Publications

Srivastava V, Choudhary SK, Balamurugan JM, Nagendra HR, Mukerji M, et al. Implementation science of Yoga: an integrated approach to health and wellness. Frontiers in Public Health. 2026;14:1757700.

Jain R, Rathod SM, Jha P, Jangir D, Faruq M, Jha GN, Mukerji M. Layers in the sand: The genetic imprint of migration, culture, and Indus craft in the Thar Desert. Human Genetics and Genomics Advances. 2026;7(3).

Mukherjee M, Pant A, Sankhala K, Sandeep D, Tanmaya MB, Mukerji M. From desert to design: adaptive nesting of dusky crag martin (Ptyonoprogne concolor) and conservation implications. Ornithology Research. 2026;34(1):34.

Dua P, Punera DS, Dholakia D, Vats A, Pandey S, Seth S, Mukerji M, et al. Association of coronary artery disease related single nucleotide-polymorphisms with extreme Prakriti types: Insights from a case control study. Journal of Ayurveda and Integrative Medicine. 2026;17(4):101371.

Yadav VK, Jena A, Mukerji M, Bhattacharyya S. Gallic acid–induced tetramerisation of the pleiotropic virulence factor SuhB may alter its regulatory role in P. aeruginosa: A structure-based functional study. Journal of Molecular Biology. 2026;169817.

Yadav VK, Jena AK, Mukerji M, Mishra A, Bhattacharyya S. Unravelling the plausible metal-dependent catalytic mechanism of Inositol monophosphatase ortholog from Pseudomonas aeruginosa. bioRxiv. 2026.04.06.716684.

Mukerji M. From Doshas to the biological intelligence of Prakriti: Ayurgenomics as a bridge to intelligent healthcare systems. Journal of Research in Ayurvedic Sciences. 2026;10(Suppl 1):S108-S113.

Sharma S, Sonawane OA, Jain R, Sharma A, Jangir D, Garisetti V, et al. TAS2R38 Polymorphism and Bitter Taste Perception: Implications for Satmaya and Upashaya-Anupshaya Beyond Prakriti. 2026.

Jangir D, Joshi A, Thrigulla SR, Kumar A, Mukerji M. A systems perspective on rare diseases: integrating human phenotype ontology with the Anukta framework of Ayurveda. Journal of Ayurveda and Integrative Medicine. 2026;17(2):101322.

Joshi A, Patel D, Muralidharan V, Mukerji M. Meditation as a Bioactive Intervention: Molecular and Neurophysiological Mechanisms Revealed by Connectivity Mapping. bioRxiv. 2025.12.27.696659.

Yadav VK, Jena A, Mukerji M, Bhattacharyya S. Suppressing the suppressor: Gallic acid induced asymmetric tetramerization of the pleotropic virulence factor SuhB from Pseudomonas aeruginosa abolishes its regulatory function. bioRxiv. 2025.11.12.687946.

Yadav VK, Shukla M, Maji S, Bhati AS, Mukerji M, Bhattacharyya S. In-silico screening and molecular dynamics analysis to uncover mechanistic of natural SARS-CoV-2 inhibitors present in four medicinal plants. 2025.

Mukherjee M, Mukerji M, Aadhar S. Beyond Temperature: Environmental Filtering and Functional Shifts in Desert Bird Communities Under Climate Change. bioRxiv. 2025.10.05.680507.

Saxena D, Mukerji M. AyurXAI: Towards an Explainable Intelligence framework for P4 medicine. International Journal of Ayurveda Research. 2025;6(4):308-315.

Mukherjee M, Banerjee D, Sharma I, Mukerji M. Wastelands or preferred-lands? Indicators for redefining desert conservation. Journal of Arid Environments. 2025;229:105371.

Mukherjee M, Mukerji M. Avian atlas: Unveiling the diversity divide in major global desert realms. Ecological Indicators. 2025;171:113094.

Mukherjee M, Pant A, Sankhala K, Sandeep D, Mukerji M. Adaptive Nesting Strategies of Dusky Crag Martins in desert ecoregions: Implications for Conservation and Bioinspired Innovations. bioRxiv. 2024.09.18.613807.

Joshi A, Jangir D, Sharma A, Anand T, Verma H, Yadav M, Rangani N, et al. Ayurveda based phenotype annotation integrated with expectation maximization algorithm reveal six biological clusters of rare diseases: Potential in resolving ciliopathies. 2024.

Joshi A, Jangir D, Sharma A, Anand T, Verma H, Manvi, Rangani N, et al. AyurPhenoClusters define common molecular roots for rare diseases and uncover ciliary dysfunctions in syndromic conditions. bioRxiv. 2024.09.13.612844.

Dua P, Seth S, Prasher B, Mukerji M, Maulik SK, Reeta KH. Pharmacogenomic biomarkers in coronary artery disease: a narrative review. Biomarkers in Medicine. 2024;18(5):191-202.

Thergaonkar RW, Manchanda V, Bansal G, Yadav A, Singh J, Varma B, et al. Genetic discovery in vesicoureteral reflux using exome sequencing: A pilot study. Medical Journal Armed Forces India. 2024.

Dua P, Reeta K, Prasher B, Seth S, Maulik SK, Mukerji M, Khanna S, et al. Multi analytical approach to find out the risk factors in terms of single nucleotide polymorphisms in patients with coronary artery disease in Indian Asian Population. Tạp chí Tim mạch học Việt Nam. 2023;3(108).

Joshi A, Patel D, Mukerji M. Signatures of medications in meditation: A Connectivity map analysis of transcriptomes from an inner engineering retreat. medRxiv. 2023.11.27.23299046.

Mukherjee M, Paul A, Mukerji M. Biotic assessment of crowdsourced data defines four ecoregions in Thar: A novel approach for community engagement in conservation. Global Ecology and Conservation. 2023;46:e02559.

Gupta I, Shankrit S, Narta K, Ghazi M, Grover R, Pandey R, Kar HK, et al. Whole-exome sequencing of vitiligo lesions indicates lower burden of somatic variations: implications in risk for nonmelanoma skin cancers. Journal of Investigative Dermatology. 2023;143(6):1111-1114.e8.

Singhal K, Dhamija S, Mukerji M. Exonized Alu repeats in the 3'UTR of a CYP20A1_Alu-LT transcript act as a miRNA sponge. BMC Research Notes. 2023;16(1):32.

Mukerji M. Ayurgenomics-based frameworks in precision and integrative medicine: Translational opportunities. Cambridge Prisms: Precision Medicine. 2023;1:e29.

Bhandari S, Dolma P, Mukerji M, Prasher B, Montgomery H, Kular D, et al. Population history and genome wide association studies of birth weight in a native high altitude Ladakhi population. PLoS One. 2022;17(9):e0269671.

Chauhan NS, Mukerji M, Gupta S. Role of microbiome in diseases diagnostics and therapeutics. Frontiers in Cellular and Infection Microbiology. 2022;12:1025837.

Rani R, Rengarajan P, Sethi T, Khuntia BK, Kumar A, Punera DS, Singh D, et al. Heart rate variability during head-up tilt shows inter-individual differences among healthy individuals of extreme Prakriti types. Physiological Reports. 2022;10(17):e15435.

Prakrithi P, Jha P, Jaiswal J, Sharma D, Bhoyar RC, Jain A, Imran M, et al. Landscape of variability in chemosensory genes associated with dietary preferences in Indian population: analysis of 1029 Indian genomes. Frontiers in Genetics. 2022;13:878134.

Haider M, Anand V, Enayathullah MG, Parekh Y, Ram S, Kumari S, Anmol, et al. Anti-SARS-CoV-2 potential of Cissampelos pareira L. identified by connectivity map-based analysis and in vitro studies. BMC Complementary Medicine and Therapies. 2022;22(1):114.

Abbas T, Chaturvedi G, Prakrithi P, Pathak AK, Kutum R, Dakle P, et al. Whole exome sequencing in healthy individuals of extreme constitution types reveals differential disease risk: a novel approach towards predictive medicine. Journal of Personalized Medicine. 2022;12(3):489.

Prakrithi P, Singhal K, Sharma D, Jain A, Bhoyar RC, Imran M, Senthilvel V, Divakar MK, Mishra A, Scaria V, Sivasubbu S, Mukerji M. An Alu insertion map of the Indian population: identification and analysis in 1021 genomes of the IndiGen project. NAR Genomics and Bioinformatics. 2022;4(1):lqac009.

Pathak AK, Mishra GP, Uppili B, Walia S, Fatihi S, Abbas T, Banu S, Ghosh A, Kanampalliwar A, Jha A, Aggarwal S, Dhar M, Marwal R, Radhakrishnan V, Ponnusamy K, Kabra S, Rakshit P, Bhoyar R, Jain A, Divakar MK, Imran M, Faruq M, Sowpati DT, Thukral L, Raghav SK, Mukerji M. Spatio-temporal dynamics of intra-host variability in SARS-CoV-2 genomes. Nucleic Acids Research. 2022;50(3):1551-1561.

Dholakia D, Kalra A, Misir BR, Kanga U, Mukerji M. HLA-SPREAD: a natural language processing based resource for curating HLA association from PubMed abstracts. BMC Genomics. 2022;23(1):10.

Yadav M, Chauhan NS, Prasher B, Mukerji M. Dissecting Human Microbiome for Personalized Therapy. In: Reference Module in Food Science, Elsevier. 2022.

Pathak A, Mishra GP, Uppili B, Walia S, Fatihi S, Abbas T, Banu S, Ghosh A, Kanampalliwar A, Jha A, Aggarwal S, Dhar M, Marwal R, Radhakrishnan V, Ponnusamy K, Kabra S, Rakshit P, Bhoyar R, Jain A, Divakar MK, Imran M, Faruq M, Sowpati DT, Thukral L, Raghav SK, Mukerji M. Spatio-temporal dynamics of intra-host variability in SARS-CoV-2 genomes. Nucleic Acids Research. 2021 Jan 20:gkab1297.

Dholakia D, Kalra A, Misir BR, Kanga U, Mukerji M. HLA-SPREAD: A Natural Language Processing based resource for curating HLA association from PubMed abstracts. BMC Genomics (accepted), 2021.

Prakrithi P, Singhal K, Sharma D, Jain A, Bhoyar RC, Imran M, Senthilvel V, Divakar MK, Mishra A, Scaria V, Sivasubbu S, Mukerji M. An Alu insertion map of the Indian population: Identification and analysis in 1,021 genomes of the IndiGen project. NAR Genomics and Bioinformatics (accepted), 2021.

Jain A, Bhoyar RC, Pandhare K, Mishra A, Sharma D, Imran M, Senthivel V, Divakar MK, Rophina M, Jolly B, et al., Mukerji M, Ramalingam S, B K B, Scaria V, Sivasubbu S. IndiGenomes: a comprehensive resource of genetic variants from over 1000 Indian genomes. Nucleic Acids Res. 2021 Jan 8;49(D1):D1225-D1232.

Sahana S, Sivadas A, Mangla M, Jain A, Bhoyar RC, et al., Mukerji M, Ramalingam S, Binukumar BK, Sivasubbu S, Scaria V. Pharmacogenomic landscape of COVID-19 therapies from Indian population genomes. Pharmacogenomics. 2021 Jul;22(10):603-618.

Prakrithi P, Lakra P, Sundar D, Kapoor M, Mukerji M, Gupta I, The Indian Genome Variation Consortium. Genetic Risk Prediction of COVID-19 Susceptibility and Severity in the Indian Population. Front Genet. 2021 Oct 11;12:714185.

Fatihi S, Rathore S, Pathak AK, Gahlot D, Mukerji M, Jatana N, Thukral L. A rigorous framework for detecting SARS-CoV-2 spike protein mutational ensemble from genomic and structural features. Curr Res Struct Biol. 2021;3:290-300.

Gheware A, Dholakia D, Kannan S, Panda L, Rani R, Pattnaik BR, Jain V, Parekh Y, Enayathullah MG, Bokara KK, Subramanian V, Mukerji M, Agrawal A, Prasher B. Adhatoda Vasica attenuates inflammatory and hypoxic responses in preclinical mouse models: potential for repurposing in COVID-19-like conditions. Respir Res. 2021 Apr 6;22(1):99.

Haider M, Dholakia D, Panwar A, Garg P, Gheware A, Singh D, Singhal K, Burse SA, Kumari S, Sharma A, Ray A, Medigeshi GR, Sharma U, Prasher B, Mukerji M. Transcriptome analysis and connectivity mapping of Cissampelos pareira L. provides molecular links of ESR1 modulation to viral inhibition. Sci Rep. 2021 Oct 11;11(1):20095.

Haider M, Dholakia D, Panwar A, Garg P, Gheware A, Singh D, Singhal K, Burse SA, Kumari S, Anmol, Ray A, Medigeshi GR, Sharma U, Prasher B, Mukerji M. Anti-SARS-CoV-2 potential of Cissampelos pareira L. identified by Connectivity map-based analysis and in vitro studies. bioRxiv 2021.02.17.431579 (under review).

Gheware A, Panda L, Khanna K, Bhatraju NK, Jain V, Sagar S, Kumar M, Singh VP, Kannan S, Subramanian V, Mukerji M, Agrawal A, Prasher B. Adhatoda vasica rescues the hypoxia-dependent severe asthma symptoms and mitochondrial dysfunction. Am J Physiol Lung Cell Mol Physiol. 2021 May 1;320(5):L757-L769.

Chakraborty S, Singhmar S, Singh D, Maulik M, Patil R, Agrawal SK, Mishra A, Ghazi M, Vats A, Natarajan VT, Juvekar S, Prasher B, Mukerji M. Baseline cell proliferation rates and response to UV differ in lymphoblastoid cell lines derived from healthy individuals of extreme constitution types. Cell Cycle. 2021 May;20(9):903-913.

Gupta S, Shariff M, Chaturvedi G, Sharma A, Goel N, Yadav M, Mortensen MS, Sørensen SJ, Mukerji M, Chauhan NS. Comparative analysis of the alveolar microbiome in COPD, ECOPD, Sarcoidosis, and ILD patients to identify respiratory illness specific microbial signatures. Sci Rep. 2021 Feb 17;11(1):3963.

Joshi A, Sinha A, Sharma A, Shamim U, Uppilli B, Sharma P, Zahra S, Parveen S, Mathur A, Chandan M, Tewari P, Khandelwal P, Hari P, Mukerji M, Faruq M, Bagga A; NephQuest Consortium. Next-Generation Sequencing for Congenital Nephrotic Syndrome: A Multi-Center Cross-Sectional Study from India. Indian Pediatr. 2021 May 15;58(5):445-451.

Bhattacharya A, Jha V, Singhal K, Fatima M, Singh D, Chaturvedi G, Dholakia D, Kutum R, Pandey R, Bakken TE, Seth P, Pillai B, Mukerji M. Multiple Alu Exonization in 3'UTR of a Primate-Specific Isoform of CYP20A1 Creates a Potential miRNA Sponge. Genome Biol Evol. 2021 Jan 7;13(1):evaa233.

Kumar P, Pandey R, Sharma P, Dhar MS, A V, Uppili B, Vashisht H, Wadhwa S, Tyagi N, Fatihi S, et al., Mukerji M, Thukral L, Faruq M, Agrawal A, Rakshit P. Integrated genomic view of SARS-CoV-2 in India. Wellcome Open Res. 2020.

Abbas T, Kutum R, Pandey R, Dakle P, Narang A, Manchanda V, Patil R, Aggarwal D, Bansal G, Sharma P, Chaturvedi G, Girase B, Srivastava A, Juvekar S, Dash D, Mukerji M, Prasher B. Genetic differences between extreme and composite constitution types from whole exome sequences reveal actionable variations. bioRxiv 2020.04.24.059006 (under review).

Narang A, Uppilli B, Vivekanand A, Naushin S, Yadav A, Singhal K, Shamim U, Sharma P, Zahra S, Mathur A, Seth M, Parveen S, Vats A, Hillman S, Dolma P, Varma B, Jain V; TRISUTRA Ayurgenomics Consortium, Prasher B, Sengupta S, Mukerji M, Faruq M. Frequency spectrum of rare and clinically relevant markers in multiethnic Indian populations (ClinIndb): A resource for genomic medicine in India. Hum Mutat. 2020 Nov;41(11):1833-1847.

Gupta I, Narang A, Singh P, Manchanda V, Khanna S; Indian Genome Variation Consortium, Mukerji M, Natarajan VT, Dash D. VitiVar: A locus specific database of vitiligo associated genes and variations. Gene X. 2019 May 11;3:100018.

Grover R, Burse SA, Shankrit S, Aggarwal A, Kirty K, Narta K, Srivastav R, Ray AK, Malik G, Vats A, Motiani RK, Thukral L, Roy SS, Bhattacharya S, Sharma R, Natarajan K, Mukerji M, Pandey R, Gokhale RS, Natarajan VT. Myg1 exonuclease couples the nuclear and mitochondrial translational programs through RNA processing. Nucleic Acids Res. 2019 Jun 20;47(11):5852-5866.

Shakya S, Kumari R, Suroliya V, Tyagi N, Joshi A, Garg A, Singh I, Kalikavil Puthanveedu D, Cherian A, Mukerji M, Srivastava AK, Faruq M. Whole exome and targeted gene sequencing to detect pathogenic recessive variants in early onset cerebellar ataxia. Clin Genet. 2019 Dec;96(6):566-574.

GUaRDIAN Consortium, Sivasubbu S, Scaria V. Genomics of rare genetic diseases — experiences from India. Hum Genomics. 2019 Sep 25;14(1):52.

Chauhan NS, Pandey R, Mondal AK, Gupta S, Verma MK, Jain S, Ahmed V, Patil R, Agarwal D, Girase B, Shrivastava A, Mobeen F, Sharma V, Srivastava TP, Juvekar SK, Prasher B, Mukerji M, Dash D. Western Indian Rural Gut Microbial Diversity in Extreme Prakriti Endo-Phenotypes Reveals Signature Microbes. Front Microbiol. 2018 Feb 13;9:118.

Acharya P, Kutum R, Pandey R, Mishra A, Saha R, Munjal A, Ahuja V, Mukerji M, Makharia GK. First Degree Relatives of Patients with Celiac Disease Harbour an Intestinal Transcriptomic Signature that Might Protect them from Enterocyte Damage. Clin Transl Gastroenterol. 2018.

Naskar T, Faruq M, Banerjee P, Khan M, Midha R, Kumari R, Devasenapathy S, Prajapati B, Sengupta S, Jain D, Mukerji M, Singh NC, Sinha S. Ancestral Variations of the PCDHG Gene Cluster Predispose to Dyslexia in a Multiplex Family. EBioMedicine. 2018 Feb;28:168-179.

Kumar D, Hussain A, Srivastava AK, Mukerji M, Mukherjee O, Faruq M. Generation of three spinocerebellar ataxia type-12 patients derived induced pluripotent stem cell lines (IGIBi002-A, IGIBi003-A and IGIBi004-A). Stem Cell Res. 2018 Aug;31:216-221.

Kumari R, Kumar D, Brahmachari SK, Srivastava AK, Faruq M, Mukerji M. Paradigm for disease deconvolution in rare neurodegenerative disorders in Indian population: insights from studies in cerebellar ataxias. J Genet. 2018 Jul;97(3):589-609.

Lemonnier N, Zhou G, Prasher B, Mukerji M, Chen Z, Brahmachari SK, Noble D, Auffray C, Sagner M. Traditional Knowledge-based Medicine: A Review of History, Principles, and Relevance in the Present Context of P4 Systems Medicine. Progress in Preventive Medicine. Dec 2017;2(7):e0011.

Kumar Mondal A, Kumar J, Pandey R, Gupta S, Kumar M, Bansal G, Mukerji M, Dash D, Singh Chauhan N. Comparative Genomics of Host-Symbiont and Free-Living Oceanobacillus Species. Genome Biol Evol. 2017 May 1;9(5):1175-1182.

Tiwari P, Kutum R, Sethi T, Shrivastava A, Girase B, Aggarwal S, Patil R, Agarwal D, Gautam P, Agrawal A, Dash D, Ghosh S, Juvekar S, Mukerji M, Prasher B. Recapitulation of Ayurveda constitution types by machine learning of phenotypic traits. PLoS One. 2017 Oct 5;12(10):e0185380.

Thergaonkar RW, Narang A, Gurjar BS, Tiwari P, Puraswani M, Saini H, Sinha A, Varma B, Mukerji M, Hari P, Bagga A. Targeted exome sequencing in anti-factor H antibody negative HUS reveals multiple variations. Clin Exp Nephrol. 2017 Sep 22.

Faruq M, Magaña JJ, Suroliya V, Narang A, Murillo-Melo NM, Hernández-Hernández O, Srivastava AK, Mukerji M. A Complete Association of an intronic SNP rs6798742 with Origin of Spinocerebellar Ataxia Type 7-CAG Expansion Loci in the Indian and Mexican Population. Ann Hum Genet. 2017 Sep;81(5):197-204.

Talwar P, Kanojia N, Mahendru S, Baghel R, Grover S, Arora G, Grewal GK, Parween S, Srivastava A, Singh M, Vig S, Kushwaha S, Sharma S, Bal K; Indian Genome Variation Consortium, Kukreti S, Kukreti R. Genetic contribution of CYP1A1 variant on treatment outcome in epilepsy patients: a functional and interethnic perspective. Pharmacogenomics J. 2017 Jun;17(3):242-251.

Prasher B, Varma B, Kumar A, Khuntia BK, Pandey R, Narang A, Tiwari P, Kutum R, Guin D, Kukreti R, Dash D; TRISUTRA Ayurgenomics Consortium, Mukerji M. Ayurgenomics for stratified medicine: TRISUTRA consortium initiative across ethnically and geographically diverse Indian populations. J Ethnopharmacol. 2016 Jul 22.

Prasher B, Gibson G, Mukerji M. Genomic insights into Ayurvedic and Western approaches to personalized medicine. J Genet. 2016 Mar;95(1):209-28. (Review)

Pandey R, Bhattacharya A, Bhardwaj V, Jha V, Mandal AK, Mukerji M. Alu-miRNA interactions modulate transcript isoform diversity in stress response and reveal signatures of positive selection. Sci Rep. 2016 Sep 2;6:32348.

Goenka A, Sengupta S, Pandey R, Parihar R, Mohanta GC, Mukerji M, Ganesh S. Human satellite-III non-coding RNAs modulate heat-shock-induced transcriptional repression. J Cell Sci. 2016 Oct 1;129(19):3541-3552.

Aggarwal S, Gheware A, Agrawal A, Ghosh S, Prasher B, Mukerji M; Indian Genome Variation Consortium. Combined genetic effects of EGLN1 and VWF modulate thrombotic outcome in hypoxia revealed by Ayurgenomics approach. J Transl Med. 2015 Jun 6;13:184.

Gautam P, Chaurasia A, Bhattacharya A, Grover R; Indian Genome Variation Consortium, Mukerji M, Natarajan VT. Population diversity and adaptive evolution in keratinization genes: impact of environment in shaping skin phenotypes. Mol Biol Evol. 2015 Mar;32(3):555-73.

Faruq M, Srivastava AK, Singh S, Gupta R, Dada T, Garg A, Behari M, Mukerji M. Spinocerebellar ataxia 7 (SCA7) in Indian population: predilection of ATXN7-CAG expansion mutation in an ethnic population. Indian J Med Res. 2015 Feb;141(2):187-98.

Kanchan K, Pati SS, Mohanty S, Mishra SK, Sharma SK, Awasthi S; Indian Genome Variation Consortium, Venkatesh V, Habib S. Polymorphisms in host genes encoding NOSII, C-reactive protein, and adhesion molecules thrombospondin and E-selectin are risk factors for Plasmodium falciparum malaria in India. Eur J Clin Microbiol Infect Dis. 2015 Oct;34(10):2029-39.

Narang A, Jha P, Kumar D, Kutum R, Mondal AK; Indian Genome Variation Consortium, Dash D, Mukerji M. Extensive copy number variations in admixed Indian population of African ancestry: Potential involvement in adaptation. Genome Biol Evol. 2014 Nov 13.

Faruq M, Narang A, Kumari R, Pandey R, Garg A, Behari M, Dash D, Srivastava AK, Mukerji M. Novel mutations in typical and atypical genetic loci through exome sequencing in autosomal recessive cerebellar ataxia families. Clin Genet. Oct;86(4):335-41.

Mitra AK, Singh A, Indian Genome Variation Consortium, Rath SK. LIG1 polymorphisms: the Indian scenario. J Genet. 2014 Aug;93(2):459-69.

Giri AK, Khan NM, Grover S, Kaur I, Basu A, Tandon N, Scaria V, Consortium IGV, INDICO, Kukreti R, Brahmachari SK, Bharadwaj D. Genetic epidemiology of pharmacogenetic variations in CYP2C9, CYP4F2 and VKORC1 genes associated with warfarin dosage in the Indian population. Pharmacogenomics. 2014 Jul;15(10):1337-54.

Hatin WI, Nur-Shafawati AR, Etemad A, Jin W, Qin P, Xu S, Jin L, Tan SG, Limprasert P, Feisal MA, Rizman-Idid M, Zilfalil BA; HUGO Pan-Asian SNP Consortium. A genome wide pattern of population structure and admixture in peninsular Malaysia. Hugo J. 2014 Dec;8(1):5.

Yang JO, Hwang S, Kim WY, Park SJ, Kim SC, Park K, Lee B; HUGO Pan-Asian SNP Consortium. Identification of ethnically specific genetic variations in pan-asian ethnos. Genomics Inform. 2014 Mar;12(1):42-7.

Mandal AK, Pandey R, Jha V, Mukerji M. Transcriptome-wide expansion of non-coding regulatory switches: evidence from co-occurrence of Alu exonization, antisense and editing. Nucleic Acids Research. 2013;1-17.

Petersen DC, Libiger O, Tindall EA, Hardie RA, Hannick LI, Glashoff RH, Mukerji M; Indian Genome Variation Consortium, Fernandez P, Haacke W, Schork NJ, Hayes VM. Complex Patterns of Genomic Admixture within Southern Africa. PLOS Genetics. 2013;9(3):e1003309.

Jinam TA, Phipps ME, Saitou N; Hugo Pan-Asian SNP Consortium. Admixture patterns and genetic differentiation in negrito groups from West Malaysia estimated from genome-wide SNP data. Hum Biol. 2013 Feb-Jun;85(1-3):173-88.

Ahmad T, Kumar M, Mabalirajan U, Pattnaik B, Aggarwal S, Singh R, Singh S, Mukerji M, Ghosh B, Agrawal A. Hypoxia Response in Asthma: Differential Modulation on Inflammation and Epithelial Injury. Am J Respir Cell Mol Biol. 2012 Jul;47(1):1-10.

Jha P, Sinha S, Kanchan K, Qidwai T, Narang A, Singh PK, Pati SS, Mohanty S, Mishra SK, Sharma SK, Awasthi S, Venkatesh V, Jain S, Basu A, Xu S; Indian Genome Variation Consortium, Mukerji M, Habib S. Deletion of the APOBEC3B gene strongly impacts susceptibility to falciparum malaria. Infect Genet Evol. 2012;12(1):142-148.

Datta S, Chowdhury A, Ghosh M, Das K, Jha P, Colah R, Mukerji M, Majumder PP. A genome-wide search for non-UGT1A1 markers associated with unconjugated bilirubin level reveals significant association with a polymorphic marker near a gene of the nucleoporin family. Ann Hum Genet. 2012;76(1):33-41.

Gautam P, Jha P, Kumar D, Tyagi S, Varma B, Dash D, Mukhopadhyay A; Indian Genome Variation Consortium, Mukerji M. Spectrum of large copy number variations in 26 diverse Indian populations: potential involvement in phenotypic diversity. Hum Genet. 2012 Jan;131(1):131-43.

Singh A, Sharma P, Kar HK, Sharma VK, Tembhre MK, Gupta S, Laddha NC, Dwivedi M, Begum R; Indian Genome Variation Consortium, Gokhale RS, Rani R. HLA alleles and amino-acid signatures of the peptide-binding pockets of HLA molecules in vitiligo. J Invest Dermatol. 2012 Jan;132(1):124-34.

Abhimanyu, Bose M, Jha P; Indian Genome Variation Consortium. Footprints of genetic susceptibility to pulmonary tuberculosis: cytokine gene variants in north Indians. Indian J Med Res. 2012 May;135(5):763-70.

Goswami R, Singh A, Gupta N; Indian Genome Variation Consortium, Rani R. Presence of strong association of the major histocompatibility complex (MHC) class I allele HLA-A*26:01 with idiopathic hypoparathyroidism. J Clin Endocrinol Metab. 2012 Sep;97(9):E1820-4.

Jinam TA, Hong LC, Phipps ME, Stoneking M, Ameen M, Edo J; HUGO Pan-Asian SNP Consortium, Saitou N. Evolutionary history of continental southeast Asians: "early train" hypothesis based on genetic analysis of mitochondrial and autosomal DNA data. Mol Biol Evol. 2012 Nov;29(11):3513-27.

Xu S, Pugach I, Stoneking M, Kayser M, Jin L; HUGO Pan-Asian SNP Consortium. Genetic dating indicates that the Asian-Papuan admixture through Eastern Indonesia corresponds to the Austronesian expansion. Proc Natl Acad Sci U S A. 2012 Mar 20;109(12):4574-9.

Sethi TP, Prasher B, Mukerji M. Ayurgenomics: a new way of threading molecular variability for stratified medicine. ACS Chem Biol. 2011;6(9):875-880.

Gupta M, Kaur H, Jajodia A, Jain S, Satyamoorthy K, Mukerji M, Thirthalli J, Kukreti R. Diverse facets of COMT: from a plausible predictive marker to a potential drug target for schizophrenia. Curr Mol Med. 2011;11(9):732-743.

Lall M, Thakur S, Puri R, Verma I, Mukerji M, Jha P. A 54 Mb 11qter duplication and 0.9 Mb 1q44 deletion in a child with laryngomalacia and agenesis of corpus callosum. Mol Cytogenet. 2011;4:09.

Narang A, Jha P, Rawat V, Mukhopadhyay A, Dash D; Indian Genome Variation Consortium, Basu A, Mukerji M. Recent admixture in an Indian population of african ancestry. Am J Hum Genet. 2011;89(1):111-120.

Abhimanyu, Mangangcha IR, Jha P, Arora K, Mukerji M, Banavaliker JN; Indian Genome Variation Consortium, Brahmachari V, Bose M. Differential serum cytokine levels are associated with cytokine gene polymorphisms in north Indians with active pulmonary tuberculosis. Infect Genet Evol. 2011;11(5):1015-1022.

Pandey R, Mandal AK, Jha V, Mukerji M. Heat shock factor binding in Alu repeats expands its involvement in stress through an antisense mechanism. Genome Biol. 2011;12:11.

Pandey R, Mukerji M. From 'JUNK' to just unexplored noncoding knowledge: the case of transcribed Alus. Brief Funct Genomics. 2011;10(5):294-311.

Chaki M, Sengupta M, Mondal M, Bhattacharya A, Mallick S, Bhadra R; Indian Genome Variation Consortium, Ray K. Molecular and functional studies of tyrosinase variants among Indian oculocutaneous albinism type 1 patients. J Invest Dermatol. 2011 Jan;131(1):260-2.

Saha A, Nayak S, Mani KR, Chandak GR; Indian Genome Variation Consortium, Ray K, Mukhopadhyay A. A set of five microsatellite markers linked to F8 gene can detect haemophilia A carriers across India. Haemophilia. 2011 Sep;17(5):e928-35.

Yang X, Xu S; HUGO Pan-Asian SNP Consortium; Indian Genome Variation Consortium. Identification of close relatives in the HUGO Pan-Asian SNP database. PLoS One. 2011;6(12):e29502.

Ngamphiw C, Assawamakin A, Xu S, Shaw PJ, Yang JO, Ghang H, Bhak J, Liu E, Tongsima S; HUGO Pan-Asian SNP Consortium. PanSNPdb: the Pan-Asian SNP genotyping database. PLoS One. 2011;6(6):e21451.

Hatin WI, Nur-Shafawati AR, Zahri MK, Xu S, Jin L, Tan SG, Rizman-Idid M, Zilfalil BA; HUGO Pan-Asian SNP Consortium. Population genetic structure of peninsular Malaysia Malay sub-ethnic groups. PLoS One. 2011 Apr 5;6(4):e18312.

Aggarwal S, Negi S, Jha P, Singh PK, Stobdan T, Pasha MA, Ghosh S, Agrawal A; Indian Genome Variation Consortium, Prasher B, Mukerji M. EGLN1 involvement in high-altitude adaptation revealed through genetic analysis of extreme constitution types defined in Ayurveda. Proc Natl Acad Sci U S A. 2010;107(44):18961-18966.

Narang A, Roy RD, Chaurasia A, Mukhopadhyay A, Mukerji M; Indian Genome Variation Consortium, Dash D. IGVBrowser--a genomic variation resource from diverse Indian populations. Database (Oxford). 2010:09.

Singh I, Faruq M, Mukherjee O, Jain S, Pal PK, Srivastav MV, Behari M, Srivastava AK, Mukerji M. North and South Indian populations share a common ancestral origin of Friedreich's ataxia but vary in age of GAA repeat expansion. Ann Hum Genet. 2010;74(3):202-210.

Sengupta M, Chakraborty A; Indian Genome Variation Consortium, Ray K. Analysis of single nucleotide polymorphisms of PRNP gene in twenty-four ethnic groups of India. J Genet. 2010 Aug;89(2):247-51.

Xu S, Kangwanpong D, Seielstad M, Srikummool M, Kampuansai J, Jin L; HUGO Pan-Asian SNP Consortium. Genetic evidence supports linguistic affinity of Mlabri--a hunter-gatherer group in Thailand. BMC Genet. 2010 Mar 19;11:18.

HUGO Pan-Asian SNP Consortium, Abdulla MA, Ahmed I, Assawamakin A, et al., Jha P, Mukerji M, et al.; Indian Genome Variation Consortium. Mapping human genetic diversity in Asia. Science. 2009 Dec 11;326(5959):1541-5.

Bahl S, Ahmed I; Indian Genome Variation Consortium, Mukerji M. Utilizing linkage disequilibrium information from Indian Genome Variation Database for mapping mutations: SCA12 case study. J Genet. 2009 Apr;88(1):55-60.

Faruq M, Scaria V, Singh I, Tyagi S, Srivastava AK, Mukerji M. SCA-LSVD: a repeat-oriented locus-specific variation database for genotype to phenotype correlations in spinocerebellar ataxias. Hum Mutat. 2009;30(7):1037-1042.

Netravathi M, Pal PK, Purushottam M, Thennarasu K, Mukherjee M, Jain S. Spinocerebellar ataxias types 1, 2 and 3: age adjusted clinical severity of disease at presentation correlates with size of CAG repeat lengths. J Neurol Sci. 2009;277(1-2):83-86.

Bhardwaj A, Mukerji M, Sharma S, Paul J, Gokhale CS, Srivastava AK, Tiwari S. MtSNPscore: a combined evidence approach for assessing cumulative impact of mitochondrial variations in disease. BMC Bioinformatics. 2009;10(Suppl 8):08.

Shankar R, Kataria B, Mukerji M. Finding Alu in primate genomes with AF-1. Bioinformation. 2009;3(7):287-288.

Sinha S, Arya V, Agarwal S; Indian Genome Variation Consortium, Habib S. Genetic differentiation of populations residing in areas of high malaria endemicity in India. J Genet. 2009 Apr;88(1):77-80.

Kumar J, Garg G, Kumar A, Sundaramoorthy E, Sanapala KR, Ghosh S, Karthikeyan G, Ramakrishnan L; Indian Genome Variation Consortium, Sengupta S. Single nucleotide polymorphisms in homocysteine metabolism pathway genes: association of CHDH A119C and MTHFR C677T with hyperhomocysteinemia. Circ Cardiovasc Genet. 2009 Dec;2(6):599-606.

Prasher B, Negi S, Aggarwal S, Mandal AK, Sethi TP, Deshmukh SR, Purohit SG, Sengupta S, Khanna S, Mohammad F, Garg G, Brahmachari SK, Mukerji M. Whole genome expression and biochemical correlates of extreme constitutional types defined in Ayurveda. J Transl Med. 2008;6:09.

Hardy BJ, Séguin B, Singer PA, Mukerji M, Brahmachari SK, Daar AS. From diversity to delivery: the case of the Indian Genome Variation initiative. Nat Rev Genet. 2008;9(Suppl 1):S9-14.

Indian Genome Variation Consortium. Genetic landscape of the people of India: a canvas for disease gene exploration. J Genet. 2008;87(1):3-20 Apr. (As lead consortium author)

Sinha S, Mishra SK, Sharma S, Patibandla PK, Mallick PK, Sharma SK, Mohanty S, Pati SS, Mishra SK, Ramteke BK, Bhatt R, Joshi H, Dash AP, Ahuja RC, Awasthi S; Indian Genome Variation Consortium, Venkatesh V, Habib S. Variations in host genes encoding adhesion molecules and susceptibility to falciparum malaria in India. Malar J. 2008 Dec 4;7:250.

Bhattacharjee A, Banerjee D, Mookherjee S, Acharya M, Banerjee A, Ray A, Sen A; Indian Genome Variation Consortium, Ray K. Leu432Val polymorphism in CYP1B1 as a susceptible factor towards predisposition to primary open-angle glaucoma. Mol Vis. 2008 May 8;14:841-50.

Sinha S, Mishra SK, Sharma S, Patibandla PK, Mallick PK, Sharma SK, Mohanty S, Pati SS, Mishra SK, Ramteke BK, Bhatt R, Joshi H, Dash AP, Ahuja RC, Awasthi S; Indian Genome Variation Consortium, Venkatesh V, Habib S. Polymorphisms of TNF-enhancer and gene for FcgammaRIIa correlate with the severity of falciparum malaria in the ethnically diverse Indian population. Malar J. 2008 Jan 14;7:13.

Krishna N, Mohan S, Yashavantha BS, Rammurthy A, Kiran Kumar HB, Mittal U, Tyagi S, Mukerji M, Jain S, Pal PK, Purushottam M. SCA 1, SCA 2 & SCA 3/MJD mutations in ataxia syndromes in southern India. Indian J Med Res. 2007;126(5):465-470.

Shankar R, Chaurasia A, Ghosh B, Chekmenev D, Cheremushkin E, Kel A, Mukerji M. Non-random genomic divergence in repetitive sequences of human and chimpanzee in genes of different functional categories. Mol Genet Genomics. 2007;277(4):441-455.

Saha A, Mukherjee S, Maulik M, Chandak GR; Indian Genome Variation Consortium, Ray K. Evaluation of genetic markers linked to hemophilia A locus: an Indian experience. Haematologica. 2007 Dec;92(12):1725-6.

Biswas A, Maulik M, Das SK; Indian Genome Variation Consortium, Ray K, Ray J. Parkin polymorphisms: risk for Parkinson's disease in Indian population. Clin Genet. 2007 Nov;72(5):484-6.

Gupta A, Maulik M, Nasipuri P, Chattopadhyay I, Das SK, Gangopadhyay PK; Indian Genome Variation Consortium, Ray K. Molecular diagnosis of Wilson disease using prevalent mutations and informative single-nucleotide polymorphism markers. Clin Chem. 2007 Sep;53(9):1601-8.

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. Hum Mutat. 2007 May;28(5):526.

Rawal P, Kummarasetti VB, Ravindran J, Kumar N, Halder K, Sharma R, Mukerji M, Das SK, Chowdhury S. Genome-wide prediction of G4 DNA as regulatory motifs: role in Escherichia coli global regulation. Genome Res. 2006;16(5):644-655.

Bahl S, Virdi K, Mittal U, Sachdeva MP, Kalla AK, Holmes SE, O'Hearn E, Margolis RL, Jain S, Srivastava AK, Mukerji M. Evidence of a common founder for SCA12 in the Indian population. Ann Hum Genet. 2005;69(Pt 5):528-534.

Mittal U, Roy S, Jain S, Srivastava AK, Mukerji M. Post-zygotic de novo trinucleotide repeat expansion at spinocerebellar ataxia type 7 locus: evidence from an Indian family. J Hum Genet. 2005;50(3):155-157.

Mittal U, Srivastava AK, Jain S, Jain S, Mukerji M. Founder haplotype for Machado-Joseph disease in the Indian population: novel insights from history and polymorphism studies. Arch Neurol. 2005;62(4):637-640.

Verma R, Mukerji M, Grover D, B-Rao C, Das SK, Kubendran S, Jain S, Brahmachari SK. MLC1 gene is associated with schizophrenia and bipolar disorder in Southern India. Biol Psychiatry. 2005;58(1):16-22.

Mittal U, Sharma S, Chopra R, Dheeraj K, Pal PK, Srivastava AK, Mukerji M. Insights into the mutational history and prevalence of SCA1 in the Indian population through anchored polymorphisms. Hum Genet. 2005;118(1):107-114.

Grover D, Kannan K, Brahmachari SK, Mukerji M. ALU-ring elements in the primate genomes. Genetica. 2005;124(2-3):273-289.

Indian Genome Variation Consortium. The Indian Genome Variation database (IGVdb): a project overview. Hum Genet. 2005 Oct;118(1):1-11.

Pandey N, Mittal U, Srivastava AK, Mukerji M. SMARCA2 and THAP11: potential candidates for polyglutamine disorders as evidenced from polymorphism and protein-folding simulation studies. J Hum Genet. 2004;49(11):596-602.

Ragothaman M, Sarangmath N, Chaudhary S, Khare V, Mittal U, Sharma S, Komatireddy S, Chakrabarti S, Mukerji M, Juyal RC, Thelma BK, Muthane UB. Complex phenotypes in an Indian family with homozygous SCA2 mutations. Ann Neurol. 2004;55(1):130-133.

Shankar R, Grover D, Brahmachari SK, Mukerji M. Evolution and distribution of RNA polymerase II regulatory sites from RNA polymerase III dependant mobile Alu elements. BMC Evol Biol. 2004;4:1.

Grover D, Mukerji M, Bhatnagar P, Kannan K, Brahmachari SK. Alu repeat analysis in the complete human genome: trends and variations with respect to genomic composition. Bioinformatics. 2004;20(6):813-817.

Grover D, Majumder PP, B Rao C, Brahmachari SK, Mukerji M. Nonrandom distribution of alu elements in genes of various functional categories: insight from analysis of human chromosomes 21 and 22. Mol Biol Evol. 2003;20(9):1420-1424.

Chauhan C, Dash D, Grover D, Rajamani J, Mukerji M. Origin and instability of GAA repeats: insights from Alu elements. J Biomol Struct Dyn. 2002;20(2):253-263.

Choudhry S, Mukerji M, Srivastava AK, Jain S, Brahmachari SK. CAG repeat instability at SCA2 locus: anchoring CAA interruptions and linked single nucleotide polymorphisms. Hum Mol Genet. 2001;10(21):2437-2446.

Saleem Q, Choudhry S, Mukerji M, Bashyam L, Padma MV, Chakravarthy A, Maheshwari MC, Jain S, Brahmachari SK. Molecular analysis of autosomal dominant hereditary ataxias in the Indian population: high frequency of SCA2 and evidence for a common founder mutation. Hum Genet. 2000;106(2):179-187.

Mukerji M, Choudhry S, Saleem Q, Padma MV, Maheshwari MC, Jain S. Molecular analysis of Friedreich's ataxia locus in the Indian population. Acta Neurol Scand. 2000 Oct;102(4):227-9.

Mukerji M, Mahadevan S. Characterization of the negative elements involved in silencing the bgl operon of Escherichia coli: possible roles for DNA gyrase, H-NS, and CRP-cAMP in regulation. Mol Microbiol. 1997;24(3):617-627.

Mukerji M, Mahadevan S. Cryptic genes: evolutionary puzzles. J Genet. 1997;76(2):147-159.

Singh J, Mukerji M, Mahadevan S. Transcriptional activation of the Escherichia coli bgl operon: negative regulation by DNA structural elements near the promoter. Mol Microbiol. 1995;17(6):1085-1092. (Joint first author)