Genomics and proteomics in solving brain complexity

Kadakkuzha, Beena M.; Puthanveettil, Sathyanarayanan V.

doi:10.1039/c3mb25391k

Cited by 21 publications

(12 citation statements)

References 185 publications

(223 reference statements)

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“…Identifying the composition and dynamics of the synaptic proteome is key to understanding the remodeling of existing synapses and growth of new synapses, as well as identifying novel therapeutic targets for synaptopathies (7,8). The composition of the synaptic proteome is determined by proteins transported from the cell body and local synthesis of proteins at the synapses.…”

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confidence: 99%

New approach to capture and characterize synaptic proteome

Liu¹,

Kadakkuzha²,

Pascal³

et al. 2014

Proc. Natl. Acad. Sci. U.S.A.

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Little is known regarding the identity of the population of proteins that are transported and localized to synapses. Here we describe a new approach that involves the isolation and systematic proteomic characterization of molecular motor kinesins to identify the populations of proteins transported to synapses. We used this approach to identify and compare proteins transported to synapses by kinesin (Kif) complexes Kif5C and Kif3A in the mouse hippocampus and prefrontal cortex. Approximately 40-50% of the protein cargos identified in our proteomics analysis of kinesin complexes are known synaptic proteins. We also found that the identity of kinesins and where they are expressed determine what proteins they transport. Our results reveal a previously unappreciated role of kinesins in regulating the composition of synaptic proteome.kinesin | protein transport | synapse | proteome | hippocampus

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confidence: 99%

New approach to capture and characterize synaptic proteome

Liu¹,

Kadakkuzha²,

Pascal³

et al. 2014

Proc. Natl. Acad. Sci. U.S.A.

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“…Genomics is rapidly being used to understand the structure and function of all the genes and other biological features in the entire DNA sequence of the organism along with comparison of genome. It is a discipline that applies DNA sequencing methods, recombinant DNA and bioinformatics to sequence, assemble and analyse the structure and function of genomes (that is a complete set of DNA within a single cell of an organism) [18,19]. A great revolution has been elicited with the advancement in genomic studies to uncover the complexity of human genome and make easy to understand about the difficulty of biological system [20].…”

Section: Genomic Approachesmentioning

confidence: 99%

Review on Computational Approaches for Identification of New Targets and Compounds for Fighting Against Filariasis

Mishra¹,

Srivastava²

2017

TOBCJ

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Background:Lymphatic filariasis is a tropical disease and currently more than 1.4 billion people in 73 countries are at risk but still it is neglected in higher researches. Lymphatic filariasis is wide spread throughout the tropical and subtropical areas of Asia, Africa, the Western Pacific and some parts of the Americas. Though it is a big issue for developing countries but still no proper prophylactic or therapeutic measures are taken out as to protect against filarial infection or to modulate disease.Objective:Non availability of proper prevention or cure as well are the major issues for which new scientific computational research approaches towards the management and betterment of this disease is required. Identification of novel compounds or drug targets through advance computational approaches can give new and better alternatives against this social problem or can open a new gate way towards advance approaches of drug designing.Results:Current review signifies the contribution of scientist working in different areas are globally thinking about the resolution of this problem and among different approaches these computational based researches will no doubt are a milestone against the fight with filaria. Genomic, proteomic, system biology based concepts, computational drug designing, virtual screening, homology modellingetc. are the different advances which altogether will win these problem.Conclusion:Compilation of thisin silicocontributions are well establishing their importance in finding out new targets and compounds that could lead a milestone against this social stigma which create humiliation not only for patients or relatives but also burden of society too.

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“…Sequencing can be done either unidirectional (single-end sequencing) or bidirectional (paired-end sequencing) and then aligned to a reference genome database or assembled to obtain de novo transcripts, proving a genome-wide expression profile (Wang et al, 2009). The advantages of RNA-Seq and its application in studying nervous system and the challenges associated with the technology are summarized in a previous publication (Kadakkuzha and Puthanveettil, 2013). Unlike microarray technology, which depends on already known genes, RNA-Seq is not dependent on existing genome data and can screen novel transcript and analyze transcript structure, including single base-pair resolution and exonic boundaries, which is very valuable while investigating SNPs, thus making it useful for genotyping and linkage analysis (Wang et al, 2009).…”

Section: Rna-seqmentioning

confidence: 99%