Author Title Type [ Year(Asc)]
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.
Notani D.  2025.  Androgen receptor activation for breast cancer therapy.. Nat Rev Cancer.
Leong JV, Matos-Maraví P, Núñez R, Nunes R, Liang W, Kunte K.  2025.  Around the World in 26 Million Years: Diversification and Biogeography of Pantropical Grass-Yellow Eurema Butterflies (Pieridae: Coliadinae). Journal of Biogeography.
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.
Seshasayee ASai Narain.  2025.  Bacterial Genomes Trees and Networks. Bacterial Genomes Trees and Networks. 1:254.
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.
Nath VR, Krishnan H, Mishra S, Raghu P.  2025.  Ca2+ binding to Esyt modulates membrane contact site density in Drosophila photoreceptors.. J Cell Biol. 224(5)
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.
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
Cock MJW, Buddie AG, Cafa G, Chiba H, Kizhakke AGirish, Yu-Feng H, Kunte K.  2025.  DNA barcodes narrow down the possible sources of introductions of an invasive banana skipper, Erionota torus Evans (Lepidoptera, Hesperiidae). CABI Agriculture and Bioscience. 6(1)
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.
Powers JS, Brearley FQ, Ratnam J, Slade EM.  2025.  Editorial: Biotropica Announces a New Paper Category: Synthesis.
Mukunda CL, Sane SP.  2025.  Encoding of antennal position and velocity by the Johnston's organ in hawkmoths.. J Exp Biol.
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.
Nelson RA, Sullivan LL, Hersch-Green EI, Sankaran M.  2025.  Forb diversity globally is harmed by nutrient enrichment but can be rescued by large mammalian herbivory. Communications Biology. 8
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.
Ansil BR, Viswanathan A, Ramachandran V, Yeshwanth HM, Sanyal A, Ramakrishnan U.  2025.  Host-Pathogen-Vector Continuum in a Changing Landscape: Potential Transmission Pathways for in a Small Mammal Community.. Ecol Evol. 15(4):e71085.
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.
Shrivastava A, Kamma H, Das R, Ainavarapu SRama Koti.  2025.  Ionic Liquid-Induced Modulation of Ubiquitin Stability: The Dominant Role of Hydrophobic Interactions.. Langmuir. 41(9):5823-5837.
Prakash A, Weninger J, Singh N, Raman S, Rao M, Kruse K, Ladher RK.  2025.  Junctional force patterning drives both positional order and planar polarity in the auditory epithelia.. Nat Commun. 16(1):3927.
Adhikashreni IS, Joseph AMary, Phadke S, Badrinarayanan A.  2025.  Live tracking of replisomes reveals nutrient-dependent regulation of replication elongation rates in Caulobacter crescentus.. Curr Biol. 35(8):1816-1827.e3.
Gregori M, Pereira GJS, Allen R, West N, Chau K-Y, Cai X, Bostock MP, Bolsover SR, Keller M, Lee C-Y et al..  2025.  Lysosomal TPC2 channels disrupt Ca2+ entry and dopaminergic function in models of LRRK2-Parkinson's disease.
Bhattacharyya C, Subramanian K, Uppili B, Biswas NK, Ramdas S, Tallapaka KBharadwaj, Arvind P, Rupanagudi KValli, Maitra A, Nagabandi T et al..  2025.  Mapping genetic diversity with the GenomeIndia project.. Nat Genet. 57(4):767-773.
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)
Pilon N, Peixoto F, Ratnam J, Sankaran M.  2025.  Open letter: There are more than just trees and forests to be conserved and restored.
Gandhivel VHari-Sunda, Sotelo-Parrilla P, Raju S, Jha S, Gireesh A, Harshith CY, Gut F, Vinothkumar KR, Berger F, A. Jeyaprakash A et al..  2025.  An Oryza-specific histone H4 variant predisposes H4 lysine 5 acetylation to modulate salt stress responses.
Deshmukh R, Baral S, Kuwalekar M, Kizhakke AGirish, Kunte K.  2025.  Reproductive Barriers and Genomic Hotspots of Adaptation During Allopatric Species Divergence.. Mol Ecol. :e17703.
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.
Borer E, Seabloom E, Slette I, Wilfahrt P, Asmus A, Sankaran M.  2025.  Species cover, community biomass, and richness in global grasslands from NutNet (2007–2023): Dominant species predict plant richness and biomass in global grasslands.
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.
Kumar M, Sane S, Murali A, Thutupalli S.  2025.  Temperature switchable self-propulsion activity of liquid crystalline microdroplets.. Soft Matter.
Laurance WF, Ramakrishnan U.  2025.  Tiger turnaround as populations grow in India.. Nature. 640(8059):603-604.
Prasad M, Shetty P, Pal AKumar, Rigó G, Kant K, Zsigmond L, Nagy I, Shivaprasad PV, Szabados L.  2025.  Transcriptional and epigenomic changes in response to PEG-triggered osmotic stress in rapeseed (Brassica napus L.).. J Exp Bot.
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.
2024
Bohra D, Islam Z, Nidharshan S, Mazumder A, Notani D.  2024.  Acute Activation of Genes Through Transcriptional Condensates Impact Non-target Genes in a Chromatin Domain. eLife.
Vaishnav MS, Kumari N, Srikanta S, Simha V, Krishnaswamy PR, Balaram P, Bhat N.  2024.  Albumin Oxidation and Albumin Glycation Discordance During Type 2 Diabetes Therapy: Biological and Clinical Implications.. Metab Syndr Relat Disord. 22(5):372-384.
Viswanath S.  2024.  AlphaFold opens the doors to deorphanizing secreted proteins.. Cell Syst. 15(11):1000-1001.
Jhaveri R, Cannanbilla L, Bhat KSArpitha, Sankaran M, Krishnadas M.  2024.  Anatomical traits explain drought response of seedlings from wet tropical forests.. Ecol Evol. 14(9):e70155.
Rathod SG, Singh A, Mantri VA.  2024.  Ascertaining the spatiotemporal variations in seaweed assemblages associated with the endemic seaweed Ulva ovata along selected locations of the Gulf of Khambhat, India. AQUATIC ECOLOGY.
Cherian P, Kshirsagar J, Neekhra B, Deshkar G, Hayatnagarkar H, Kapoor K, Kaski C, Kathar G, Khandekar S, Mookherjee S et al..  2024.  BharatSim: An agent-based modelling framework for India.. PLoS Comput Biol. 20(12):e1012682.
Collins DM, Janardan V, Barneda D, Anderson KE, Niewczas I, Taylor D, Qiu D, Jessen HJ, Lopez-Clavijo AF, Walker S et al..  2024.  CDS2 expression regulates de novo phosphatidic acid synthesis.. Biochem J. 481(20):1449-1473.
Sreepadmanabh M, Ganesh M, Sanjenbam P, Kurzthaler C, Agashe D, Bhattacharjee T.  2024.  Cell shape affects bacterial colony growth under physical confinement.. Nat Commun. 15(1):9561.
Raghu P, Sharma Y, Devi ABhuvanendr, Krishnan H.  2024.  Challenges and opportunities for discovering the biology of rare genetic diseases of the brain.. J Biosci. 49
Zhang C, Joseph AMary, Casini L, Collier J, Badrinarayanan A, Manley S.  2024.  Chromosome organization shapes replisome dynamics in Caulobacter crescentus.. Nat Commun. 15(1):3460.
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
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.
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.
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.
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.
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.
Singh A, Thutupalli S, Kumar M, Ameta S.  2024.  Constrained dynamics of DNA oligonucleotides in phase-separated droplets.. Biophys J.
Thutupalli S.  2024.  The cost of cellular patterns. Nature Physics. 20:1704–1705.
Hussain N, Apotikar A, Pidathala S, Mukherjee S, Burada AP, Sikdar SK, Vinothkumar KR, Penmatsa A.  2024.  Cryo-EM structures of pannexin 1 and 3 reveal differences among pannexin isoforms.. Nat Commun. 15:2942.
Narah J, Streinzer M, Chakravorty J, Megu K, Spaethe J, Brockmann A, Schmitt T.  2024.  Cuticular Hydrocarbon Profiles of Himalayan Bumble Bees (Hymenoptera: Bombus Latreille) are Species-Specific and Show Elevational Variation.. J Chem Ecol.
Joshi S, Sarkar V, Sawant D, Pawar U, Kunte K.  2024.  Description of Protosticta khasia sp. nov. and Yunnanosticta siangi sp. nov., with new records of P. samtsensis Gurung & Phan, 2023 from Northeast India (Odonata: Zygoptera: Platystictidae).. Zootaxa. 5448(3):348-370.
Sreepadmanabh M, Arun AB, Bhattacharjee T.  2024.  Design approaches for 3D cell culture and 3D bioprinting platforms.. Biophys Rev (Melville). 5(2):021304.
Sawant D, Joshi S, Pawar U, Naik P, Khan F, Nawge V, Kunte K.  2024.  Devadatta adii sp. nov. (Odonata: Zygoptera: Devadattidae) from Upper Siang District, Arunachal Pradesh, India. ZOOTAXA. 5519(4):571-589.
Sawant D, Joshi S, Pawar U, Naik P, Khan F, Nawge V, Kunte K.  2024.  Devadatta adii sp. nov. (Odonata: Zygoptera: Devadattidae) from Upper Siang District, Arunachal Pradesh, India.. Zootaxa. 5519(4):571-589.
Kumar S, Ghosh S, Shanavas N, Sivaramakrishnan V, Dwari M, Das S.  2024.  Development of pial collaterals by extension of pre-existing artery tips.. Cell Rep. 43(10):114771.
Mishra S, Bansal M, Prasad V, Singh VPartap, Murthy S, Parmar S, Utescher T, Khangar R.  2024.  Did the Deccan Volcanism impact the Indian flora during the Maastrichtian? EARTH-SCIENCE REVIEWS. 258(104950)
Rana D, Sartor CC, Chiaverini L, Cushman SA, Kaszta Z, Ramakrishnan U., Macdonald DW.  2024.  Differentially biased sampling strategies reveal the non-stationarity of species distribution models for Indian small felids. ECOLOGICAL MODELLING. 493
Agrawal K, Prabhakar S, Bakthavachalu B, Chaturvedi D.  2024.  Distinct developmental patterns in Anopheles stephensi organ systems.. Dev Biol. 508:107-122.
Sanjenbam P, Agashe D.  2024.  Divergence and convergence in epiphytic and endophytic phyllosphere bacterial communities of rice landraces.. mSphere. :e0076524.
Khan A, Sil M, Thekaekara T, Garg KM, Sinha I, Khurana R, Sukumar R, Ramakrishnan U.  2024.  Divergence and serial colonization shape genetic variation and define conservation units in Asian elephants.. Curr Biol.
Todisco V, Basu DNath, Prosser SWJ, Russell S, Mutanen M, Zilli A, Huertas B, Kunte K, Vane-Wright R.  2024.  DNA barcodes from over-a-century-old type specimens shed light on the taxonomy of a group of rare butterflies (Lepidoptera: Nymphalidae: Calinaginae).. PLoS One. 19(7):e0305825.
Theeyancheri L, Chaki S, Bhattacharjee T, Chakrabarti R.  2024.  Dynamic clustering of active rings. Phys. Rev. Research. 6(L012038 )
Rajput V, Das R, Pramanik R, Nannaware K, Sushma Y, Taji N, Rajput V, Rajkhowa R, Pacharne P, Shah P et al..  2024.  Early Detection of KP.2 SARS-CoV-2 Variant using Wastewater-based Genomic Surveillance in Pune, Maharashtra, India.. J Travel Med.
Kaur K, Chandel M, Munikrishnappa VKT, Kumar P, Sahu BK, Ahamed M, Manjunath S, Gorantla M, Olsson S, Muthusamy E et al..  2024.  Ecofriendly agriculture pest control using pheromone packed programed nanovolcanoes framed by graphene oxide. CLEAN TECHNOLOGIES AND ENVIRONMENTAL POLICY.
Kumar M, Murali A, Subramaniam AGopal, Singh R, Thutupalli S.  2024.  Emergent dynamics due to chemo-hydrodynamic self-interactions in active polymers.. Nat Commun. 15(1):4903.
Simões deOliveira L, O'Leary HE, Nawaz S, Loureiro R, Davenport EC, Baxter P, , Dando O, Perkins E, Peltier J et al..  2024.  Enhanced hippocampal LTP but normal NMDA receptor and AMPA receptor function in a rat model of CDKL5 deficiency disorder.. Mol Autism.. 15(1):28.
Chaturvedi N, Chatterjee P.  2024.  Evolutionary Adaptation in Heterogeneous and Changing Environments.. Evolution.
Jean-François F, Pratibha S, Stéphane F, Enisa A, Fabrice N, Bernard M, Deepa A, Claude E.  2024.  Experimental Evolution Induced by Maternal Post-copulatory Factors in Drosophila.. Behav Genet.
Maes S.L, Perring M.P, Cohen R., Akinnifesi F.K, Bargues-Tobella A., Bastin J.-f., Bauters M., Bernardino P.N, Brancalion P.HS, Bullock J.M et al..  2024.  Explore before you restore: Incorporating complex systems thinking in ecosystem restoration. JOURNAL OF APPLIED ECOLOGY .
Premageetha GThambraRaj, Vinothkumar KR, Bose S.  2024.  Exploring advances in single particle CryoEM with apoferritin: From blobs to true atomic resolution.. Int J Biochem Cell Biol. 169:106536.
Neethu K.C, Pushpadass HA, Franklin MEE, Krishnamurthy H..  2024.  Exploring oil absorption and distribution in immersion-fried pantoa (Indian dairy dessert): effects of frying media. Journal of Food Science and Technology.
Yadav S, Vinothkumar KR.  2024.  Factors affecting macromolecule orientations in thin films formed in cryo-EM.. Acta Crystallogr D Struct Biol. 80(Pt 7):535-550.
Chaba Z, Jain I, Tran PT.  2024.  Fission yeast spindle dynamics and chromosome segregation fidelity show distinct thermosensitivity.. MicroPubl Biol. 2024
Gupta D, Sane SP, Arakeri JH.  2024.  Generating controlled gust perturbations using vortex rings.. PLoS One. 19(7):e0305084.
Grossen C, Ramakrishnan U.  2024.  Genetic load.. Curr Biol. 34(24):R1216-R1220.
Mishra S., Manohar V., Chandel S., Manoj T., Bhattacharya S., Hegde N., Nath V.R., Krishnan H., Wendling C., Mattia T.D. et al..  2024.  A genetic screen to uncover mechanisms underlying lipid transfer protein function at membrane contact sites . Life Sci Alliance. 7(6):e202302525.
Panda S, Anandan A, K Shafi M, Naika MBN, Sowdhamini R, Vanishree G, Sarkar S, Travis AJ, Norton GJ, Price AH.  2024.  Genome-wide association study reveals effect of nsSNPs on candidate genes in rice during iron deficiency.. Funct Integr Genomics. 24(6):198.
Raju A, Siggia ED.  2024.  A geometrical model of cell fate specification in the mouse blastocyst.. Development. 151(8)
Marathe K, Maddison WP, Kunte K.  2024.  Ghatippuspaschima, a new species and genus of plexippine jumping spider from the Western Ghats of India (Salticidae, Plexippini, Plexippina).. Zookeys. 1191:89-103.
Tanaka S, Matsushita Y, Hanaki Y, Higaki T, Kamamoto N, Matsushita K, Higashiyama T, Fujimoto K, Ueda M.  2024.  HD-ZIP IV genes are essential for embryo initial cell polarization and the radial axis formation in Arabidopsis.. Curr Biol.

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