Students and Associates under his Mentorship

A new polymer supported packing material as a substitute of Hydroxylapatite: Purification of Topoisomerases (K. Majumder and N. Ramesh. Chromatographia 1987 24:400)
Preparation and characterisation of a new Matrix: Polymer supported Hydroxlapatite Substitute (Majumder, K. Biol. Chem. Hoppe-Seyler 1987 368: 760)
Screening of clones containing altered DNA conformations by plasmid topoprofile shift (N. Ramesh and R. K. Mishra. J. Biochem. Biophys. Meth. 1991 22: 171)
Hereditary ataxia with ophthalmoplegia-preliminary observations on a Bengali family with autosomal dominant inheritance (Ambar Chakravarty, Angshuman Mukerjee, Somaditya Banerjee and Quasar Saleem. J. of Association of Neuroscientists of Eastern India 1996 1:188)
Molecular Analysis of Friedreich’s Ataxia locus in the Indian Population (M. Mukerji, S. Choudhry, Q. Saleem, M. V. Padma, M. C. Maheshwari, S. Jain. Acta Neurologica Scandinavica 2000 102-4 227:229)
Sample Size considerations in genetic polymorphism studies (Chandrika B. Rao. Human Heredity 2001 52(4): 191-200)
Spectrum of β-thalassaemia mutations and their association with allelic sequence polymorphisms at the β-globin gene cluster in eastern Indian population (Ritushree Kukreti, Debasis Dash, Vineetha K E, Sanchita Chakravarty, Swapan Kr Das, Madhusnata De, Geeta Talukder. American Journal of Hematology 2002 70(4): 269-77)
Origin and instability of GAA repeats: insights from Alu elements (Chauhan C, Dash D, Grover D, Rajamani J, Mukerji M. J Biomol Struct Dyn. 2002 20(2):253-63)
SMARCA2 and THAP11: potential candidates for polyglutamine disorders as evidenced from polymorphism and protein-folding simulation studies (Pandey N, Mittal U, Srivastava AK, Mukerji M. J Hum Genet. 2004 49(11):596-602)
In silico characterization of the INO80 subfamily of SWI2/SNF2 chromatin remodeling proteins (Bakshi R, Prakash T, Dash D, Brahmachari V. Biochem Biophys Res Commun. 2004 320(1):197-2)

Comparative analysis of protein unfoldedness in human housekeeping and non-housekeeping proteins. Pandey N, Ganapathi M, Kumar K, Dasgupta D, Sutar SD, Dash D. Bioinformatics. (2004) 20(17):2904-10
SMARCA2 and THAP11: potential candidates for polyglutamine disorders as evidenced from polymorphism and protein-folding simulation studies. Pandey N, Mittal U, Srivastava AK, Mukerji M. J Hum Genet. 2004; 49(11):596-602
ArrayD: a general purpose software for microarray design. Sharma A, Srivastava GP, Sharma VK, Ramachandran S. BMC Bioinformatics (2004) 2(5):142
Founder Haplotype for Machado-Joseph Disease in the Indian Population: Novel Insights from History and Polymorphism Studies. Uma Mittal; Achal K. Srivastava; Satish Jain; Sanjeev Jain; Mitali Mukerji. Arch Neurol (2005) 62:637-640
Post-zygotic de novo trinucleotide repeat expansion at spinocerebellar ataxia type 7 locus: evidence from an Indian family. Mittal U, Roy S, Jain S, Srivastava AK, Mukerji M. J Hum Genet. (2005) 50(3):155-7
Evidence of a Common Founder for SCA12 in the Indian Population. S. Bahl K. Virdi, U. Mittal, M. P. Sachdeva, A. K. Kalla, S. E. Holmes, E. O’Hearn, R. L. Margolis, S. Jain, A. K. Srivastava and M. Mukerji. Ann Hum Genet. (2005) 69(5):528-34
Insights into the mutational history and prevalence of SCA1 in the Indian population through anchored polymorphisms. Mittal U, Sharma S, Chopra R, Dheeraj K, Pal PK, Srivastava AK, Mukerji M. Hum Genet. (2005) 118(1):107-14
SPAAN: a software program for prediction of adhesins and adhesin-like proteins using neural networks. Sachdeva G, Kumar K, Jain P, Ramachandran S. Bioinformatics (2005) 21(4):483-91
Intrinsic unstructuredness and abundance of PEST motifs in eukaryotic proteomes. Singh GP, Ganapathi M, Sandhu KS, Dash D. Proteins (2006) 62(2):309-15
Simple sequence proteins in prokaryotic proteomes. Subramanyam MB, Gnanamani M, Ramachandran S. BMC Genomics (2006) 8(7):141

Conformational flexibility may explain multiple cellular roles of PEST motifs. Sandhu KS, Dash D. Proteins (2006) 63(4):727-32.
DyNAVacS: an integrative tool for optimized DNA vaccine design. Harish N, Gupta R, Agarwal P, Scaria V, Pillai B. Nucleic Acids Res. (2006) 34(Web Server issue):W264-6
Quadfinder: server for identification and analysis of quadruplex-forming motifs in nucleotide sequences. Scaria V, Hariharan M, Arora A, Maiti S. Nucleic Acids Res. (2006) 34(Web Server issue):W683-5
Pharmacogenomics of beta2-agonist: key focus on signaling pathways. Bhatnagar P, Guleria R, Kukreti R. Pharmacogenomics (2006) 7(6):919-33
Non-random genomic divergence in repetitive sequences of human and chimpanzee in genes of different functional categories. Ravi Shankar, Amit Chaurasia, Biswaroop Ghosh, Dmitry Chekmenev, Evgeny Cheremushkin, Alexander Kel, Mitali Mukerji. Mol Genet Genomics (2007) 277:441–455
microRNAs in viral oncogenesis. Scaria V, Jadhav V. Retrovirology (2007) 4:82
Inhibition of translation in living eukaryotic cells by an RNA G-quadruplex motif. Arora A, Dutkiewicz M, Scaria V, Hariharan M, Maiti S, Kurreck J. RNA (2008) 14 (7):1290-6
MicroRNA-mediated up-regulation of an alternatively polyadenylated variant of the mouse cytoplasmic β-actin gene. Ghosh T, Soni K, Scaria V, Halimani M, Bhattacharjee C, Pillai B. Nucleic Acids Res. (2008) 36(19):6318-32
Antagomirzymes: oligonucleotide enzymes that specifically silence microRNA function. Jadhav VM, Scaria V, Maiti S. Angew Chem Int Ed Engl. (2009) 48(14):2557-60
Upregulation of miR-23a-27a-24-2 cluster induces caspase-dependent and -independent apoptosis in human embryonic kidney cells. Chhabra R, Adlakha YK, Hariharan M, Scaria V, Saini N. PLoS One (2009) 4 (6): e5848

Prediction of viral microRNA precursors based on human microRNA precursor sequence and structural features. Kumar S, Ansari FA, Scaria V. Virol J. (2009) 6:129
MicroRNAs: novel therapeutic targets in neurodegenerative diseases. Roshan R, Ghosh T, Scaria V, Pillai B. Drug Discov Today (2009)14(23-24):1123-9
Consensus miRNA expression profiles derived from interplatform normalization of microarray data. Bargaje R, Hariharan M, Scaria V, Pillai B. RNA (2010) 16(1):16-25
Absence of a general association between ABCB1 genetic variants and response to antiepileptic drugs in epilepsy patients. Grover S, Bala K, Sharma S, Gourie-Devi M, Baghel R, Kaur H, Gupta M, Talwar P, Kukreti R. Biochimie. (2010) 92(9):1207-12
Modulation of microRNA function by synthetic ribozymes. Suryawanshi H, Scaria V, Maiti S. Mol Biosyst. (2010) 6(10):1807-9
Genetic polymorphisms in sex hormone metabolizing genes and drug response in women with epilepsy. Grover S, Talwar P, Gourie-Devi M, Gupta M, Bala K, Sharma S, Baghel R, Kaur H, Sharma A, Kukreti R. Pharmacogenomics (2010) 11(11):1525-34
Locked onto the target: increasing the efficiency of antagomirzymes using locked nucleic acid modifications. Kaur H, Scaria V, Maiti S. Biochemistry (2010) 49(44):9449-56
Genetic polymorphisms of drug-metabolizing phase I enzymes CYP2E1, CYP2A6 and CYP3A5 in South Indian population. Krishnakumar D, Gurusamy U, Dhandapani K, Surendiran A, Baghel R, Kukreti R, Gangadhar R, Prayaga U, Manjunath S, Adithan C. Fundam Clin Pharmacol. (2011) 26(2): 295-306
miRvar: A comprehensive database for genomic variations in microRNAs. Bhartiya D, Laddha SV, Mukhopadhyay A, Scaria V. Hum Mutat. (2011) 32(6):E2226-45
Challenges and recommendations for conducting epidemiological studies in the field of epilepsy pharmacogenetics. Grover S, Gupta M, Kukreti R. Indian J Hum Genet. (2011)17 Suppl 1:S4-S11

Genetic polymorphism of drug refractory epilepsy. Kesavan R, Kukreti R, Adithan C. Indian J Med Res. 2011 Sep;134:253-5.
Ayurgenomics: a new way of threading molecular variability for stratified medicine. Sethi TP, Prasher B, Mukerji M. ACS Chem Biol. 2011 Sep 16;6(9):875-80.
Inter and intra-ethnic differences in the distribution of the molecular variants of TPMT, UGT1A1 and MDR1 genes in the South Indian population. Umamaheswaran G, Krishna Kumar D, Kayathiri D, Rajan S, Shewade DG, Dkhar SA, Manjunath S, Ushakiran P, Reneega G, Ritushree K, Adithan C. Mol Biol Rep. 2012 May;39(5):6343-51.
Genetic polymorphisms and retention rate of antiepileptic drugs. Grover S, Kukreti R. Pharmacogenomics. 2012 Apr;13(5):519-24.
Genetic association analysis of transporters identifies ABCC2 loci for seizure control in women with epilepsy on first-line antiepileptic drugs. Grover S, Gourie-Devi M, Bala K, Sharma S, Kukreti R. Pharmacogenet Genomics. 2012 Jun;22(6):447-65.
Functional genetic polymorphisms from phase-II drug metabolizing enzymes. Grover S, Kukreti R. CNS Neurosci Ther. 2012 Aug;18(8):705-6.
Curcumin prevents formation of polyglutamine aggregates by inhibiting Vps36, a component of the ESCRT-II complex. Verma M, Sharma A, Naidu S, Bhadra AK, Kukreti R, Taneja V. PLoS One. 2012;7(8):e42923.
Genetic studies indicate a potential target 5-HTR(3B) for Drug Therapy in Schizophrenia Patients. Gupta M, Jain S, Moily NS, Kaur H, Jajodia A, Purushottam M, Kukreti R. Am J Med Genet B Neuropsychiatr Genet. (2012)159B(8):1006-8.
De novo identification of viral pathogens from cell culture hologenomes. Patowary A, Chauhan RK, Singh M, Kv S, Periwal V, Kp K, Sapkal GN, Bondre VP, Gore MM, Sivasubbu S, Scaria V. BMC Res Notes. (2012)5:11.
Potential G-quadruplexes in the human long non-coding transcriptome. Jayaraj GG, Pandey S, Scaria V, Maiti S. RNA Biol. (2012) 9(1):81-6.
Antagonism of microRNA function in zebrafish embryos by using locked nucleic acid enzymes (LNAzymes). Suryawanshi H, Lalwani MK, Ramasamy S, Rana R, Scaria V, Sivasubbu S, Maiti S. Chembiochem. (2012) 13(4):584-9.
High resolution methylome map of rat indicates role of intragenic DNA methylation in identification of coding region. Sati S, Tanwar VS, Kumar KA, Patowary A, Jain V, Ghosh S, Ahmad S, Singh M, Reddy SU, Chandak GR, Raghunath M, Sivasubbu S, Chakraborty K, Scaria V, Sengupta S. PLoS One. (2012) 7(2):e31621.
Systematic analysis and functional annotation of variations in the genome of an Indian individual. Patowary A, Purkanti R, Singh M, Chauhan RK, Bhartiya D, Dwivedi OP, Chauhan G, Bharadwaj D, Sivasubbu S, Scaria V. Hum Mutat. (2012)33(7):1133-40.
A case for pharmacogenomics in management of cardiac arrhythmias. Kandoi G, Nanda A, Scaria V, Sivasubbu S. Indian Pacing Electrophysiol J. (2012) 12(2):54-64.
Conceptual approaches for lncRNA drug discovery and future strategies. Bhartiya D, Kapoor S, Jalali S, Sati S, Kaushik K, Sachidanandan C, Sivasubbu S, Scaria V. Expert Opin Drug Discov. (2012) 7(6):503-13.
Systematic curation and analysis of genomic variations and their potential functional consequences in snoRNA loci. Bhartiya D, Talwar J, Hasija Y, Scaria V. Hum Mutat. (2012) 33(10):E2367-7.
Proximity of H2A.Z containing nucleosome to the transcription start site influences gene expression levels in the mammalian liver and brain. Bargaje R, Alam MP, Patowary A, Sarkar M, Ali T, Gupta S, Garg M, Singh M, Purkanti R, Scaria V, Sivasubbu S, Brahmachari V, Pillai B. Nucleic Acids Res. (2012) 40(18):8965-78.
Integrative transcriptome analysis suggest processing of a subset of long non-coding RNAs to small RNAs. Jalali S, Jayaraj GG, Scaria V. Biol Direct. (2012) 7:25.
Genome-wide analysis reveals distinct patterns of epigenetic features in long non-coding RNA loci. Sati S, Ghosh S, Jain V, Scaria V, Sengupta S. Nucleic Acids Res. (2012) 40(20):10018-31.