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Rakesh K Mishra Group`s Publications
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Title Journal Year
Reversible loss of reproductive fitness in zebrafish on chronic alcohol exposure. Alcohol, Vol. 50, p83-892015
Expansion of the polycomb system and evolution of complexity. Mech Dev. 2015 Nov;138 Pt 2:97-112 2015
Specific combinations of boundary element and Polycomb response element are required for the regulation of the Hox genes in Drosophila melanogaster. Mech Dev.2015 Nov; 138 Pt 2:141-50 2015
Epigenetic mechanisms and boundaries in the regulation of mammalian Hox clusters.Mech Dev. 2015 Nov;138 Pt 2:160-9 2015
The functional diversity of Drosophila Ino80 in development Mech Dev. 2015 Nov;138 Pt 2:113-21 2015
A fine balance: epigenetic control of cellular quiescence by the tumor suppressor PRDM2/RIZ at a bivalent domain in the cyclin a gene. Nucleic Acids Res 2015 Jul 27;43(13):6236-562015
Code in the Non-Coding Proc Indian Natn Sci Acad 2015
A fine balance: epigenetic control of cellular quiescence by the tumor suppressorNucleic Acids Res. 2015 Jun 3. pii: gkv567. 2015
Drosophila Rif1 is an essential gene and controls late developmental events bySci Rep. 2015 May 29;5:10679 2015
High-wire act: the poised genome and cellular memory. FEBS J. 2014 Dec 1 2014
Restraining the enhancers from straying. J Biosci. 2014 Dec;39(5):739-40. 2014
Genome-wide mapping of matrix attachment regions in Drosophila melanogaster. BMC Genomics. 2014 Nov 25;15:1022. 2014
CARM1 regulates astroglial lineage through transcriptional regulation of NanogMol Biol Cell. 2015 Jan 15;26(2):316-26. 2014
Role of abd-A and Abd-B in development of abdominal epithelia breaks posteriorPLoS Genet. 2014 Oct 23;10(10):e1004717. 2014
Length and sequence dependent accumulation of simple sequence repeats inGene. 2014 Nov 10;551(2):167-75.2014
Mining the cis-regulatory elements of Hox clusters. Methods Mol Biol. 2014;1196:121-31. 2014
Transposable element `roo` attaches to nuclear matrix of the DrosophilaJ Insect Sci. 2013;13:111. 2014
Emerging trends of long non-coding RNAs in gene activation. FEBS J. 2014 Jan;281(1):34-45. 2013
A functionally conserved Polycomb response element from mouse HoxD complexSci Rep. 2013 Oct 22;3:3011. 2013
GATA simple sequence repeats function as enhancer blocker boundaries. Nat Commun. 2013;4:1844 2013
Vertebrate GAGA factor associated insulator elements demarcate homeotic genes in Epigenetics Chromatin. 2013 Apr 22;6(1):8. 2013
AAGAG repeat RNA is an essential component of nuclear matrix in Drosophila. RNA Biol. 2013 Apr;10(4):564-71. 2013
Functional sub-division of the Drosophila genome via chromatin looping: theNucleus. 2013 Mar-Apr;4(2):115-22. 2013
Conserved boundary elements from the Hox complex of mosquito, Anopheles gambiae.Nucleic Acids Res. 2012 Dec 4. [Epub ahead of print]2012
Homeotic gene regulation: a paradigm for epigenetic mechanisms underlying organismal development.Subcellular Biochemistry, Volume 61, 177-207, 20132012
Functional diversification of yeast telomere associated protein, Rif1, in higher eukaryotes.BMC Genomics. 2012 Jun 19; 13(1):255.2012
Chromatin domain boundary element search tool for Drosophila.Nucleic Acids Res. 40 (10), 4385-4395, 20122012
A BEAF dependent chromatin domain boundary separates myoglianin and eyeless genes of Drosophila melanogasterNucleic Acids Res. 39, 3543-57, 20112011
Epigenetic profile of the euchromatic region of human Y chromosomeNucleic Acids Res. 39, 3594-606, 20112011
Tone up your chromatin and stay youngJ. Biosci. 36(1), 5-11, 20112011
Dynamics of Nuclear Matrix Proteome during Embryonic Development in Drosophila melanogasterJ. Biosci. 36 (3), 439-459, 20112011
Repeat performance: how do genome packaging and regulation depend on simple sequence repeats?BioEssays 32, 165-174, 2010.2010
Regulation of cellular chromatin state: insight from quiescence and differentiationOrganogenesis 6, 37-47, 2010.2010
Chromatin remodeling protein INO80 influences expression of homeotic genes in Drosophila.Genes Cells 15, 725-735, 2010.2010
The paternal hidden agenda: Epigenetic inheritance through sperm chromatin.Epigenetics 5, 1-6, 2010.2010
Vertebrate homologue of Drosophila GAGA factor.J. Mol. Biol. 400, 437-447, 2010.2010
Nuclear matrix proteome analysis of Drosophila melanogaster.Mol. & Cell. Proteomics 9, 2005-2018, 20102010
A functionally conserved boundary element from the mouse HoxD locus requires GAGA factor in DrosophilaDevelopment 137, 4239-47, 20102010
RISCI - Repeat Induced Sequence Changes Identifier: a comprehensive, comparative genomics-based, in silico subtractive hybridization pipeline to identify repeat induced sequence changes in closely related genomesBMC Bioinformatics. 26, 609, 20102010
Chromosomes to Genome (book).I.K. International Publishing House, New Delhi (ISBN: 978-93-80026-21-3), 2009, 222 pages.2009
Genome to Epigenome (book chapter).In Chromosomes to Genome, Rakesh K. Mishra (Editor), I.K. International Publishing House, New Delhi (ISBN: 978-93-80026-21-3), pp. 31-39, 2009.2009
Polycomb Group of Genes and the Epigenetics of Aging (book chapter).Epigenetics of Aging, Tollefsbol, Trygve O. (Ed.) Springer (ISBN: 978-1-4419-0638-0), pp. 135-150, 2009.2009
Differentiation to Dedifferentiation: Induced pluripotent stem cells (book chapter).Recent Trends in Biotechnology, M P Singh (ed.), Nova Science Publishers), New York (ISBN: 978-1-60876-148-7, 20092009
Divide and (epigenetic) rule: Chromatin Domains as Functional and Structural Units of Genomes (book chapter).Current Trends in Science. INSA Platinum Jubilee Special Publication (ISBN: 978-81-85324-16-6), pp. 211-224, 20092009
Chromatin and Disease (Book Review)Current Science 97, 261-262, 2009.2009
SnS-Align: A graphic tool for alignment of distantly related proteins.International Journal of Bioinformatics Research & Applications (IJBRA) 5, 663-673, 2009.2009
Cytogenetic characterization and fluorescence in situ hybridization of (GATA)10 repeats on established primary cell cultures from Indian water snake (Natrix piscator) and Indian mugger (Crocodylus palustris) embryos.Cytogenet Genome Res. 127, 287-96, 2009.2009
Novel motifs distinguish multiple homologues of Polycomb in vertebrates: expansion and diversification of the epigenetic toolkitBMC Genomics 10, 549, 2009.2009
Reptin and Pontin antagonistically function with PcG and TrxG complexes to mediate Hox gene control EMBO Reports 9, 260-266, 2008.2008
Transcriptional activation by GAGA factor is through its direct interaction with dmTAF3Dev. Biol. 317, 660-670, 2008.2008
Epigenetic regulation of genes during development: A conserved theme from flies to mammalsJ. Genet. Genomics 35, 413-429, 2008.2008
An intronic DNA sequence within the mouse Neuronatin gene exhibits biochemical characteristics of an ICR and acts as a transcriptional activator in DrosophilaMechanisms of Development 125, 963-973, 2008.2008
A double-edged sword to force posterior dominance of Hox genesBioEssays 30, 1058-1061, 2008.2008
Boundary Element-Associated Factor 32B Connects Chromatin Domains to the Nuclear MatrixMol. Cell. Biol. 27, 4796-4806, 2007.2007
Involvement of Polycomb-Group Genes in Establishing HoxD Temporal ColinearityGenesis 45, 570-576, 2007.2007
Chromatin Domain Boundaries: Defining the functional domains in genome Proc. Ind. Natl. Sci. Acad. 73, 239-253, 2007.2007
Efficient and specific targeting of Polycomb group proteins requires cooperative interaction between grainyhead and pleohomeoticMol. Cell. Biol. 26, 1434-1444, 2006.2006
MiRacles in Hox gene regulationBioEssays 28, 445-448, 2006.2006
To SIR with Polycomb: linking silencing mechanismsBioEssays 27, 119-121, 20052005
Synergistic recognition of an epigenetic DNA element by Pleiohomeotic and a Polycomb core complexGenes & Development 19, 1755-1760, 2005.2005
Bioinformatics and the Art of Sequence AnalysisRecent Advances in Biotechnology (N C Gautam and M P Singh, eds), Shree Publishers, New Delhi, PP. 21-41, 20042004
The enhancer blocking activity of the Fab-7 boundary from the Drosophila bithorax complex requires GAGA factor binding sitesGenetics 168, 1371-1384, 2004.2004
Edward B Lewis (1918-2004) (Commentary)J. Biosciences 29, 231-233, 20042004
Bridging the gap but breaking the rule: a tunicate twists the hox puzzle (Research News)Current Science 87, 1038-1040, 20042004
Extreme conservation of noncoding DNA near HoxD complex of vertebratesBMC Genomics, 5, 75, 20042004
Triplet repeats in human genome: distribution and their association with genes and other genomic regions (Discovery Note)Bioinformatics 19, 549-552, 20032003
Genome-Wide Analysis of Microsatellite Repeats in Humans: Their Abundance and Density in Specific Genomic RegionsGenome Biology 4, R13, 2003.2003
Extreme Conservation of Non-Repetitive Non-Coding Regions Near HoxD Complex of Vertebrates (Deposited research article)Genome Biology 4, P2, 2003.2003
Genome-Wide Analysis of Bkm Sequences (GATA repeats): Predominant Association with Sex Chromosomes and Potential Role in Higher Order Chromatin Organization and FunctionBioinformatics 19, 681-685, 2003.2003
Trl-GAGA Directly Interacts with lola like and Both are Part of the Repressive Complex of Polycomb Group of GenesMechanisms of Development 120, 681-689, 2003.2003
MRD: a microsatellite repeats database for prokaryotic and eukaryotic genomes (Deposited research article)Genome Biology 2002, 3(12):preprint0011.1-0011.132002
The iab-7 Polycomb Response Element Maps to a Nucleosome-Free Region of Chromatin and Requires Both GAGA and Pleiohomeotic for Silencing ActivityMol. Cell. Biol. 21, 1311-1318, 2001.2001
Getting at the core of the colinearity of Hox genes.Current Science 77, 213-216, 1999.1999
Boundaries that demarcate structural and functional domains of chromatin.J. Biosciences 24, 377-399, 1999.1999
Synthesis of a novel polynucleotide : potential R-L model.Current Science 57, 574-577, 1988.1998
Chromatin domain boundaries in the Bithorax complexCell. Mol. Life Sci. 54, 60-70, 1998.1998
Selective inhibition of cell-free translation by oligonucleotides targeted to an mRNA hairpin structure.Nucleic Acids Research 26, 2273-2278, 19981998
A conserved sequence motif in Polycomb-Response Elements.Molecular Cell 1, 1065-1066, 1998.1998
Three small nucleolar RNAs that are involved in ribosomal RNA precursor processing.Proc. Natl. Acad. Sci. (USA) 94, 4972-4977, 1997.1997
Identification of aptamers against the DNA template for in vitro transcription of the HIV-1 TAR element.Antisense Nucleic Acid Drug Development 7, 369-380, 1997.1997
Targeting nucleic acid secondary structure by antisense oligonucleotides designed through in vitro selection.Proc. Natl. Acad. Sci. (USA) 93, 10679-10684, 1996.1996
Improved leishmanicidal effect of phosphorothioate antisense oligonucleotides by LDL-mediated delivery.Biochim. Biophys. Acta 1264, 229-237, 1995.1995
Differential influence of DNA supercoiling on in vivo strength of promoters varying in structure and organisation in E. coli.FEBS Letters 340, 189-192, 1994.1994
DNA intercalation and photoinduced cleavage by 4-nitro- (N hexylamine)1,8-Naphthalimide.Nucleotides & Nucleotides 13, 963-978, 1994.1994
Antisense phosphorothioate oligonucleotides : selective killing of the intracellular parasite Leishmania amazonensis.Proc. Natl. Acad. Sci. (USA) 91, 7859-7863, 1994.1994
Design of simple and flexible dimeric peptide model for DNA recognition and scission.J. Chem. Soc. (Chemical Communications) 5, 107-109, 1994.1994
In vitro selection of antisense oligonucleotides targeted to a hairpin structure.C. R. Acad. Sci.(Paris) 317, 977-982, 1994.1994
Synthetic nucleases crafted from L-lysine.Proc. Indian Acad. Sci., Chem. Sci. 106, 1071-1088, 1994.1994
Inheritance of chromatin structure: DNA methylation and other means. (Research news)Current Science 64, 212-214, 1993.1993
Promoter search and strength of a promoter: two important means for global regulation of gene expression in E. coli.J. Biosciences 18, 1-11, 1993.1993
Design of a chemical nuclease model with (lys)2 Cu as the core motif.J Chem. Soc. (Chemical Communications) 4, 337-339, 1993.1993
Mechanism of initiation of transcription by E. coli RNA polymerase on supercoiled template.Molecular Microbiology 8, 507-515, 1993.1993
Self-association properties of naphthalimide derived fluorescent DNA intercalators.Indian J. Chemistry 32B, 540-545, 1993.1993
Promoter recognition and transcription efficiency in E. coli: influence of DNA conformation and topology.Proceedings of DAE Symposium on Molecular Biology of Microorganisms, p. 120-125, 1992.1992
Photoinduced strand scission of double helical DNA by 1,8-Naphthalimide derived intercalators.Current Science 62, 693-695, 1992.1992
Yeast budding forages through redundancy. (Scientific correspondence)Current Science 63, 111-112, 1992.1992
Screening of clones containing altered DNA conformations by plasmid topoprofile shift.J. Biochem. Biophys. Meth. 22, 171-175, 1991.1991
Mechanism of initiation of transcription in Escherichia coli.Nucleotides & Nucleotides 10, 607-608, 1991.1991
Sequence specific chemical recognition of DNA.Nucleotides & Nucleotides 10, 609-612, 1991.1991
Unusual DNA structures: sequence requirements and role in transcriptional control.Structure & Methods Vol. 2: DNA Protein Complexes & Proteins (Sharma, R H & Sharma, M H, Eds.), Adenine Press, N.Y., p. 33-49, 1990.1990
Correlation between the DNA supercoiling and the initiation of transcription of E. coli RNA polymerase in vitro : role of the sequences upstream of the promoter regions.FEBS Letters 260, 273-276, 1990.1990
Sequence criteria for Z-DNA formation: studies on poly d(ACGT).Nucleic Acids Research 17, 450, 1989.1989
DNA duplex with the potential to change handedness after every half a turn.Nucleic Acids Research 17, 7273-7281, 1989.1989
Use of protecting groups as purification tool in large scale synthesis of small deoxyoligonucleotides.Indian J. Chemistry 27B, 817-820, 1988.1988
Interruptions of (CG)n sequences by GG, TG and CA need not prevent B to Z transition in solution.Nucleic Acids Research 16, 4651-4665, 1988.1988
Sequence specificity of Z-DNA formation in oligonucleotides.Biochemistry International 17, 121-13, 1988.1988
Improved synthesis of oligodeoxynucleotides using 3-methoxy-4 phenoxy benzoyl group for amino protection.Nucleic Acids Research 14, 6197-6112, 1986.1986
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