2023
Das KK, Mohapatra A, George AP, Chavali S, Witzel K, Ramireddy E. The proteome landscape of the root cap reveals a role for the jacalin-associated lectin JAL10 in the salt-induced endoplasmic reticulum stress pathway. Plant Communications. 2023; 4: 100726.
DOI: 10.1016/j.xplc.2023.100726
Eragam A, Mohapatra A, Shukla V, Kadumuri RV, George Ab, Putta L, Akkareddy S, Chavali S, Vemireddy LR, Ramireddy E. Panicle transcriptome of a high-yield mutant indica rice reveals physiological mechanisms and novel regulatory genes for yield under reproductive stage drought stress. BMC Plant Biology. 2023; 23: 493.
DOI: 10.1186/s12870-023-04507-1
Singh AK, Amar I, Ramadasan H, Kappaguntala KS, Chavali S*. Proteins with amino acid repeats constitute the rapidly evolvable and human-specific essentialome. Cell Reports. 2023; 42: 112811.
PUBMED: 37453061
Samantaray D, Vankanavath AB, Ramadurai D, Kadumuri RV, Chavali S, Allu AD. Thermopriming mitigates the effects of heat stress by modulating the expression of Heat Shock Factors in Brassica juncea (Indian mustard). Environmental and Experimental Botany. 2023; 211: 105371.
DOI: https://doi.org/10.1016/j.envexpbot.2023.105371
Rachote N, Agrawal A, Chavali PL, Chavali S*. RNA as Modulators of Infection Outcome: Potential Usage for Genomic Surveillance in Genomic Surveillance and Pandemic Preparedness, 2023 (Ed: Rajesh Pandey), Elsevier Academic Press.
Chavali PL, Singh AK, Chavali S*. Nuclear architecture and transcriptional regulation of microRNAs in MicroRNA in Regenerative Medicine, Second Edition, 2023 (Ed: Chandan Sen), Elsevier Academic Press.
2022
Chutani N, Singh AK, Kadumuri RV, Pakala SB, Chavali S*. Structural attributes and functional roles of Microrchidia family of chromatin remodelers. Journal of Molecular Biology. 2022; 434: 167664.
PUBMED: 35659506
Nair A, Bhukya DPN, Sunkar R, Chavali S, Allu AD. Molecular basis of priming-induced acquired tolerance to multiple abiotic stresses in plants. Journal of Experimental Botany. 2022; 73: 3355-71.
DOI: https://doi.org/10.1093/jxb/erac089
2021
Govindaraju G, Chavali S, Rajavelu A. Plasmodium falciparum YTH2 domain binds to m6A-containing mRNA and regulates translation. mBio 2021; 12: e0136721.
PUBMED: 34809465
Gupta S, Kadumuri RV, Singh AK, Chavali S, Dhayalan A. Structure, activity and function of the protein arginine methyltransferase 6. Life 2021; 11: 951.
PUBMED: 34575100
Khan MIKK, Charles RCM, Ramachandran R, Gupta S, Govindaraju G, Mishra R, Rajavelu A, Coumar MS, Chavali S*, Dhayalan A*. The ribosomal protein eL21 interacts with the protein lysine methyl transferase SMYD2 and regulates its steady state levels. Biochimica et Biophysica Acta - Molecular Cell Research. 2021; 1868: 119079.
PUBMED: 34147559
Chakrapani B, Khan MIK, Kadumuri RV, Verma M, Awasthi S, Govindaraju G, Mahesh A, Rajavelu A, Chavali S*, Dhayalan A*. The Uncharacterized protein, FAM47E interacts with PRMT5 and regulates its functions. Life Science Alliance 2021; e202000699.
PUBMED: 33376131
Verma M, Chakrapani B, Kadumuri RV, Awasthi S, Mahesh A, Govindaraju G, Chavali PL, Rajavelu A, Chavali S*, Dhayalan A*. PRMT3 interacts with ALDH1A1 and regulates gene expression regulation by inhibiting retinoic acid signaling. Communications Biology 2021;4:109.
PUBMED: 33495566
2020
Masuho I, Santhanam B, Skamangas NK, Chavali S, Tesmer JJG, Babu MM, Martemyanov KE. A complete map of G protein signaling regulation by RGS proteins. Cell 2020; 183:503-521.
PUBMED: 33007266
Govindaraju G, Kadumuri RV, Jabeena CA, Sethumadhavan DV, Chavali S, Rajavelu A. N 6 -Adenosine methylation on mRNA is recognized by YTH2 domain protein of human malaria parasite Plasmodium falciparum. Epigenetics & Chromatin 2020; 13:33.
DOI: https://doi.org/10.1186/s13072-020-00355-7
Sreenivas Chavali*, Anjali K. Singh, Balaji Santhanam & M. Madan Babu. Amino acid homorepeats in proteins. Nature Reviews Chemistry, 2020; 4, 420–434.
DOI: https://doi.org/10.1038/s41570-020-0204-1
Ravarani C, Flock T †† , Chavali S †† , Babu MM, Balaji S. Molecular determinants underlying functional innovations of TBP and their impact on transcription initiation. Nature Communications 2020; 11: 2384.
PUBMED: 32404905
Mahesh A, Khan MIK, Govindaraju G, Verma M, Awasthi S, Chavali PL, Chavali S., Rajavelu A, Dhayalan. SET7/9 interacts and methylates the ribosomal proteins eL42 and regulates protein synthesis. Biochimica et Biophysica Acta - Molecular Cell Research 2020; 1867: 118611.
PUBMED: 31751593
Chavali PL, Ramachandran R, ,Chavali S*. Functional Categories of RNA regulation in RNA based regulation in Health and Disease, 2020 (Ed: Rajesh Pandey) Elsevier Academic Press.
DOI: https://doi.org/10.1016/B978-0-12-817193-6.00003-0
Prior to joining IISER Tirupati
2018
Awasthi S, Chakrapani B, Mahesh A, Chavali S , Dhayalan A. DDX39B promotes translation through regulation of pre-ribosomal RNA levels. RNA Biology 2018;15: 1157-1166.
PUBMED: 30176153
Mausho I, Chavali S,Skamangas NK, Simonyan K, Patil DN, Kramer GN, Ozelius L, Babu MM, Martemyanov KA. Molecular deconvolution platform to establish disease mechanisms by surveying GPCR signaling. Cell Reports 2018; 24: 557-68.
PUBMED: 30021154
Awasthi S, Verma M, Mahesh A, Khan MIK, Govindaraju G, Rajavelu A, Chavali PL, Chavali S*,Dhayalan A*. DDX49 is an RNA helicase that affects translation by regulating mRNA export and the levels of pre-ribosomal RNA. Nucleic Acids Research 2018; 46: 6304-17.
PUBMED: 29618122
Li X, Chavali PL, Pancsa R, Chavali S,Babu MM. Function and regulation of phase separated biological condensates. Biochemistry 2018; 57: 2452-61.
PUBMED: 29392932
Hauser A, Chavali S,Masuho I, Jahn LJ, Martemyanov KA, Gloriam DE, Babu MM. Pharmacogenomics of GPCR drug targets. Cell 2018; 172: 41-54.
PUBMED: 29249361
2017
Chavali S*,Chavali PL, Chalacon G, Sanchez de Groot N, Gemayel R, Latysheva NS, Ing- Simmons E, Verstrepen KJ, Balaji S, Babu MM. Constraints and consequences of the emergence of amino acid repeats in eukaryotic proteins. Nature Structural and Molecular Biology 2017; 24: 765-77.
PUBMED: 28805808
Verma M, Charles RCM, Chakrapani B, Coumar MS, Govindaraju G, Rajavelu A, Chavali S,Dhayalan A. PRMT7 interacts with ASS1 and citrullinemia mutations disrupt the interaction. Journal of Molecular Biology 2017; 429: 2278-89.
PUBMED: 28587924
Chavali S*,Gunnarsson A, Babu MM. Intrinsically disordered proteins adaptively reorganize cellular matter during stress. Trends in Biochemical Sciences 2017; 42: 410-12.
PUBMED: 28487210
2016
Yu H, Gautam AKS, Wilmington S, Wylie D, Martinez-Fonts K, Kago G, Warburton M, Chavali S,Inobe T, Finkelstein I, Babu MM, Matouschek A. Conserved sequence preferences contribute to substrate recognition by the proteasome. Journal of Biological Chemistry 2016; 291: 14526-39.
PUBMED: 27226608
Chavali PL, Chandrasekaran G, Barr AR, Tatrai P, Taylor C, Papachristou E, Woods GC, Chavali S,Gergely F. A CEP215-HSET complex links centrosomes with spindle poles and drives centrosome clustering in cancer. Nature Communications 2016; 17: 11005.
2015
Gemayel R, Chavali S,Zhu B, Legendre M, Boeynaems S, van der Zande E, Babu MM, Verstrepen KJ. Variable glutamine-rich repeats modulate function of the transcriptional regulator SSN6. Molecular Cell 2015; 59: 615-27. Research highlighted in Nature Reviews Molecular Cell Biology.
PUBMED: 26257283
Latysheva N, Flock T, Weatheritt RJ, Chavali S,Babu MM. How do disordered regions achieve functions comparable to structured domains?. Protein Science 2015; 24: 909-22.
PUBMED: 25752799
Fishbain S, Inobe T, Israeli E, Chavali S,Yu H, Kago G, Babu MM, Matouschek A. Sequence composition of disordered regions fine-tunes protein half-life. Nature Structural and Molecular Biology 2015; 22: 214-21.
PUBMED: 25643324
2014
Chavali PL, Chavali S*. Nuclear architecture and transcriptional regulation of microRNAs inMicroRNA in Regenerative. Medicine, 2014; (Ed: Chandan Sen), Elsevier Academic Press.
DOI: https://doi.org/10.1016/B978-0-12-405544-5.00043-5
2013
Chavali S*,Bruhn S, Tiemann K, Saetrom P, Barrenas F, Saito T, Kanduri K, Wang H, Benson M. microRNAs act complementarily to regulate disease-related mRNA modules in human diseases. RNA 2013; 19: 1552-62.
PUBMED: 24062574
Wickramasinghe VO † , Savill JM † , Chavali S,Jonsdottir AB, Rajendra E, Gruner T, Jeyasekharan AD, Laskey RA, Babu MM, Venkitaraman AR. Human inositol polyphosphate multikinase regulates transcript-selective nuclear mRNA export to preserve genome integrity. Molecular Cell 2013; 51: 737-50.
PUBMED: 24074953
Tabassum R, Chauhan G, Dwivedi OP, Mahajan A, Jaiswal A, Kaur I, Bandesh K, Chidambaram M, Sharma A, Chavali S, Bharadwaj D. Genome wide association study for type 2 diabetes in Indians identifies a new susceptibility locus at 2q21. Diabetes 2013; 62: 977-86.
PUBMED: 23209189
Chavali S*,Kanduri K. Network Medicine: Disease genes in molecular networks Statistical Diagnostics of Cancer: Analyzing High- dimensional Data, 2013 (Ed: Frank Emmert-Streib & Matthias Dehmer) Wiley-Blackwell.
DOI: https://doi.org/10.1002/9783527665471.ch8
2012
Barrenas F †, Chavali S †,Alves AC, Coin L, Jarvelin MR, Jörnsten R, Langston MA, Ramasamy A, Rogers G, Wang H, Benson M. Highly interconnected genes in disease-specific networks are enriched for disease-associated polymorphisms. Genome Biology 2012; 13: R46.
PUBMED: 22703998
Bruhn S, Barrenas F, Mobini R, Andersson BA, Chavali S ,Egan BS, Hovig E, Sandve GK, Langston MA, Rogers G, Wang H, Benson M. Increased expression of IRF4 and ETS1 in CD4(+) cells from patients with intermittent allergic rhinitis. Allergy 2012; 67: 33-40.
PUBMED: 21919915
2011
Chavali S, Mahajan A, Tabassum R, Dwivedi OP, Chauhan G, Ghosh S, Tandon N, Bharadwaj D. Association of variants in genes involved in pancreatic b-cell development and function with type 2 diabetes in North Indians. Journal of Human Genetics 2011; 56: 695-700.
PUBMED: 21814221
Chavali S*, Mahajan A, Ghosh S, Mondal B, Bharadwaj D. Protein molecular function influences mutation rates in human genetic diseases with allelic heterogeneity. Biochemical and Biophysical Research Communications 2011; 412: 716-22.
PUBMED: 21867677
Chavali PL, Funa K, Chavali S* . Cis-regulation of microRNA expression by Scaffold/Matrix attachment regions. Nucleic Acids Research 2011; 39: 6908-18.
PUBMED: 21586588
Chavali S*, de Lima Morias DA, Gough J, Babu MM. Evolution of eukaryotic genome architecture: Insights from the study of a rapidly evolving evolving metazoan, Oikopleura dioica. Bioessays 2011; 33: 592-601.
PUBMED: 21681984
Wang H, Chavali S, Mobini R, Muraro A, Barbon F, Boldrin D, Aberg N, Benson M. A pathway-based approach to find novel markers of local glucocorticoid treatment in intermittent allergic rhinitis. Allergy 2011; 66: 132-140.
PUBMED: 20659080
Indian Diabetes Consortium ‡INDICO:the development of a resource for epigenomic study of Indians undergoing socioeconomic transition. The HUGO Journal 2011; 5: 65-9.
PUBMED: 23205164
Mahajan A, Tabassum R, Chavali S ,Dwivedi OP, Chauhan G, Ghosh S, Tandon N, Bharadwaj D. Common variants in CRP and LEPR influence high sensitivity C-reactive protein levels in North Indians. PLoS ONE 2011; 6: e24645.
PUBMED: 21931794
2010
Chauhan G, Spurgeon CJ, Tabassum R, Bhaskar S, Kulkarni SJ, Mahajan A, Chavali S, Bharadwaj D. Impact of common variants of PPARG, KCNJ11, TCF7L2, SLC30A8, HHEX, CDKN2A, IGF2BP2 and CDKAL1 on the risk of type 2 diabetes in 5148 Indians. Diabetes 2010; 59: 2068-74.
PUBMED: 20424228
Mahajan A, Tabassum R, Chavali S, Dwivedi OP, Chauhan G, Tandon N, Bharadwaj D. Obesity-dependent association of TNF-LTA locus with type 2 diabetes in North Indians. Journal of Molecular Medicine 2010; 88: 515-22.
PUBMED: 20177654
Sharma A † , Chavali S † , Tabassum R, Tandon N, Bharadwaj D. Gene prioritization in Type 2 Diabetes using domain interactions and network analysis. BMC Genomics 2010; 11: 84.
PUBMED: 20122255
Pavithra L, Chavali S, Chattopadhyay S. Nutritional epigenetics: impact on metabolic syndrome in Nutrition, Epigenetic Mechanisms, and Human Disease, 2010 (Ed: Nilanjana Maulik & Gautam Maulik) CRC press, USA.
2009
Barrenas F † , Chavali S † , Holme P, Mobini R, Benson M. Network properties of complex human disease genes identified through genome-wide association studies. PLoS ONE 2009; 4: e8090.
PUBMED: 19956617
Chavali S ,Ghosh S, Bharadwaj D. Hemophilia B as a quasi-quantitative condition with certain mutations showing phenotypic plasticity. Genomics 2009; 94 : 433-7.
PUBMED: 19699296
Mahajan A, Tabassum R, Chavali S ,Dwivedi OP, Bharadwaj M, Tandon N, Bharadwaj D. High sensitivity C-reactive protein and Type 2 Diabetes in urban North Indians. Journal of Clinical Endocrinology and Metabolism 2009; 94: 2123-7.
PUBMED: 19336513
2008
Tabassum R, Chavali S, Mahajan A, Ghosh S, Tandon N, Madhu SV, Bharadwaj D. Association analysis of TNFRSF1B polymorphisms with Type 2 Diabetes and its related traits in North India. Genomic Medicine 2008; 2: 93-100.
PUBMED: 19343543
Tabassum R, Chavali S ,Dwivedi OP, Tandon N, Bharadwaj D. Genetic variants of FOXA2: risk of type 2 diabetes and effect on metabolic traits in North Indians. Journal of Human Genetics 2008; 53: 957-65.
PUBMED: 18797817
The Indian Genome Variation Consortium ‡Genetic Landscape of the People of India: a Canvas for Disease Gene Exploration. Journal of Genetics 2008; 87: 3-20.
PUBMED: 18560169
Chavali S*,Sharma A, Tabassum R, Bharadwaj D. Sequence and structural properties of identical mutations leading to varying phenotypes in human coagulation factor IX. Proteins: Structure, Function and Bioinformatics 2008; 73: 63-71. Research highlighted in International Monitor on Hemophilia (Lillicrap D, Vol. 7, 2009)
PUBMED: 18393396
Sharma A † , Chavali S†,Mahajan A, Biswas P, Bharadwaj D. Multiple substitutions at single site- interpreting the effect of Asn92 mutations in human coagulation factor IX. Haemophilia 2008; 14: 396-9.
PUBMED: 18179572
2007
Mahajan A †, Chavali S†,Ghosh S, Kabra M, Chowdhury MR; Indian Genome Variation Consortium, Bharadwaj D. Allelic heterogeneity of molecular events in human coagulation factor IX in Asian Indians. Human Mutation 2007; 28: 526.
PUBMED: 17397055
2005
The Indian Genome Variation Consortium ‡The Indian Genome Variation database (IGVdb): a project review. Human Genetics 2005; 118: 1-11.
PUBMED: 16133172
Chavali S, Mahajan A, Tabassum R, Maiti S, Bharadwaj D. Oligonucleotide properties determination and Primer designing: A critical examination of predictions. Bioinformatics 2005; 21: 3918-25.
PUBMED: 16105896
Bharadwaj D, Chavali S,Mahajan A, Tabassum R, Sharma A. Genetic Studies in Type 2 Diabetes Mellitus: A time to rethink our strategies! (eLetter to the Editor). Molecular & Cellular Proteomics 2005.
Sharma A†, Chavali S† ,Mahajan A, Tabassum R, Banerjee V, Tandon N, Bharadwaj D. Genetic association, post-translational modification and protein-protein interactions in type 2 diabetes mellitus. Molecular & Cellular Proteomics 2005; 4: 1029-37.
2004
Mahajan A, Sharma A, Chavali S,Kabra M, Chowdhury MR, Srinivasan N, Bharadwaj D. Novel missense mutation in the coagulation factor IX catalytic domain associated with severe haemophilia B-Factor IXDelhi. Haemophilia 2004; 10: 550-2.
Mahajan A, Chavali S,Kabra M, Chowdhury MR, Bharadwaj D. Molecular characterization of hemophilia B in North Indian families: identification of novel and recurrent molecular events in the factor IX gene. Haematologica 2004; 89: 1498-503.