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Koparde P, Mehta P, Reddy S, Ramakrishnan U, Mukherjee S, Robin VV.  2018.  The critically endangered forest owlet Heteroglaux blewitti is nested within the currently recognized Athene clade: A century-old debate addressed.. PLoS One. 13(2):e0192359.
Bindal G, Krishnamurthi R, Seshasayee ASai Narain, Rath D.  2017.  CRISPR-Cas-Mediated Gene Silencing Reveals RacR To Be a Negative Regulator of YdaS and YdaT Toxins in Escherichia coli K-12.. mSphere. 2(6)
Pathak T, Trivedi D, Hasan G.  2017.  CRISPR-Cas-Induced Mutants Identify a Requirement for dSTIM in Larval Dopaminergic Cells of Drosophila melanogaster.. G3 (Bethesda). 7(3):923-933.
Jambor H, Antonietti A, Alicea B, Audisio TL, Auer S, Bhardwaj V, Burgess SJ, Ferling I, Gazda MAnna, Hoeppner LH et al..  2021.  Creating clear and informative image-based figures for scientific publications.. PLoS Biol. 19(3):e3001161.
Babbitt PC, Bagos PG, Bairoch A, Bateman A, Chatonnet A, Chen MJinan, Craik DJ, Finn RD, Gloriam D, Haft DH et al..  2015.  Creating a specialist protein resource network: a meeting report for the protein bioinformatics and community resources retreat.. Database (Oxford). 2015:bav063.
Prakash A, Raman S, Kaushik R, Manchanda P, Iyer AS, Ladher RK.  2025.  Coupling between spatial compartments integrates morphogenetic patterning in the organ of Corti.. PLoS Biol. 23(9):e3003350.
Case MF, Wigley BJ, Wigley-Coetsee C, Staver AC.  2020.  Could drought constrain woody encroachers in savannas? AFRICAN JOURNAL OF RANGE & FORAGE SCIENCE. 37(1):19-29.
Prakash A, Agashe D, Khan I.  2022.  The costs and benefits of basal infection resistance vs immune priming responses in an insect.. Dev Comp Immunol. 126:104261.
Thutupalli S.  2024.  The cost of cellular patterns. Nature Physics. 20:1704–1705.
Acharya K, Ainavarapu SRama Koti, Das R.  2026.  Cosolutes Modulate Polyubiquitin Fibrillation. ACS Omega. 11:28004-28014.
Chakraborty P, Datta S, McEwen BS, Chattarji S.  2020.  Corticosterone after acute stress prevents the delayed effects on the amygdala.. Neuropsychopharmacology.
Sharma SDas, Pal R, Reddy BKumar, Selvaraj BT, Raj N, Samaga KKumar, Srinivasan DJ, Ornelas L, Sareen D, Livesey MR et al..  2020.  Cortical neurons derived from human pluripotent stem cells lacking FMRP display altered spontaneous firing patterns.. Mol Autism. 11(1):52.
Köster DV, Mayor S.  2016.  Cortical actin and the plasma membrane: inextricably intertwined.. Curr Opin Cell Biol. 38:81-9.
Mukardamwala MS, Trivedi PG, Mehta D, Viswanathan A.  2025.  Correlates of Tree Cavity Presence in a Tropical Deciduous Forest of the Northern Western Ghats, India.
Fernandes G, Mishra PK, Nawaz MSarfaraz, Donlin-Asp PG, Rahman MMostafizur, Hazra A, Kedia S, Kayenaat A, Songara D, Wyllie DJA et al..  2021.  Correction of amygdalar dysfunction in a rat model of fragile X syndrome. Cell Reports. 37:109805.
Raju S, Swetha C, Y HC, Shivaprasad P.  2026.  Copper-sensitive OsSPL9 TF regulates expression of indica rice domestication-associated miRNAs and phenotypes. Communications Biology. 9
Joseph AM, Daw S, Sadhir I, Badrinarayanan A.  2021.  Coordination between nucleotide excision repair and specialized polymerase DnaE2 action enables DNA damage survival in non-replicating bacteria. Elife.
Das R, Sengupta T, Roy S, Chattarji S, Ray J.  2020.  Convolvulus pluricaulis extract can modulate synaptic plasticity in rat brain hippocampus.. Neuroreport. 31(8):597-604.
Vijayasarathy M, Kumar S, Venkatesha MA, Balaram P.  2023.  Contryphan sequence diversity: Messy N-terminus processing, effects on chromatographic behaviour and mass spectrometric fragmentation.. J Proteomics. :104805.
Rana D, Leena M, Nithyananth M, Pasricha R, Manivasagam G, Ramalingam M.  2016.  Control of Stem Cell Fate and Function by Polymer Nanofibers. JOURNAL OF NANOSCIENCE AND NANOTECHNOLOGY. 16(9):9015-9021.
Hasan G.  2017.  Control of protein translation by IP3R-mediated Ca(2+) release in Drosophila neuroendocrine cells.. Fly (Austin).
Kolay S, Basu U, Raghu P.  2016.  Control of diverse subcellular processes by a single multi-functional lipid phosphatidylinositol 4,5-bisphosphate [PI(4,5)P2].. Biochem J. 473(12):1681-92.
Narayanan S, Thirumalai V.  2019.  Contributions of the Cerebellum for Predictive and Instructional Control of Movement.. Curr Opin Physiol. 8:146-151.
Coetsee C., Wigley B.J, Sankaran M., Ratnam J., Augustine D.J.  2022.  Contrasting Effects of Grazing vs Browsing Herbivores Determine Changes in Soil Fertility in an East African Savanna. ECOSYSTEMS .
Osuri AM, Ratnam J, Varma V, Alvarez-Loayza P, Astaiza JHurtado, Bradford M, Fletcher C, Ndoundou-Hockemba M, Jansen PA, Kenfack D et al..  2016.  Contrasting effects of defaunation on aboveground carbon storage across the global tropics.. Nat Commun. 7:11351.
Chandrasegaran K, Kandregula SRao, Quader S, Juliano SA.  2018.  Context-dependent interactive effects of non-lethal predation on larvae impact adult longevity and body composition.. PLoS One. 13(2):e0192104.
Hinsen K, Vaitinadapoule A, Ostuni MA, Etchebest C, Lacapere J-J.  2015.  Construction and validation of an atomic model for bacterial TSPO from electron microscopy density, evolutionary constraints, and biochemical and biophysical data.. Biochim Biophys Acta. 1848(2):568-80.
Juul JS, Jensen MH, Krishna S.  2019.  Constraints on somite formation in developing embryos.. J R Soc Interface. 16(158):20190451.
Singh A, Thutupalli S, Kumar M, Ameta S.  2024.  Constrained dynamics of DNA oligonucleotides in phase-separated droplets.. Biophys J.
Khan A, Tyagi A.  2021.  Considerations for Initiating a Wildlife Genomics Research Project in South and South-East Asia. JOURNAL OF THE INDIAN INSTITUTE OF SCIENCE.
Jaganathan D, Rajakani R, Doddamani D, Saravanan D, Pulipati S, Vivek Hari Sundar G, Sellamuthu G, Jayabalan S, Kumari K, Parthasarathy P et al..  2023.  A conserved SNP variation in the pre-miR396c flanking region in Oryza sativa indica landraces correlates with mature miRNA abundance.. Sci Rep. 13(1):2195.
Narjala A, Nair A, Tirumalai V, G Vivek Hari Sundar, Shivaprasad PV.  2020.  A conserved sequence signature is essential for robust plant miRNA biogenesis.. Nucleic Acids Res.
Till SM, Asiminas A, Jackson AD, Katsanevaki D, Barnes SA, Osterweil EK, Bear MF, Chattarji S, Wood ER, Wyllie DJA et al..  2015.  Conserved hippocampal cellular pathophysiology but distinct behavioural deficits in a new rat model of FXS.. Hum Mol Genet. 24(21):5977-84.
Krishnan H, Muzaffar S, Sharma S, Ramya V, Ghosh A, Sowdhamini R, Padinjat R.  2025.  Conserved biochemical activity and function of phosphatidylinositol 5 phosphate 4 kinase regulates growth & development.
Chatterjee KSankar, Tripathi V, Das R.  2019.  A conserved and buried edge-to-face aromatic interaction in Small Ubiquitin-like Modifier (SUMO) has a role in SUMO stability and function.. J Biol Chem.
Singh P, Srivathsa A, Macdonald DW.  2020.  Conservation status of the dhole Cuon alpinus in north-east India, with a focus on Dampa Tiger Reserve, Mizoram. ORYX. 54(6):873-877.
Ramakrishnan U.  2025.  Conservation: Sequencing and saving the Saola? Curr Biol. 35(18):R878-R880.
Natesh M, Atla G, Nigam P, Jhala YV, Zachariah A, Borthakur U, Ramakrishnan U.  2017.  Conservation priorities for endangered Indian tigers through a genomic lens.. Sci Rep. 7(1):9614.
Goheen JR, Augustine DJ, Veblen KE, Kimuyu DM, Palmer TM, Porensky LM, Pringle RM, Ratnam J, Riginos C, Sankaran M et al..  2018.  Conservation lessons from large-mammal manipulations in East African savannas: the KLEE, UHURU, and GLADE experiments.. Ann N Y Acad Sci.
Hansen MM, Edwards C, Grossen C, Kardos M, Laikre L, Ramakrishnan U.  2025.  Conservation Genomics-Making a Difference.. Mol Ecol. 34(23):e70191.
Adamala KP, Agashe D, Belkaid Y, Bittencourt DMatias de, Cai Y, Chang MW, Chen IA, Church GM, Cooper VS, Davis MM et al..  2024.  Confronting risks of mirror life.. Science. 386(6728):1351-1353.
Chakrabarti KS, Li J, Das R, R Byrd A.  2017.  Conformational Dynamics and Allostery in E2:E3 Interactions Drive Ubiquitination: gp78 and Ube2g2.. Structure.
Cannone G, Berto L, Malhaire F, Ferguson G, Fouillen A, Balor S, Font-Ingles J, Llebaria A, Goudet C, Kotecha A et al..  2025.  Conformational diversity in class C GPCR positive allosteric modulation.. Nat Commun. 16(1):619.
Vijayasarathy M, Balaram P.  2019.  Cone snail prolyl-4-hydroxylase α-subunit sequences derived from transcriptomic data and mass spectrometric analysis of variable proline hydroxylation in C. amadis venom.. J Proteomics. 194:37-48.
Vijayasarathy M, Basheer SM, Balaram P.  2018.  Cone Snail Glutaminyl Cyclase Sequences from Transcriptomic Analysis and Mass Spectrometric Characterization of Two Pyroglutamyl Conotoxins.. J Proteome Res. 17(8):2695-2703.
Kumar S, Vijayasarathy M, Venkatesha MA, Sunita P, Balaram P.  2020.  Cone snail analogs of the pituitary hormones oxytocin/vasopressin and their carrier protein neurophysin. Proteomic and transcriptomic identification of conopressins and conophysins.. Biochim Biophys Acta Proteins Proteom. :140391.
Torta F, Hoffmann N, Burla B, Alecu I, Arita M, Bamba T, Bennett SAL, Bertrand-Michel J, Brügger B, Cala MP et al..  2024.  Concordant inter-laboratory derived concentrations of ceramides in human plasma reference materials via authentic standards.. Nat Commun. 15(1):8562.
Asopa A, Bhalla US.  2023.  A computational view of short-term plasticity and its implications for E-I balance.. Curr Opin Neurobiol. 81:102729.
Bheemireddy S, Sandhya S, Srinivasan N, Sowdhamini R.  2022.  Computational tools to study RNA-protein complexes.. Front Mol Biosci. 9:954926.
Pathak A, Sowdhamini R.  2025.  Computational structural analysis sheds light on the molecular grammar of gap junction proteins.. Biochimie.
Sharma A, Tiwari V, Sowdhamini R.  2020.  Computational search for potential COVID-19 drugs from FDAapproved drugs and small molecules of natural origin identifies several anti-virals and plant products.. J Biosci. 45
Karpe SD, Dhingra S, Brockmann A, Sowdhamini R.  2017.  Computational genome-wide survey of odorant receptors from two solitary bees Dufourea novaeangliae (Hymenoptera: Halictidae) and Habropoda laboriosa (Hymenoptera: Apidae).. Sci Rep. 7(1):10823.
Kanojia A, Bhaduri A, Nayak S, Sowdhamini R, Mudgil Y.  2025.  Computational exploration of Arabidopsis thaliana N-Myc downregulated-like-1 for protein–protein interaction and phylogenetic conservation.
Harini K, Sowdhamini R.  2015.  Computational Approaches for Decoding Select Odorant-Olfactory Receptor Interactions Using Mini-Virtual Screening.. PLoS One. 10(7):e0131077.
Chauhan PKumar, Sowdhamini R.  2023.  Computational analysis of the flexibility in the disordered linker region connecting LIM domains in cysteine-glycine-rich protein.. Front Genet. 14:1134509.
Bheemireddy S, Sowdhamini R, Srinivasan N.  2025.  Computational analysis of the effect of a binding protein (RbpA) on the dynamics of Mycobacterium tuberculosis RNA polymerase assembly.. PLoS One. 20(1):e0317187.
Patil P, Skariyachan S, Mutt E, Kaushik S.  2016.  Computational Analysis of the Domain Architecture and Substrate-Gating Mechanism of Prolyl Oligopeptidases from Shewanella woodyi and Identification of Probable Lead Molecules.. Interdiscip Sci. 8(3):284-93.
Sharma A, Chandrashekar CR, Krishna S, Sowdhamini R.  2024.  Computational Analysis of the Accumulation of Mutations in Therapeutically Important RNA Viral Proteins During Pandemics with Special Emphasis on SARS-CoV-2.. J Mol Biol. 436(19):168716.
K Shafi M, Sowdhamini R.  2022.  Computational analysis of potential candidate genes involved in the cold stress response of ten Rosaceae members.. BMC Genomics. 23(1):516.
Nayak S, Regati DReddy, Sowdhamini R.  2024.  Computational analysis of human gut microbial prolyl oligopeptidases (POPs) reveal candidate genes as therapeutics for celiac disease.. Sci Rep. 14(1):19641.
Bheemireddy S, Menon R, Chavali S, Sowdhamini R, Srinivasan N.  2025.  Computational Analyses of Bifurcated Inter-Protein Interactions in Protein-Protein Assemblies Reveal Their Pivotal Role in Conferring Stability.. Proteins.
Pulikkottil VVarghese, Somashekar BPriya, Bhalla US.  2021.  Computation, wiring, and plasticity in synaptic clusters.. Curr Opin Neurobiol. 70:101-112.
Gupta A, Sabarinathan R, Bala P, Donipadi V, Vashisht D, Katika MRao, Kandakatla M, Mitra D, Dalal A, Bashyam MDharan.  2021.  A comprehensive profile of genomic variations in the SARS-CoV-2 isolates from the state of Telangana, India.. J Gen Virol.
Carvalho APaula S, Owens HL, St Laurent RA, Earl C, Dexter KM, Messcher RL, Willmott KR, Aduse-Poku K, Collins SC, Homziak NT et al..  2024.  Comprehensive phylogeny of Pieridae butterflies reveals strong correlation between diversification and temperature.. iScience. 27(4):109336.
Condamine FL, Allio R, Reboud EL, Dupuis JR, Toussaint EFA, Mazet N, Hu S-J, Lewis DS, Kunte K, Cotton AM et al..  2023.  A comprehensive phylogeny and revised taxonomy illuminate the origin and diversification of the global radiation of Papilio (Lepidoptera: Papilionidae).. Mol Phylogenet Evol. 183:107758.
Lakshmanan V, N ST, Bansal D, Padubidri SV, Palakodeti D, Krishna S.  2021.  Comprehensive annotation and characterization of planarian tRNA and tRNA-derived fragments (tRFs).. RNA.
Ditlev JA, Vega AR, Köster DVasco, Su X, Tani T, Lakoduk AM, Vale RD, Mayor S, Jaqaman K, Rosen MK.  2019.  A composition-dependent molecular clutch between T cell signaling condensates and actin.. Elife. 8
Bakker JD, Price JN, Henning JA, , Sankaran M, et al.  2023.  Compositional variation in grassland plant communities. ECOSPHERE . 14(6):e4542.
Dias M, Pattabiraman C, Siddappa S, Gowda M, Shet A, Smith D, Muehlemann B, Tamma K, Solomon T, Jones T et al..  2019.  Complete assembly of a dengue virus type 3 genome from a recent genotype III clade by metagenomic sequencing of serum.. Wellcome Open Res. 3:44.
Morin DJ, Boulanger J, Bischof R, Lee DC, Ngoprasert D, Fuller AK, McLellan B, Steinmetz R, Sharma S, Garshelis D et al..  2022.  Comparison of methods for estimating density and population trends for low-density Asian bears. GLOBAL ECOLOGY AND CONSERVATION. 35(e02058)
Vinothkumar KR, Arya C, Ramanathan G, Subramanian R.  2020.  Comparison of CryoEM and X-ray structures of dimethylformamidase.. Prog Biophys Mol Biol.
Attiwilli S, Ravikanthachari N, Kunte K.  2023.  A comparison between time-constrained counts and line transects as methods to estimate butterfly diversity and monitor populations in tropical habitats. INSECT CONSERVATION AND DIVERSITY.
Sinha A, Fayaz M, Panda S, Sowdhamini R.  2026.  Comparative transcriptomic insights into iron deficiency response in contrasting rice varieties at the seedling stage reveal distinct response strategies and identify novel candidate genes. Frontiers in Plant Science. 17
Chakravarty R, Chattopadhyay B, Ramakrishnan U.  2018.  Comparative Population Structure in Species of Bats Differing in Ecology and Morphology in the Andaman Islands, India. Acta Chiropterologica. 20(1):85-98.
Toussaint EFA, Morinière J, Müller CJ, Kunte K, Turlin B, Axel Hausmann, Balke M.  2015.  Comparative molecular species delimitation in the charismatic Nawab butterflies (Nymphalidae, Charaxinae, Polyura).. Mol Phylogenet Evol. 91:194-209.
Khedkar S, Seshasayee ASai Narain.  2016.  Comparative Genomics of Interreplichore Translocations in Bacteria: A Measure of Chromosome Topology? G3 (Bethesda). 6(6):1597-606.
Sidhanta SPrakash Da, Sowdhamini R, Srinivasan N.  2025.  Comparative analysis of permanent and transient domain-domain interactions in multi-domain proteins.. Proteins. 93(1):197-208.
Gowda M., Ambardar S., Dighe N., Manjunath A., Shankaralingu C., Hallappa P., Harting J., Ranade S., Jagannathan L., Krishna S..  2016.  Comparative analyses of low, medium and high-resolution HLA typing technologies for human populations. Journal of Clinical & Cellular Immunology. 7
Caputi L, Carradec Q, Eveillard D, Kirilovsky A, Pelletier E, Karlusich J, Vieira FRocha Jime, Villar E(, Chaffron S, Malviya S et al..  2019.  Community-Level Responses to Iron Availability in Open Ocean Plankton Ecosystems. GLOBAL BIOGEOCHEMICAL CYCLES. 33(3):391-419.
Veldman JW, Aleman JC, Alvarado ST, T Anderson M, Archibald S, Bond WJ, Boutton TW, Buchmann N, Buisson E, Canadell JG et al..  2019.  Comment on "The global tree restoration potential".. Science. 366(6463)
Griffith DM, Lehmann CER, Strömberg CAE, Parr CL, R Pennington T, Sankaran M, Ratnam J, Still CJ, Powell RL, Hanan NP et al..  2017.  Comment on "The extent of forest in dryland biomes".. Science. 358(6365)
Varudkar A, Ramakrishnan U.  2015.  Commensalism facilitates gene flow in mountains: a comparison between two Rattus species.. Heredity (Edinb). 115(3):253-61.
Nikhat A, Shaikh A, Chakrabarti S.  2025.  Combining lineage correlations and a small molecule inhibitor to detect circadian control of the cell cycle. Cell Press. 28(4)
Nikhat A, Shaikh A, Chakrabarti S.  2025.  Combining lineage correlations and a small molecule inhibitor to detect circadian control of the cell cycle.. iScience. 28(4):112269.
Eriksson O, Bhalla USingh, Blackwell KT, Crook SM, Keller D, Kramer A, Linne M-L, Saudargienė A, Wade RC, Kotaleski JHellgren.  2022.  Combining hypothesis- and data-driven neuroscience modeling in FAIR workflows.. Elife. 11
Scolari VF, Lagomarsino MCosentino.  2015.  Combined collapse by bridging and self-adhesion in a prototypical polymer model inspired by the bacterial nucleoid.. Soft Matter. 11(9):1677-87.
Bardgett RD, Bullock JM, Lavorel S, Manning P, Schaffner U, Ostle N, Chomel M, Durigan G, Fry EL, Johnson D et al..  2021.  Combatting global grassland degradation. NATURE REVIEWS EARTH & ENVIRONMENT.
Sundaramurthy V, Strauss E.  2025.  Combating Tuberculosis: Obstacles, Innovations, and the Road Ahead.. ACS Infect Dis. 11(7):1754-1755.
Malhotra S, Sowdhamini R.  2015.  Collation and analyses of DNA-binding protein domain families from sequence and structural databanks.. Mol Biosyst. 11(4):1110-8.
Landschaft-Berliner D, Goldstein K, Teichman G, Anava S, Gingold H, Salzberg Y, Rieger I, Levy N, Pechuk V, Setty H et al..  2025.  Cold and lithium delay forgetting of olfactory memories in Caenorhabditis elegans.. Nat Neurosci.
Radhakrishnan D, Shanmukhan APallipurat, Kareem A, Aiyaz M, Varapparambathu V, Toms A, Kerstens M, Valsakumar D, Landge AN, Shaji A et al..  2020.  A coherent feed forward loop drives vascular regeneration in damaged aerial organs growing in normal developmental-context.. Development.
Javali A, Misra A, Leonavicius K, Acharya D, Vyas B, Sambasivan R.  2017.  Co-expression of Tbx6 and Sox2 identifies a novel transient neuromesoderm progenitor cell state.. Development.
Alcala N, Goldberg A, Ramakrishnan U, Rosenberg NA.  2019.  Coalescent theory of migration network motifs.. Mol Biol Evol.
Brilot AF, Lyon SA, Zelter A, Viswanath S, Maxwell A, MacCoss MJ, Muller EJ, Sali A, Davis TN, Agard DA.  2021.  CM1-driven assembly and activation of yeast γ-tubulin small complex underlies microtubule nucleation. Elife. 10
Singha T, Polley A, Barma M.  2023.  Clustering of lipids driven by integrin.. Soft Matter. 19(35):6814-6824.
Yamamoto J, Adachi K, Bower JR, Matsui H, Nakaya M, Ohtani R, Puneeta P, Suzuki S, Tokioka S, Vijai D et al..  2019.  Close-up observations on the spawning behavior of a captive Japanese flying squid (Todarodes pacificus).. Sci Rep. 9(1):19739.
Silva AP, Mukherjee S, Ramakrishnan U, Fernandes C, Björklund M.  2020.  Closely related species show species-specific environmental responses and different spatial conservation needs: Prionailurus cats in the Indian subcontinent.. Sci Rep. 10(1):18705.
Harshita C, Jain D.  2016.  Cloning, expression, purification, crystallization and initial crystallographic analysis of FleN from Pseudomonas aeruginosa.. Acta Crystallogr F Struct Biol Commun. 72(Pt 2):135-8.
Ramachandran V, Robin VV, Tamma K, Ramakrishnan U.  2017.  Climatic and geographic barriers drive distributional patterns of bird phenotypes within peninsular India. Journal of Avian Biology. 48(5):620-630.
Joshi A, Ratnam J, Paramjyothi H, Sankaran M.  2024.  Climate and vegetation collectively drive soil respiration in montane forest-grassland landscapes of the southern Western Ghats, India. Journal of Tropical Ecology. 40

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