Vaid et al. (2022). Evaluation of tumor‑infiltrating lymphocytes (TILs) in molecular subtypes of an Indian cohort of breast cancer patients. Diagnostics Pathology. https://doi.org/10.1186/s13000-022-01271-y. (MedRxiv. doi: https://doi.org/10.1101/2020.08.19.20177865.)
  • Nivedita et al. (2022). A Tale of Two Waves: Diverse Genomic and Transmission Landscapes Over 15 Months of the COVID-19 Pandemic in Pune, India. MedRxiv https://www.medrxiv.org/content/10.1101/2022.11.05.22281203v1.
  • Koppiker at al. (2022). “3rd ICGA Conference 2022 ‘Biobanking to Omics – Collecting the Global Experience. JCO Globoal Oncology (in press).
  • Mave et al. (2022). Association of national and regional lockdowns with COVID-19 infection rates in Pune, India. Scientific Reports 12, Article number: 10446. https://www.nature.com/articles/s41598-022-14674-0. 
  • Subissi L, von Gottberg A, Thukral L, Worp N, Oude Munnink BB, Rathore S, et al. An early warning system for emerging SARS-CoV-2 variants. Nat Med. 2022 Jun;28(6):1110–5
  • Lazarus JV, Romero D, Kopka CJ, Karim SA, Abu-Raddad LJ, Almeida G, et al. A multinational Delphi consensus to end the COVID-19 public health threat. Nature. 2022 Nov;611(7935):332–45
  • Frostad JJ, Nguyen QP, Baumann MM, Blacker BF, Marczak LB, Deshpande A, et al. Mapping development and health effects of cooking with solid fuels in low-income and middle-income countries, 2000–18: a geospatial modelling study. The Lancet Global Health. 2022;10(10):e1395–411
  • Tan YR, Agrawal A, Matsoso MP, Katz R, Davis SL, Winkler AS, et al. A call for citizen science in pandemic preparedness and response: beyond data collection. BMJ global health. 2022;7(6):e009389
  • Dhiraj Kumar Hazra, Bhalchandra S Pujari, Snehal M Shekatkar, Farhina Mozaffer, Sitabhra Sinha, Vishwesha Guttal, Pinaki Chaudhuri, Gautam I Menon. Modelling the first wave of COVID-19 in India. PLoS Comput. Biol. 18(10): e1010632 (2022).
  • Farhina Mozaffer, Philip Cherian, Sandeep Krishna, Brian Wahl and Gautam I Menon. School Reopenings, Hybrid Immunity, and the Impact of the Omicron variant in India. The Lancet Regional Health-Southeast Asia (2022): 100095. https://doi.org/10.1016/j.lansea.2022.100095
  • Farhina Mozaffer, Gautam I. Menon and Farah Ishtiaq. Exploring the thermal limits of malaria transmission in the western Himalaya. Ecology and Evolution, 12, e9278 (2022); https://doi.org/10.1002/ece3.9278
  • Neha Paddillaya, Kalyani Ingale, Chaitanya Gaikwad, Deepak Kumar Saini, Pramod Pullarkat, Paturu Kondaiah, Gautam I. Menon, Namrata Gundiah. Cell adhesion strength and tractions are mechano-diagnostic features of cellular invasiveness. Soft Matter, DOI: 10.1039/d2sm00015f, (2022).
  • P. Varuni, Shakti N. Menon and Gautam I Menon. Phototactic cyanobacteria as an active matter system. Ind. J. Phys., May 2022; https://doi.org/10.1007/s12648-022-02371-7
  • Siva Athreya,  Gautam I Menon and Rajesh Sundaresan. COVID-19 Modelling for India and a Road-Map for the future. Communications of the ACM 65, 1,  82 (2022).
  • Singh SS, Mansuri MS, Naiyer S, Kaur D, Agrahari M, Srinivasan S, Jhingan GD, Bhattacharya A, Bhattacharya S. Multi-omics analysis to characterize molecular adaptation of Entamoeba histolytica during serum stress. Proteomics. 2022 Nov;22(22):e2200148. doi: 10.1002/pmic.202200148. Epub 2022 Sep 13. PMID: 36066285.
  • Naiyer S, Singh SS, Kaur D, Mukherjee A, Singh YP, Bhattacharya A, Bhattacharya S. Transcriptomic analysis of ribosome biogenesis and pre-rRNA processing during growth stress in Entamoeba histolytica. Exp Parasitol. 2022 Aug;239:108308. doi: 10.1016/j.exppara.2022.108308. Epub 2022 Jun 17. PMID: 35718007.
  • Sharma S, Chanana P, Bharadwaj R, Bhattacharya S, Arya R. Functional characterization of GNE mutations prevalent in Asian subjects with GNE myopathy, an ultra-rare neuromuscular disorder. Biochimie. 2022 Aug;199:36-45. Doi: 10.1016/j.biochi.2022.03.014. Epub 2022 Apr 7. PMID: 35398442.
  • Awasthi K, Bhattacharya S, Bhattacharya A. Tissue-specific isoform expression of GNE gene in human tissues. J Muscle Res Cell Motil. 2022 Jun;43(2):49-61. doi: 10.1007/s10974-022-09618-0. Epub 2022 May 7. PMID: 35524895.
  • Kaur D, Agrahari M, Bhattacharya A, Bhattacharya S. The non-LTR retrotransposons of Entamoeba histolytica: genomic organization and biology. Mol Genet Genomics. 2022 Jan;297(1):1-18. doi: 10.1007/s00438-021-01843-5. Epub 2022 Jan 9. PMID: 34999963.
  • Shankar P., Rajaraman B. K., Shaikh A., Patel P, Nannapaneni A., Sharma S, Sharma R., Sarkar A., Pemde H. 2022. Decolonizing gender in India. The Lancet Global Health (10(2):e173-e174).
  • Majeed N. A., Singh D., Gopal A.B., Battiwala T., Kulshreshtha N., Mishra R., Sabharwal S., Behera M., Sahu M., Menon A., Bungsut L., Walia A., Saraf R., Mathew S., Shah A., Kochhar S., Salar N., Thakuri S., Dasgupta D., Prakash P., Ghosh A., Agarwal V., Pal S., Nagpal P., Mishra N., Sahani K., Lakhiani R., Shanavas S., Sharma Y., Rampuria N., Bhattacharjee A., Wagh N., Hegde S., Bulhan I., Singh G., Rajaraman B. K. 2022. Non-abstract symbolic representation of reward quantity in wild zebrafish (Danio rerio). https://biorxiv.org/cgi/content/short/2022.03.17.484678v1.
  • Singh A., Kumari K. and Rajaraman B.K. 2022. Violation of rationality in shoaling decision making in zebrafish (Danio rerio). https://www.biorxiv.org/content/10.1101/2022.08.31.506011v1.
  • Laasya Samhita* Re-reading the genetic code: the evolutionary potential of frameshifting in time, Journal of Biosciences, July 2022.
  • The enigmatic clock of dinoflagellates, is it unique? Dinesh Balasaheb Jadhav, Yoshita Sriramkumar, Sougata Roy. Oct. 2022. Frontiers in Microbiology. 19;13:1004074. doi: 10.3389/fmicb.2022.1004074.
  • Sanyal A, Agarwal S, Ramakrishnan U, Garg KM, Chattopadhyay B. Using environmental sampling to enable zoonotic pandemic preparedness. Journal of the Indian Institute of Science. 2022 Apr;102(2):711-30.
  • Garg KM, Chattopadhyay B, Cros E, Tomassi S, Benedick S, Edwards DP, Rheindt FE. Island biogeography revisited: museomics reveals affinities of shelf island birds determined by bathymetry and paleo-rivers, not by distance to mainland. Molecular Biology and Evolution. 2022 Jan;39(1):msab340.
  • Shit B, Prakash A*, Sarkar S, Vale P, Khan I *. Ageing leads to nonspecific antimicrobial peptide responses in Drosophila melanogaster. Proceedings of the Royal Society B. 289, 20221642 (online access)
  • Krishna, S., Jos, E. & Somanathan, H. (2022). The adaptive function of touch-sensitive stigmas. Plant Ecology (https://doi.org/10.1007/s11258-022-01281-2)
  • Jaiswal, S., Aneja, B., Jagannadham, J., Pandey, B., Chhokar, R.S., Gill, S.C., Ahlawat, O.P., Kumar, A., Angadi, U.B., Rai, A. and Tiwari, R., (2022). Unveiling the Wheat Microbiome under Varied Agricultural Field Conditions. Microbiology Spectrum, pp.e02633-22. https://doi.org/10.1128/spectrum.02633-22
  • An assessment of remotely sensed environmental variables on Dengue epidemiology in Central India https://journals.plos.org/plosntds/article?id=10.1371/journal.pntd.0010859
  • Genomic Surveillance of COVID-19 Variants With Language Models and Machine Learning https://www.frontiersin.org/articles/10.3389/fgene.2022.858252/full
  • Krishna, S., Gopinath, A. & Bhattacharjee, S.M. (2022). Ordering and topological defects in social wasps’ nests. Scientific Reports 12, 12901 (https://doi.org/10.1038/s41598-022-16836-6)
  • Yamada, K., Deb, A., Shoba, V. M., Lim, D., Maji, B., Modell, A. E., & Choudhary, A. (n.d.). Rational Design of Silicon-Based Zinc Ionophores. Angewandte Chemie International Edition, n/a(n/a), e202201698. https://doi.org/10.1002/anie.202201698
  • Mishra, A., Tung, S., Sruti, V. R. S., Shreenidhi, P. M., & Dey, S. (2022). Desiccation Stress Acts as Cause as well as Cost of Dispersal in Drosophila melanogaster. The American Naturalist, 199(4), E111–E123. https://doi.org/10.1086/718641
  • Chakraborty, S., Chaudhuri, D., Chaudhuri, D., Singh, V., Banerjee, S., Chowdhury, D., & Haldar, S. (2022). Connecting conformational stiffness of the protein with energy landscape by a single experiment. Nanoscale. https://doi.org/10.1039/D1NR07582A
  • Chakraborty, S., Chaudhuri, D., Banerjee, S., Bhatt, M., & Haldar, S. (2022). Direct observation of chaperone-modulated talin mechanics with single-molecule resolution. Communications Biology, 5(1), 1–14. https://doi.org/10.1038/s42003-022-03258-3Banerjee, S., Nara, R., Chakraborty, S., Chowdhury, D., & Haldar, S. (2022). Integrin Regulated Autoimmune Disorders: Understanding the Role of Mechanical Force in Autoimmunity. Frontiers in Cell and Developmental Biology, 10. https://www.frontiersin.org/article/10.3389/fcell.2022.852878

Year 2021

  • Shakti N. Menon, P. Varuni, Freddy Bunbury, Devaki Bhaya and Gautam I Menon. Phototaxis in cyanobacteria: From mutants to models of collective behavior. MBio, Volume 12 Issue 6 e02398-21 (2021).
  • Khan, S., Pradhan, S.J., Giraud, G., Bleicher, F., Paul, R., Merabet, S. and Shashidhara, L.S. (2021). A micro-evolutionary change in target binding sites as key determinant of Ultrabithorax function in Drosophila. Biorxiv.;  https://doi.org/10.1101/2021.08.17.456507. 
  • Raman, D., & Rajaraman, B. K. 2021. Self-efficacy assessment hinders improvement on a deliberate cricket bowling practice task.  psyarxiv.com/mw8nv 
  • Giridhara Babu, Debashree Ray, Ritwik Bhaduri, Aritra Halder, Ritoban Kundu,Gautam I Menon and Bhramar Mukherjee. COVID-19 Pandemic in India: Through the Lens of Modeling. Glob Health Sci Pract. 2021; 9(2).
  • Sanhita Nandi, Chandrani Kumari, Uma Rani Potunuru, Abel Arul Nathan, Jayashree Gopal, Gautam I Menon, Rahul Siddharthan, Madhulika Dixit and Paul Ramesh Thangaraj.  Altered kinetics of circulating progenitor cells in cardiopulmonary bypass (CPB) associated vasoplegic patients: A pilot study. PLoS ONE 15(11): e0242375 (2021); https://doi.org/10.1371/journal.pone.0242375
  • Krishna, S., & Keasar, T. (2021). Generalization of Foraging Experience Biases Bees Toward Flowers With Complex Morphologies. Frontiers in Ecology and Evolution, 9, 291. https://doi.org/10.3389/fevo.2021.655086
  • Kaur, D., Agrahari, M., Singh, S. S., Mandal, P. K., Bhattacharya, A., & Bhattacharya, S. (2021). Transcriptomic analysis of Entamoeba histolytica reveals domain-specific sense strand expression of LINE-encoded ORFs with massive antisense expression of RT domain. Plasmid, 114, 102560. https://doi.org/10.1016/j.plasmid.2021.102560
  • Singh, N., Naiyer, S., & Bhattacharya, S. (2021). Ultra-structural analysis and morphological changes during the differentiation of trophozoite to cyst in Entamoeba invadens. Molecular and Biochemical Parasitology, 242, 111363. https://doi.org/10.1016/j.molbiopara.2021.111363
  • Awasthi, K., Srivastava, A., Bhattacharya, S., & Bhattacharya, A. (2021). Tissue specific expression of sialic acid metabolic pathway: Role in GNE myopathy. Journal of Muscle Research and Cell Motility, 42(1), 99–116. https://doi.org/10.1007/s10974-020-09590-7
  • Bharadwaj, R., Bhattacharya, A., & Somlata. (2021). Coordinated activity of amoebic formin and profilin are essential for phagocytosis. Molecular Microbiology, 116(3), 974–995. https://doi.org/10.1111/mmi.14787
  • Monteiro, J., Pujari, B., Bhattacharrya, S. M., Raghunathan, A., Keskar, A., Shaikh, A., Bogam, P., Kadu, S., Raut, N., Vavale, D., Mishra, R., Kembhavi, A., Shashidhara, L. S., & Mave, V. (2021). Into the thirteenth Month: A Case Study on the Outbreak Analytics and Modeling the spread of SARS-CoV-2 Infection in Pune City, India (p. 2021.06.22.21259295). https://doi.org/10.1101/2021.06.22.21259295
  • Bogam, P., Joshi, J., Nagarkar, S., Jain, D., Gupte, N., Shashidhara, L.S., Monteiro, J.M. and Mave, V. (2021). The burden of COVID-19 and Case Fatality Rate in Pune India: An Analysis of First and Second Wave of the Pandemic.  International Journal of Infectious Diseases (IJID) Regions, 2, 2022, 74-81. https://doi.org/10.1016/j.ijregi.2021.12.006. 
  • Rahman, A., & Shashidhara, L. S. (n.d.). Analyzing the influence of IL18 in regulation of YAP1 in breast oncogenesis using cBioportal. Cancer Reports, n/a(n/a), e1484. https://doi.org/10.1002/cnr2.1484
  • Chakraborty, A., Kumar, S., Shashidhara, L. S., & Taneja, A. (2021). Building Sustainable Societies through Purpose-Driven Universities: A Case Study from Ashoka University (India). Sustainability, 13(13), 7423. https://doi.org/10.3390/su13137423
  • Busheri, L., Dixit, S., Nare, S., Alhat, R., Thomas, G., Jagtap, M., Navgire, R., Shinde, P., Banale, R., Unde, R., Reddy, R., Shaikh, S., Konnur, A., Namewar, N., Bapat, A., Patil, A., Johari, R., Kushwaha, R., Kumari, W., …Shashidhara, L.S., Koppiker, C.B.,& Kulkarni, M. (2021). Breast cancer biobank from a single institutional cohort in an urban setting in india: Tumor characteristics and survival outcomes. Cancer Treatment and Research Communications, 28, 100409. https://doi.org/10.1016/j.ctarc.2021.100409
  • Paul, R., Giraud, G., Domsch, K., Duffraisse, M., Marmigère, F., Khan, S., Vanderperre, S., Lohmann, I., Stoks, R., Shashidhara, L. S., & Merabet, S. (2021). Hox dosage contributes to flight appendage morphology in Drosophila. Nature Communications, 12(1), 2892. https://doi.org/10.1038/s41467-021-23293-8
  • Mishra, A., Tung, S., Sruti, V. R. S., Shreenidhi, P. M., & Dey, S. (2021). Desiccation stress acts as cause as well as cost of dispersal in Drosophila melanogaster (p. 2021.03.27.437318). https://doi.org/10.1101/2021.03.27.437318
  • Tung, S., Bakerlee, C. W., Phillips, A. M., Nguyen Ba, A. N., & Desai, M. M. (2021). The genetic basis of differential auto diploidization in evolving yeast populations. G3 Genes|Genomes|Genetics, 11(8). https://doi.org/10.1093/g3journal/jkab192
  • Eckels, E. C., Chaudhuri, D., Chakraborty, S., Echelman, D. J., & Haldar, S. (2021). DsbA is a redox-switchable mechanical chaperone (p. 310169).” Chemical Sciences, 2021, 12, 11109-11120; https://doi.org/10.1039/D1SC03048E
  • Hazra, D. K., Pujari, B. S., Shekatkar, S. M., Mozaffer, F., Sinha, S., Guttal, V., Chaudhuri, P., & Menon, G. I. (2021). The INDSCI-SIM model for COVID-19 in India (p. 2021.06.02.21258203). https://doi.org/10.1101/2021.06.02.21258203
  • Kumar, V., Vasudevan, A., Venkatesh, K., Maiya, R., Sood, P., Murthy, K., Koushika, S. P., & Menon, G. I. (2021). Cargo crowding, stationary clusters and dynamical reservoirs in axonal transport (p. 2021.03.12.434740). https://doi.org/10.1101/2021.03.12.434740
  • Babu, G. R., Ray, D., Bhaduri, R., Halder, A., Kundu, R., Menon, G. I., & Mukherjee, B. (2021). COVID-19 Pandemic in India: Through the Lens of Modeling. Global Health: Science and Practice, 9(2), 220–228. https://doi.org/10.9745/GHSP-D-21-00233
  • Foy, B. H., Wahl, B., Mehta, K., Shet, A., Menon, G. I., & Britto, C. (2021). Comparing COVID-19 vaccine allocation strategies in India: A mathematical modelling study. International Journal of Infectious Diseases, 103, 431–438. https://doi.org/10.1016/j.ijid.2020.12.075
  • Bagchi, B., Seal, S., Raina, M., Basu, D. N., & Khan, I. (2021). Carcass scavenging relaxes chemical-driven female interference competition in flour beetles. The American Naturalist. https://doi.org/10.1086/717250
  • Seal, S., Dharmarajan, G., & Khan, I. (2021). Evolution of pathogen tolerance and emerging infections: A missing experimental paradigm. ELife, 10, e68874. https://doi.org/10.7554/eLife.68874
  • Bagchi, B., Corbel, Q., Khan, I., Payne, E., Banerji, D., Liljestrand-Rönn, J., Martinossi-Allibert, I., Baur, J., Sayadi, A., Immonen, E., Arnqvist, G., Söderhäll, I., & Berger, D. (2021). Sexual conflict drives micro- and macroevolution of sexual dimorphism in immunity. BMC Biology, 19(1), 114. https://doi.org/10.1186/s12915-021-01049-6
  • Banerjee, S., Chakraborty, S., Sreepada, A., Banerji, D., Goyal, S., Khurana, Y., & Haldar, S. (2021). Cutting-Edge Single-Molecule Technologies Unveil New Mechanics in Cellular Biochemistry. Annual Review of Biophysics, 50, 419–445. https://doi.org/10.1146/annurev-biophys-090420-083836
  • Alonso-Caballero, A., Echelman, D. J., Tapia-Rojo, R., Haldar, S., Eckels, E. C., & Fernandez, J. M. (2021). Protein folding modulates the chemical reactivity of a Gram-positive adhesin. Nature Chemistry, 13(2), 172–181. https://doi.org/10.1038/s41557-020-00586-x
  • Roy, S., Sipthorp, J., Mahata, B., Pramanik, J., Hennrich, M. L., Gavin, A.-C., Ley, S. V., & Teichmann, S. A. (2021). CLICK-enabled analogues reveal pregnenolone interactomes in cancer and immune cells. IScience, 24(5). https://doi.org/10.1016/j.isci.2021.102485
  • Chattopadhyay, B., Forcina, G., Garg, K. M., Irestedt, M., Guerrini, M., Barbanera, F., & Rheindt, F. E. (2021). Novel genome reveals susceptibility of popular gamebird, the red-legged partridge (Alectoris rufa, Phasianidae), to climate change. Genomics, 113(5), 3430–3438. https://doi.org/10.1016/j.ygeno.2021.08.010
  • Garg, K. M., & Chattopadhyay, B. (2021). Gene Flow in Volant Vertebrates: Species Biology, Ecology and Climate Change. Journal of the Indian Institute of Science, 101(2), 165–176. https://doi.org/10.1007/s41745-021-00239-z
  • Chattopadhyay, B., Garg, K. M., Swami Doss, D. P., Vinothkumar, A. K., Kandula, S., Rheindt, F. E., & Ramakrishnan, U. (2021). Cryptic diversity of Rhinolophus lepidus in South Asia and differentiation across a biogeographic barrier. Frontiers of Biogeography, 0(0). https://doi.org/10.21425/F5FBG49625
  • Tan, H. Z., Jansen, J. J. F. J., Allport, G. A., Garg, K. M., Chattopadhyay, B., Irestedt, M., Chilton, G., Gwee, C. Y., & Rheindt, F. E. (2021). Historical climate change and megafaunal extinctions linked to genetic diversity declines in shorebirds (p. 2021.07.02.450884). https://doi.org/10.1101/2021.07.02.450884

Year 2020

  • Ghose, A., Bhattacharya, S., Karthikeyan, A.S., Kudale, A., Monteiro, J.M., Joshi, A., Medigeshi, G., Kang, G., Bal, V., Rath, S., Shashidhara, L.S., John, J., Chaudhuri, S. and Nagarkar, A. (2020). Community prevalence of antibodies to SARS-CoV-2 and correlates of protective immunity in five localities in an Indian metropolitan city. MedRxiv. doi: https://doi.org/10.1101/2020.11.17.20228155.      
  • Vaid, P. M., Puntambekar, A. K., Banale, R. A., Reddy, R. R., Unde, R. R., Namewar, N. P., Kelkar, D. A., Shashidhara, L. S., Koppiker, C. B., & Kulkarni, M. (2020). Stromal Tumor Infiltrating Lymphocytes (sTILs) as a putative prognostic marker to identify a responsive subset of TNBC in an Indian Breast Cancer Cohort (p. 2020.08.19.20177865). https://doi.org/10.1101/2020.08.19.20177865
  • Nagarkar, S., Wasnik, R., Govada, P., Cohen, S., & Shashidhara, L. S. (2020). Promoter Proximal Pausing Limits Tumorous Growth Induced by the Yki Transcription Factor in Drosophila. Genetics, 216(1), 67–77. https://doi.org/10.1534/genetics.120.303419
  • Chakladar M, Nair, MG., Prabhu, JS., Sridhar, TS., Kelkar, D., Kulkarni, M., Shashidhara, LS (2020). PTPN11 / SHP2 negatively regulates growth in breast epithelial cells: implications on tumorigenesis. BioRxiv. doi: https://doi.org/10.1101/2020.07.30.228445. 
  • Groth, C., Vaid, P., Khatpe, A., Prashali, N., Ahiya, A., Andrejeva, D., Chakladar, M., Nagarkar, S., Paul, R., Kelkar, D., Eichenlaub, T., Herranz, H., Sridhar, T., Cohen, S. M., & Shashidhara, L. (2020). Genome-Wide Screen for Context-Dependent Tumor Suppressors Identified Using in Vivo Models for Neoplasia in Drosophila. G3 Genes|Genomes|Genetics, 10(9), 2999–3008. https://doi.org/10.1534/g3.120.401545
  • Kulkarni, A., Kelkar, D. A., Parikh, N., Shashidhara, L. S., Koppiker, C. B., & Kulkarni, M. (2020). Meta-Analysis of Prevalence of Triple-Negative Breast Cancer and Its Clinical Features at Incidence in Indian Patients With Breast Cancer. JCO Global Oncology, 6, 1052–1062. https://doi.org/10.1200/GO.20.00054
  • Nandi, S., Potunuru, U. R., Kumari, C., Nathan, A. A., Gopal, J., Menon, G. I., Siddharthan, R., Dixit, M., & Thangaraj, P. R. (2020). Altered kinetics of circulating progenitor cells in cardiopulmonary bypass (CPB) associated vasoplegic patients: A pilot study. PLOS ONE, 15(11), e0242375. https://doi.org/10.1371/journal.pone.0242375
  • Agrawal, A., Ganai, N., Sengupta, S., & Menon, G. I. (2020). Nonequilibrium Biophysical Processes Influence the Large-Scale Architecture of the Cell Nucleus. Biophysical Journal, 118(9), 2229–2244. https://doi.org/10.1016/j.bpj.2019.11.017
  • Somanathan, H., Krishna, S., Jos, E. M., Gowda, V., Kelber, A., & Borges, R. M. (2020). Nocturnal Bees Feed on Diurnal Leftovers and Pay the Price of Day – Night Lifestyle Transition. Frontiers in Ecology and Evolution, 8, 288. https://doi.org/10.3389/fevo.2020.566964
  • Bhattacharya, A., Bhattacharya, S. & Katoch, V. M. (2020) Vaccine and drug trials in the COVID-19 pandemic: lessons for India. Current Science, 119, 171-172.
  • Ankit Agrawal, Nirmalendu Ganai,  Surajit Sengupta and Gautam I. Menon. Non-equilibrium biophysical processes influence the large-scale architecture of the cell nucleus. Biophys. J. 118(9), 2229-2244 (2020).

Year 2019

  • Sharma, S., Agarwal, S., Bharadwaj, R., Somlata, Bhattacharya, S., & Bhattacharya, A. (2019). Novel regulatory roles of PtdIns(4,5)P2 generating enzyme EhPIPKI in actin dynamics and phagocytosis of Entamoeba histolytica. Cellular Microbiology, 21(10), e13087. https://doi.org/10.1111/cmi.13087
  • Agarwal, S., Anand, G., Sharma, S., Rath, P. P., Gourinath, S., & Bhattacharya, A. (2019). EhP3, a homolog of 14-3-3 family of protein participates in actin reorganization and phagocytosis in Entamoeba histolytica. PLOS Pathogens, 15(5), e1007789. https://doi.org/10.1371/journal.ppat.1007789
  • Bhattacharya, A., & Bhattacharya, S. (2019). Patient-driven initiatives for prioritizing drug discovery for rare diseases. Indian Journal of Medical Research, 149(3), 326–328. https://doi.org/10.4103/ijmr.IJMR_499_19
  • Khan, I., Prakash, A., & Agashe, D. (2019). Pathogen susceptibility and fitness costs explain variation in immune priming across natural populations of flour beetles. Journal of Animal Ecology, 88(9), 1332–1342. https://doi.org/10.1111/1365-2656.13030
  • Desai S, Padmanabhan A, Harshe S, Zaidel-Bar R and Kenney LJ (2019) Salmonella biofilms program innate immunity for persistence in C. elegans. PNAS 116 (25) 12462-12467

Year 2018

  • Rajaraman, K., Nair, A., Dey, A., & Balakrishnan, R. (2018). Response Mode Choice in a Multimodally Duetting Paleotropical Pseudophylline Bushcricket. Frontiers in Ecology and Evolution, 6, 172. https://doi.org/10.3389/fevo.2018.00172
  • Khan, I., Prakash, A., Issar, S., Umarani, M., Sasidharan, R., Masagalli, J. N., Lama, P., Venkatesan, R., & Agashe, D. (2018). Female Density-Dependent Chemical Warfare Underlies Fitness Effects of Group Sex Ratio in Flour Beetles. The American Naturalist, 191(3), 306–317. https://doi.org/10.1086/695806

Year 2017

  • Khan, I., Prakash, A., & Agashe, D. (2017). Experimental evolution of insect immune memory versus pathogen resistance. Proceedings of the Royal Society B: Biological Sciences, 284(1869), 20171583. https://doi.org/10.1098/rspb.2017.1583

 

Study at Ashoka

Study at Ashoka

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