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 | Dr. Mukesh Jain
Staff Scientist III
Tel: 91-11-26741612, 14, 17 (Ext.) 182
91-11-26735182 (Direct)
Fax: 91-11-26741658
Webpage: http://mjainanid.googlepages.com
E-mail: mjain@nipgr.res.in; mjainanid@gmail.com |
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 Research Articles |
| Total number of citations = ~800 (as of January, 2012) |
 | Patel RK, Jain M. (2012) NGS QC Toolkit: A toolkit for quality control of next generation sequencing data. PLoS ONE 7, e30619. Doi:10.1371/journal.pone.0030619. (IF = 4.411) |
| Patel RK, Jain M (2011). PlantRGS: A web server for the identification of most suitable candidate reference genes for quantitative gene expression studies in plants. DNA Research doi: 10.1093/dnares/dsr032. (IF = 4.754) |
| Garg R, Jain M (2011). Pyrosequencing data reveals tissue-specific expression of lineage-specific transcripts in chickpea. Plant Signaling & Behavior doi:10.4161/psb/6.11.17879. (IF = ~2.0) |
| Garg R, Patel RK, Jhanwar S, Priya P, Bhattacharjee A, Yadav G, Bhatia S, Chattopadhyay D, Tyagi AK, Jain M (2011). Gene discovery and tissue-specific transcriptome analysis in chickpea with massively parallel pyrosequencing and web resource development. Plant Physiology DOI:10.1104/pp.111.178616. (IF = 6.235) |
| Garg R, Patel RK, Tyagi AK, Jain M (2011). De novo assembly of chickpea transcriptome using short reads for gene discovery and marker identification. DNA Research 18: 53-63. (IF = 4.917) |
| Garg R, Jhanwar S, Tyagi AK, Jain M (2010). Genome-wide survey and expression analysis suggest diverse roles of glutaredoxin gene family members during development and response to various stimuli in rice. DNA Research 17: 353-367. (IF = 4.917) |
| Garg R, Sahoo A, Tyagi AK, Jain M (2010). Validation of internal control genes for quantitative gene expression studies in chickpea (Cicer arietinum L.). Biochemical and Biophysical Research Communications 396: 283-288. (IF = 2.548) |
| Jain M*, Ghanashyam C, Bhattacharjee A (2010). Comprehensive expression analysis suggests overlapping and specific roles of rice glutathione S-transferases genes during development and stress responses. BMC Genomics 11: 73. (*corresponding author). (Highly accessed article) (IF = 3.76) |
| Jain M*, Khurana JP (2009). Transcript profiling reveals diverse roles of auxin-responsive genes during reproductive development and abiotic stress in rice. FEBS Journal 276: 3148-3162. (*corresponding author) (IF = 3.042) |
| Ghanashyam C, Jain M (2009). Role of auxin-responsive genes in biotic stress responses. Plant Signaling & Behavior 4: 846-848. (IF = ~2.0) |
| Jain M (2009). Genome-wide identification of novel internal control genes for normalization of gene-expression during various stages of development in rice. Plant Sci 176: 702-706. (IF = 2.05) |
| Jain M*, Khurana JP (2008). Small RNA regulation of rice homeobox genes. Plant Signaling & Behavior 3: 1024-1025. (*corresponding author). (IF = ~2.0) |
| Jain M, Tyagi AK, Khurana JP (2008). Genome-wide identification, classification, evolutionary expansion, and expression analyses of homeobox genes in rice. FEBS Journal 275: 2845-2861. (IF = 3.042) |
| Jain M, Tyagi AK, Khurana JP (2008). Constitutive expression of a meiotic recombination protein gene homolog, OsTOP6A1, from rice confers abiotic stress tolerance in transgenic Arabidopsis plants. Plant Cell Reports 27: 767-778. (IF = 2.301) |
| Jain M, Tyagi AK, Khurana JP (2008). Differential gene expression of rice two-component signaling elements during reproductive development and regulation by abiotic stress. Functional and Integrative Genomics 8: 175-180. (IF = 3.825) |
| Nijhawan A, Jain M, Tyagi AK, Khurana JP (2008). A genomic survey and gene expression analysis of basic leucine zipper (bZIP) transcription factor family in rice. Plant Physiology 146: 333-350. (IF = 6.235) |
| Jain M, Khurana P, Tyagi AK, Khurana JP (2008). Genome-wide analysis of intronless genes in rice and Arabidopsis. Functional and Integrative Genomics 8: 69-78. (IF = 3.825) |
| Jain M, Nijhawan A, Arora R, Agarwal P, Ray S, Sharma P, Kapoor S, Tyagi AK, Khurana JP (2007). F-box proteins in rice: genome-wide analysis, classification, temporal and spatial gene expression during panicle and seed development, and regulation by light and abiotic stress. Plant Physiology 143: 1467-1483. (IF = 6.235) |
| Singh G, Jain M, Kulshreshtha R, Khurana JP, Kumar S, Singh P (2007). Expression analysis of genes encoding translation initiation factor 3 subunit g (TaeIF3g) and vesicle-associated membrane protein-associated protein (TaVAP) in drought tolerant and susceptible cultivars of wheat. Plant Science 173: 660-669. (IF = 2.05) |
| Sehgal A, Khurana JP, Sethi M, Ara H, Jain M (2007). Organ identity of the thalloid plant body of Griffithella hookeriana and Polypleurum stylosum-Podostemoideae (Podostemaceae). Plant Systematics and Evolution 267: 93-104. (IF = 1.41) |
| Jain M, Sharma P, Tyagi SB, Tyagi AK, Khurana JP (2007). Light regulation and differential tissue-specific expression of phototropin homologues from rice (Oryza sativa ssp. indica). Plant Science 172: 164-171. (IF = 2.05) |
| Jain M, Tyagi AK, Khurana JP (2006). Overexpression of putative topoisomerase 6 genes from rice confers stress tolerance in transgenic Arabidopsis plants. FEBS Journal 273: 5245-5260. (cover photo article) (IF = 3.042) |
| Jain M, Tyagi AK, Khurana JP (2006). Genome-wide analysis, evolutionary expansion, and expression of early auxin-responsive SAUR gene family in rice (Oryza sativa). Genomics 88: 360-371. (IF = 3.327) |
| Jain M, Nijhawan A, Tyagi AK, Khurana JP (2006). Validation of housekeeping genes as internal control for studying gene expression in rice by quantitative real-time PCR. Biochemical and Biophysical Research Communications 345: 646-651. (Highly cited and second most downloaded article of BBRC in ScienceDirect) (IF = 2.548) |
| Jain M, Tyagi AK, Khurana JP (2006). Molecular characterization and differential expression of cytokinin-responsive type A response regulators in rice (Oryza sativa). BMC Plant Biology 6: 1. (Highly accessed article) (IF = 3.77) |
| Jain M, Kaur N, Garg R, Thakur JK, Tyagi AK, Khurana JP (2006). Structure and expression analysis of early auxin-responsive Aux/IAA gene family in rice (Oryza sativa). Functional and Integrative Genomics 6: 47-59. (IF = 3.825) |
| Jain M, Kaur N, Tyagi AK, Khurana JP (2006). The auxin-responsive GH3 gene family in rice (Oryza sativa). Functional and Integrative Genomics 6: 36-46. (IF = 3.825) |
| Thakur JK, Jain M, Tyagi AK, Khurana JP (2005). Exogenous auxin enhances the degradation of a light down-regulated and nuclear-localized OsiIAA1, an Aux/IAA protein from rice, via proteasome. Biochimica et Biophysica Acta 1730: 196-205. (IF = 3.475) |
| Dasgupta U, Jain M, Tyagi AK, Khurana JP (2005). Regulatory elements for light-dependent and organ-specific expression of Arabidopsis thaliana PSBO1 gene encoding 33 kDa polypeptide of the oxygen-evolving complex. Plant Science 168: 1633-1642. (IF = 2.05) |
| Agarwal SM+, Jain M+, Grover A+ (2005). Genomic distribution of genes encoding 68 cytoplasmic ribosomal protein families in rice. Acta Physiologiae Plantarum 27: 439-446. (+equal contribution) (IF = 1.232) |
| Jain M, Tyagi SB, Thakur JK, Tyagi AK, Khurana JP (2004). Molecular characterization of a light-responsive gene, breast basic conserved protein 1 (OsiBBC1), encoding nuclear-localized protein homologous to ribosomal protein L13 from Oryza sativa indica. Biochimica et Biophysica Acta 1676: 182-192. (IF = 3.475) |
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| Reviews & book chapters |
| Jain M (2011). Next generation sequencing technologies for gene expression profiling in plants. Briefings in Functional Genomics. Doi:10.1093/bfgp/elr038. |
| Jain M (2011). A next generation approach to the characterization of a non-model plant transcriptome. Current Science 101, November 25, 2011. |
| Bhattacharjee A, Jain M (2011). Homeobox genes as potential candidates for crop improvement under abiotic stress. In: Tuteja N, Gill SS (eds.), Crop Improvement Under Adverse Conditions, Springer Science+Business Media, New York, USA. (in press). |
| Tyagi AK, Khurana JP, Khurana P, Vij S, Jain M, Vaidhyanathan R (2007). Evolution and phylogenetic relationship of the rice genome. In: Sharma AK, Sharma A (eds.), Plant Genome: Biodiversity and Evolution (Volume IE-Phanerogam-Angiosperm), Science Publishers, New Hampshire, USA, pp 15-41. |
| Khurana JP, Jain M, Tyagi AK (2007). Auxin and cytokinin signaling component genes and their potential for crop improvement. In: Varshney RK, Tuberosa R (eds.), Genomics-Assisted Crop Improvement (Volume I-Genomics Approaches and Platforms), Springer Verlag, Germany, pp 289-314. |
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| Proceedings and reports |
| Chandra A, Jain M, Bhatt V, Vora J, Ghawna S, Ahuja PS (2007). Frontiers of plant biology research (Meeting report on ISPMB 2006). Current Science 92: 1331-1335. |
| Khurana JP, Jain M (2007). Understanding plant reproductive pathways-molecular genetic analysis of floral induction and flower development. In: Chopra VL, Sharma RP, Bhat SR, Prasanna BM (eds.) Search for New Genes, Academic Foundation & National Academy of Agricultural Sciences, New Delhi. pp 173-195. |
| Tyagi AK, Khurana JP, Khurana P, Kapoor S, Singh VP, Singh AK, Thakur JK, Gupta V, Anand S, Vij S, Jain M, Ray S, Agarwal P, Arora R, Sharma P, Mukherjee S, Nijhawan A, Giri J, Khurana R (2007). Expression and functional analysis of rice genes involved in reproductive development and stress response. In: Brar DS, Mackill DJ, Hardy B (eds.), Rice Genetics V, International Rice Research Institute, Philippines, pp 313-330. |
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| Patents |
| Nucleic acid sequences encoding glutathione S-transferases associated with abiotic stress responses in plants. (IPA 2302/DEL/2009). Inventor: Jain M |
| Nucleic acid sequences involved in floral transition in rice and uses thereof (2007). [Indian patent application (158/DEL/2007) filed on January 25, 2007]. Inventors: Khurana JP, Tyagi AK, Nijhawan A, Sharma P, Jain M. |
| Topoisomerase 6 genes from rice for conferring stress tolerance in plants (2006). [Indian patent application (1844/DEL/2006) filed on August 17, 2006]. Inventors: Khurana JP, Tyagi AK, Jain M. |
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