Author Title Type [ Year(Desc)]
2024
Saha S, Krishnan H, Raghu P.  2024.  IMPA1 dependent regulation of phosphatidylinositol 4,5-bisphosphate and calcium signalling by lithium.. Life Sci Alliance. 7(2):e202302425.
Jain H, Ghosh S.  2024.  Imprinting reversible deformations on a compressed soft rod network. SOFT MATTER. 20(26)
Bhaumik V, Kumar A, Ratnam J.  2024.  Indian wildlife ecology comes of age.. Nat Ecol Evol.
Treidel LA, Deem KD, Salcedo MK, Dickinson MH, Bruce HS, Darveau C-A, Dickerson BH, Ellers O, Glass JR, Gordon CM et al..  2024.  Insect Flight: State of the Field and Future Directions.. Integr Comp Biol.
Liu X, Zhang Y, Wen Z, Hao Y, Banks CAS, Cesare J, Bhattacharya S, Arvindekar S, Lange JJ, Xie Y et al..  2024.  An integrated structural model of the DNA damage-responsive H3K4me3 binding WDR76:SPIN1 complex with the nucleosome.. Proc Natl Acad Sci U S A. 121(33):e2318601121.
Parvathy J, Yazhini A, Srinivasan N, Sowdhamini R.  2024.  Interfacial residues in protein-protein complexes are in the eyes of the beholder.. Proteins.
Babu NKrishna, Sreepadmanabh M, Dutta S, Bhattacharjee T.  2024.  Interplay of geometry and mechanics in epithelial wound healing.. Phys Rev E. 110(5-1):054411.
Dewan A, Jain C, Das M, Tripathi A, Sharma AKumar, Singh H, Malhotra N, Seshasayee ASai Narain, Chakrapani H, Singh A.  2024.  Intracellular peroxynitrite perturbs redox balance, bioenergetics, and Fe-S cluster homeostasis in Mycobacterium tuberculosis.. Redox Biol. 75:103285.
Hasan G.  2024.  IPRs and nSOCE-Tied Together at Two Ends.. Contact (Thousand Oaks). 7:25152564241231092.
Lu H, Twan WKyaw, Ikawa Y, Khare V, Mukherjee I, Schou KBødtker, Chua KXin, Aqasha A, Chakrabarti S, Hamada H et al..  2024.  Localisation and function of key axonemal microtubule inner proteins and dynein docking complex members reveal extensive diversity among vertebrate motile cilia.. Development. 151(14)
Varma A, Udupa S, Sengupta M, Ghosh PKumar, Thirumalai V.  2024.  A machine-learning tool to identify bistable states from calcium imaging data.. J Physiol.
Viswan NAnn, Tribut A, Gasparyan M, Radulescu O, Bhalla US.  2024.  Mathematical basis and toolchain for hierarchical optimization of biochemical networks.. PLoS Comput Biol. 20(12):e1012624.
Singha D, Patidar A, Pal S, Tyagi K, Kumar V.  2024.  Mitochondrial genetic diversity of pest and vector species, Frankliniella schultzei (Thripidae: Thripinae).. Mol Biol Rep. 52(1):55.
Jha S, Bose S, Vinothkumar KR.  2024.  Modeling Ligands into Maps Derived from Electron Cryomicroscopy.. J Vis Exp. (209)
Pasani S, Menon KS, Viswanath S.  2024.  The molecular architecture of the desmosomal outer dense plaque by integrative structural modeling.. Protein Sci. 33(12):e5217.
Chaitanya P, Vijayaraghavareddy P, Lekshmy S, Spoorthi N, Math RGH, Shinde DD, Struik PC, Sreeman S.  2024.  Molecular basis of distinct responses to drought between rice and wheat genotypes. Environmental and Experimental Botany. 221:105734.
Srivastava V, Patra K, Pai H, Aguilar-Pontes MVictoria, Berasategui A, Kamble A, Di Pietro A, Redkar A.  2024.  Molecular Dialogue During Host Manipulation by the Vascular Wilt Fungus .. Annu Rev Phytopathol. 62(1):97-126.
Pramanik R, Nannaware K, Malik V, Shah P, Sangewar P, Gogate N, Shashidhara LS, Boargaonkar R, Patil D, Kale S et al..  2024.  Monitoring Influenza A (H1N1, H3N2), RSV, and SARS-CoV-2 Using Wastewater-Based Epidemiology: A 2-Year Longitudinal Study in an Indian Megacity Covering Omicron and Post-Omicron Phases.. Food Environ Virol. 17(1):3.
Singh N, Kaushik R, Prakash A, Saini SSingh, Garg S, Adhikary A, Ladher RK.  2024.  Mosaic Atoh1 deletion in the chick auditory epithelium reveals a homeostatic mechanism to restore hair cell number.. Dev Biol. 516:35-46.
Prusty AD, Sane SP.  2024.  The motor apparatus of head movements in the Oleander hawkmoth (Daphnis nerii, Lepidoptera).. J Comp Neurol. 532(1):e25577.
Sane SP, Wehling R, Daniel T.  2024.  Multisensory integration in insect flight control.. Biol Lett. 20(1):20230565.
Garushyants SK, Sane M, Selifanova MV, Agashe D, Bazykin GA, Gelfand MS.  2024.  Mutational signatures in wild type Escherichia coli strains reveal predominance of DNA polymerase errors.. Genome Biol Evol.
Lingamallu SManoz, Deshpande A, Joy N, Ganeshan K, Ray N, Ladher RKumar, Taketo MMark, Lafkas D, Guha A.  2024.  Neuroepithelial bodies and terminal bronchioles are niches for distinctive club cells that repair the airways following acute notch inhibition.. Cell Rep. 43(9):114654.
Sondhi S, Efetov KA, Tarmann GM, Karmakar T, Pawar U, Kunte K.  2024.  A new species of Piarosoma Hampson, 1893 (Lepidoptera, Zygaenidae, Procridinae, Artonini) from Arunachal Pradesh, India.. Zootaxa. 5270(1):139-145.
Kunte K, Sengupta A, Pawar U, Nawge V.  2024.  A new species of silverline butterfly, Cigaritis Donzel, 1847 (Lepidoptera: Lycaenidae), from the Western Ghats biodiversity hotspot, India.. Zootaxa. 5399(1):85-95.
Hannenhalli S, Li S, Fatema K, Nidharshan S, Singh A, Rajagopal PSheila, Notani D, Takeda D.  2024.  Non-coding genetic variants underlying higher prostate cancer risk in men of African ancestry.. Res Sq.
Subhadarshini S, Tandon H, Srinivasan N, Sowdhamini R.  2024.  Normal Mode Analysis Elicits Conformational Shifts in Proteins at Both Proximal and Distal Regions to the Phosphosite Stemming from Single-Site Phosphorylation.. ACS Omega. 9(23):24520-24537.
Arvindekar S, Pathak AS, Majila K, Viswanath S.  2024.  Optimizing representations for integrative structural modeling using Bayesian model selection.. Bioinformatics. 40(3)
Mitra R, Richhariya S, Hasan G.  2024.  Orai-mediated calcium entry determines activity of central dopaminergic neurons by regulation of gene expression.. Elife. 12
Gowda A, C ST, Anil VS, Raghavan S.  2024.  Phytosynthesis of silver nanoparticles using aqueous sandalwood (Santalum album L.) leaf extract: Divergent effects of SW-AgNPs on proliferating plant and cancer cells.. PLoS One. 19(4):e0300115.
G Sundar VHari, Madhu A, Archana A, Shivaprasad PV.  2024.  Plant histone variants at the nexus of chromatin readouts, stress and development.. Biochim Biophys Acta Gen Subj. 1868(2):130539.
Krishnadas M, Kandlikar G, Corrales A.  2024.  Plant-microbe interactions in tropical and subtropical ecosystems.. Am J Bot. 111(12):e16444.
Negi H, Ravichandran A, Dasgupta P, Reddy S, Das R.  2024.  Plasticity of the proteasome-targeting signal Fat10 enhances substrate degradation.. Elife. 13
Sultana I, Khandakar N, Das DK, Quader S, Viswanathan A.  2024.  Polychaete worm density correlates with aggregate shorebird density, prey intake rate and foraging success at an intertidal mudflat in Bangladesh. ARDEA. 112(1)
Narayanan S, Varma A, Thirumalai V.  2024.  Predictive neural computations in the cerebellum contribute to motor planning and faster behavioral responses in larval zebrafish.. Sci Adv. 10(1):eadi6470.
Ganguly D, Srivathsa A.  2024.  Ratel Mellivora capensis in a human-dominated savanna landscape in Kachchh, Gujarat, India. Small Carnivore Conservation. 62
Chawla S, Oster H, Duffield GE, Maronde E, Guido ME, Chabot C, Dkhissi-Benyahya O, Provencio I, Goel N, Youngstedt SD et al..  2024.  Reflections on Several Landmark Advances in Circadian Biology.. J Circadian Rhythms. 22:1.
Tolgyesi C, Helm A, Ratnam J, Silveira FAO, Torok P.  2024.  Restoration of open ecosystems in the face of climate change. GLOBAL ECOLOGY AND CONSERVATION. 53(e02989)
Subramaniam AGopal, Kumar M, Thutupalli S, Singh R.  2024.  Rigid flocks, undulatory gaits, and chiral foldamers in a chemically active polymer. NEW JOURNAL OF PHYSICS. 26(8)
Soota D, Saravanan B, Mann R, Kharbanda T, Notani D.  2024.  RNA fine-tunes estrogen receptor-alpha binding on low-affinity DNA motifs for transcriptional regulation.. EMBO J.
Tyagi A, Yadav N, Pandit A, Ramakrishnan U.  2024.  On the road to losing connectivity: Faecal samples provide genome-wide insights into anthropogenic impacts on two large herbivore species in central India.. Mol Ecol. :e17461.
Himeoka Y, Kirkegaard JB, Mitarai N, Krishna S.  2024.  Roles of network topology in the relaxation dynamics of simple chemical reaction network models.. Sci Rep. 14(1):22187.
Issar S, Leroy C, d'Ettorre P, Kilner RM.  2024.  Seasonal Patterns of Resource Use Within Natural Populations of Burying Beetles.. Ecol Evol. 14(10):e70429.
Krishnan S, Karpe SDilip, Kumar H, Nongbri LB, Venkateswaran V, Sowdhamini R, Grosse-Wilde E, Hansson BS, Borges RM.  2024.  Sensing volatiles throughout the body: geographic- and tissue-specific olfactory receptor expression in the fig wasp.. Insect Sci.
Kamble A, Michavila S, Gimenez-Ibanez S, Redkar A.  2024.  Shared infection strategy of a fungal pathogen across diverse lineages of land plants, the Fusarium example.. Curr Opin Plant Biol. 77:102498.
Chaurasia R, Ayajuddin M, Ratnaparkhi GS, Lingadahalli SS, Yenisetti SC.  2024.  A Simple Immunofluorescence Method to Characterize Neurodegeneration and Tyrosine Hydroxylase Reduction in Whole Brain of a Model of Parkinson's Disease.. Bio Protoc. 14(4):e4937.
Ghosh-Harihar M, Yadav N, Gurung N, Darshan C.S, Shashikumar B., Vishnudas C.K, Prakash V, Green RE, Ramakrishnan U.  2024.  Spatial patterns in the diet of Gyps vultures in India and their implications for conservation. BIOLOGICAL CONSERVATION. 292(110551)
Mohanakrishnan V, Sivaraj KK, Jeong H-W, Bovay E, Dharmalingam B, M Bixel G, Dinh VVuong, Petkova M, Ugarte IParedes, Kuo Y-T et al..  2024.  Specialized post-arterial capillaries facilitate adult bone remodelling.. Nat Cell Biol.
Verma S, Menon R, Sowdhamini R.  2024.  Structural insights into the role of deleterious mutations at the dimeric interface of Toll-like receptor interferon-β related adaptor protein.. Proteins.
Petrauskas A., Fortunati DL, Kandi AR, Pothapragada SS, Agrawal K., Singh A., Huelsmeier J., Hillebrand J., Brown G., Chaturvedi D. et al..  2024.  Structured and disordered regions of Ataxin-2 contribute differently to the specificity and efficiency of mRNP granule formation. PLoS Genetics. 20(20):e1011251.
Mukherjee AKishore, Dutta S, Singh A, Sharma S, Roy SShekhar, Sengupta A, Chatterjee M, Vinayagamurthy S, Bagri S, Khanna D et al..  2024.  Telomere length sensitive regulation of interleukin receptor 1 type 1 (IL1R1) by the shelterin protein TRF2 modulates immune signalling in the tumour microenvironment.. Elife. 13
Marathe K, Caleb JTD, Maddison WP, Nisha BG, Maliye CC, Lohit YT, Kunte K.  2024.  Tenkana,, a new genus of jumping spiders (Salticidae, Plexippina) from South Asia, with the new Indian species .. Zookeys. 1215:91-106.
Ravichandran A, Das R.  2024.  The Thermodynamic Properties of Fat10ylated Proteins Are Regulated by the Fat10ylation Site. ACS OMEGA. 9(20):22265-22276.
Roy T, Beer K.  2024.  Time memory in social insects with a special focus on honey bees.. Curr Opin Insect Sci. 68:101327.
Chawla S, O'Neill J, Knight MI, He Y, Wang L, Maronde E, Rodríguez SGil, van Ooijen G, Garbarino-Pico E, Wolf E et al..  2024.  Timely Questions Emerging in Chronobiology: The Circadian Clock Keeps on Ticking.. J Circadian Rhythms. 22:2.
Verma S, Sowdhamini R.  2024.  Toll-like receptor 4 pathway evolutionary trajectory and functional emergence.. Frontiers in Immunology. 15:1494017.
Mahadevan C, K Shafi M, Nagarathnam B, Sakuntala M, Sowdhamini R.  2024.  Transcriptional regulation of hormone signalling genes in black pepper in response to Phytophthora capsici.. BMC Genomics. 25(1):910.
K BKumar A, George EAntony, Brockmann A.  2024.  Tropical and montane Apis cerana show distinct dance-distance calibration curves.. J Exp Biol.
Kunte K, Basu DNath.  2024.  Two new taxa of brush-footed butterflies (Lepidoptera: Nymphalidae) from the Western Ghats biodiversity hotspot, southern India.. Zootaxa. 5543(3):343-367.
Garcia-Parajo MF, Mayor S.  2024.  The ubiquitous nanocluster: A molecular scale organizing principle that governs cellular information flow.. Curr Opin Cell Biol. 86:102285.
Adhikari S, Singh V, Nandi S, Ghosal M, Raj NSundar, Khanna J, Bhattacharya A, Kabiraj A, Mondal A, Vasudevan M et al..  2024.  UBR7 in concert with EZH2 inhibits the TGF-β signaling leading to extracellular matrix remodeling.. Cell Rep. 43(7):114394.
Armstrong EE, Mooney JA, Solari KA, Kim BY, Barsh GS, Grant VB, Greenbaum G, Kaelin CB, Panchenko K, Pickrell JK et al..  2024.  Unraveling the genomic diversity and admixture history of captive tigers in the United States.. Proc Natl Acad Sci U S A. 121(39):e2402924121.
Pal AKumar, Gandhivel VHari-Sunda, Nambiar AB, Shivaprasad PV.  2024.  Upstream regulator of genomic imprinting in rice endosperm is a small RNA-associated chromatin remodeler.. Nat Commun. 15(1):7807.
Rajput V, Pramanik R, Nannaware K, Malik V, Matra S, Kumar S, Joshi S, Kadam P, Bhalerao U, Tupekar M et al..  2024.  Wastewater surveillance in post-omicron silent phase uncovers silent waves and cryptic transmission of SARS-CoV-2 variants; a yearlong study in Western India.. Sci Total Environ. 955:176833.
Kamat A, Tran NT, Sharda M, Sontakke N, Le TBK, Badrinarayanan A.  2024.  Widespread prevalence of a methylation-dependent switch to activate an essential DNA damage response in bacteria.. PLoS Biol. 22(3):e3002540.
Balaram P.  2024.  William L. Mock and Cucurbituril: The Resurrection of the Behrend Paper of 1905.. ACS Omega. 9(4):4162-4165.
Thattai M.  2024.  Wisdom of (molecular) crowds: How a snake's temperaturesensing superpower separates information from misinformation.. J Biosci. 49
Harshith CY, Pal A, Chakraborty M, Nair A, Raju S, Shivaprasad PV.  2024.  Wound-induced small-peptide-mediated signaling cascade, regulated by OsPSKR, dictates balance between growth and defense in rice.. Cell Rep. 43(7):114515.
2025
Prabantu VManjveekar, Tandon H, Sandhya S, Sowdhamini R, Srinivasan N.  2025.  The alteration of structural network upon transient association between proteins studied using graph theory.. Proteins. 93(1):217-225.
Beaurepaire AL, Hogendoorn K, Kleijn D, Otis GW, Potts SG, Singer TL, Boff S, Pirk C, Settele J, Paxton RJ et al..  2025.  Avenues towards reconciling wild and managed bee proponents.. Trends Ecol Evol. 40(1):7-10.
Viswanath S.  2025.  BPS2025 - Recent developments in integrative structural modeling of macromolecular assemblies. Biophysical Journal. 124(3)
Das SSwayam Pra, Prabantu VManjveekar, Sowdhamini R, Srinivasan N.  2025.  BPS2025 - Structural network comparison of domains across remote homologs. Biophysical Journal. 124(3):215a-216a.
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.
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.
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.
Somashekar BPriya, Bhalla USingh.  2025.  Discriminating neural ensemble patterns through dendritic computations in randomly connected feedforward networks.. Elife. 13
Jean-François F, Pratibha S, Baptiste R, Jean-Pierre F, Jérôme C, Deepa A, Claude E.  2025.  Is Drosophila Larval Competition Involved in Incipient Speciation? J Chem Ecol. 51(1):2.
Dubey A, Muthu G, Seshasayee ASai Narain.  2025.  Evolution of transcription factor-containing superfamilies in Eukaryotes.. Journal of Molecular Biology. :168959.
Seshadri A, Badrinarayanan A.  2025.  Exonuclease action of replicative polymerase gamma drives damage-induced mitochondrial DNA clearance. EMBO Reports. :1-21.
Benitez LM, Parr CL, Sankaran M, Ryan CM.  2025.  Fragmentation in patchy ecosystems: a call for a functional approach.. Trends Ecol Evol. 40(1):27-36.
Ahmad M, Rathee S, Krishnadas M.  2025.  From low to high elevations, flowers adapt traits and phenology to climate, but phenology-trait relationships weak. Functional Ecology. :1-14.
Majila K, Arvindekar S, Jindal M, Viswanath S.  2025.  Frontiers in integrative structural modeling of macromolecular assemblies. QRB Discovery. 6:e3.
Abbondanzieri EA, Badrinarayanan AB, Barillà D, Bell SD, Blombach F, Bouet JY, Bulgheresi S, Cao QAD, Dame RT, Dekker C et al..  2025.  Future Directions of the Prokaryotic Chromosome Field.. Mol Microbiol. 123(2):89-100.
MacDonald E, Forrester A, Valades-Cruz CA, Madsen TD, Hetmanski JHR, Dransart E, Ng Y, Godbole R, Shp AAkhil, Leconte L et al..  2025.  Growth factor-triggered de-sialylation controls glycolipid-lectin-driven endocytosis.. Nat Cell Biol.
Kakani P, Dhamdhere SGanesh, Pant D, Joshi R, Mishra S, Pandey A, Notani D, Shukla S.  2025.  Hypoxia-induced CTCF mediates alternative splicing via coupling chromatin looping and RNA Pol II pause to promote EMT in breast cancer.. Cell Rep. 44(2):115267.
Ansil BR, Sanyal A, Sreenivas D, Garg KM, Ramakrishnan U, Chattopadhyay B.  2025.  Identification of Distinct Rodent-Associated Adenovirus Lineages from Mixed-Use Landscape.. Ecohealth.
Goyal P, Dhanabalan KV, Scalise M, Friemann R, Indiveri C, Dobson RCJ, Vinothkumar KR, Ramaswamy S.  2025.  Molecular determinants of Neu5Ac binding to a tripartite ATP independent periplasmic (TRAP) transporter.
Soler JAntoni, Singh A, Zerial M, Thutupalli S.  2025.  Motor Function of the Two-Component EEA1-Rab5 Revealed by dcFCCS.. Methods Mol Biol. 2881:87-115.
Rathore S, Gahlot D, Castin J, Pandey A, Arvindekar S, Viswanath S, Thukral L.  2025.  Multiscale simulations reveal architecture of NOTCH protein and ligand specific features.. Biophys J. 124(2):393-407.
Dharmaraaj B, Kunte K.  2025.  Natural and sexual selection and functional roles influence colouration but not the amount of variation in butterfly wing colour patterns.. BMC Ecol Evol. 25(1):11.
Krishnamoorthy VK, Hamdani F, Shukla P, Rao RArasala, Anaitullah S, Biligiri KKestur, Kadumuri RVarma, Pothula PReddy, Chavali S, Rampalli S.  2025.  NSD3 protein methylation and stabilization transforms human ES cells into variant state.. Life Sci Alliance. 8(3)
Da W, Rana SK, Bawa K, Kunte K, Wang Z.  2025.  Roof of the world: Home and border in the genomic era. Molecular Ecology Resources.
Lall S, Balaram P, Mathew MK, Gosavi S.  2025.  Sequence of the SARS-CoV-2 Spike Transmembrane Domain Encodes Conformational Dynamics.. J Phys Chem B. 129(1):194-209.
Reddy PPurushotha, Phale A, Das R.  2025.  Structural analysis of genetic variants of the human tumor suppressor Palb2 coiled-coil domain.. Biosci Rep.
Virdi S, Sane SP.  2025.  Structure of the Femoral Chordotonal Organ in the Oleander Hawkmoth, Daphnis nerii.. The Journal of Comparative Neurology. 533(2):e70022.
CHANDRAN AYIKKARAVIVEK, SAWANT DATTAPRASAD, CHANDRAN REJI, KOPARDE PANKAJ, JOSE SUBINKANIYAMATT, Kunte K.  2025.  Two new species of Merogomphus Martin, 1904 (Odonata: Anisoptera: Gomphidae) from the Western Ghats, India. Zootaxa. 5588(2):201-226.

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