Proteomics

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A Multi-Omic Analysis of Human Naive CD4 T cells

ABSTRACT: Technological advances in genomics, epigenomics, transcriptomics and proteomics have enabled massively parallel measurements across thousands of genes and gene products. Such high-throughput technologies have been extensively used to carry out genome-wide studies particularly in the context of diseases. Nevertheless, a unified analysis of the genome, epigenome, transcriptome, and proteome of a single mammalian cell type to obtain a coherent view of the complex interplay between omes has not yet been undertaken. Here, we report the first multi-omic analysis of human primary naïve CD4+ T cells, revealing hundreds of unannotated mRNA transcripts, miRNAs, pseudogenes, and noncoding RNAs. Additionally, we carried out a comparative analysis of naïve CD4+ T cells with primary resting memory CD4+ T cells, which have provided novel insights into T cell biology. Overall, our data will serve as a baseline reference of a single pure population of cells for future systems level analysis of other defined cell populations.

INSTRUMENT(S): LTQ Orbitrap Velos, LTQ Orbitrap Elite

ORGANISM(S): Homo Sapiens (ncbitaxon:9606)

SUBMITTER: Dr Akhilesh Pandey 

PROVIDER: MSV000079624 | MassIVE | Mon Apr 04 02:33:00 BST 2016

SECONDARY ACCESSION(S): PXD000376

REPOSITORIES: MassIVE

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A multi-omic analysis of human naïve CD4+ T cells.

Mitchell Christopher J CJ   Getnet Derese D   Kim Min-Sik MS   Manda Srikanth S SS   Kumar Praveen P   Huang Tai-Chung TC   Pinto Sneha M SM   Nirujogi Raja Sekhar RS   Iwasaki Mio M   Shaw Patrick G PG   Wu Xinyan X   Zhong Jun J   Chaerkady Raghothama R   Marimuthu Arivusudar A   Muthusamy Babylakshmi B   Sahasrabuddhe Nandini A NA   Raju Rajesh R   Bowman Caitlyn C   Danilova Ludmila L   Cutler Jevon J   Kelkar Dhanashree S DS   Drake Charles G CG   Prasad T S Keshava TS   Marchionni Luigi L   Murakami Peter N PN   Scott Alan F AF   Shi Leming L   Thierry-Mieg Jean J   Thierry-Mieg Danielle D   Irizarry Rafael R   Cope Leslie L   Ishihama Yasushi Y   Wang Charles C   Gowda Harsha H   Pandey Akhilesh A  

BMC systems biology 20151106

<h4>Background</h4>Cellular function and diversity are orchestrated by complex interactions of fundamental biomolecules including DNA, RNA and proteins. Technological advances in genomics, epigenomics, transcriptomics and proteomics have enabled massively parallel and unbiased measurements. Such high-throughput technologies have been extensively used to carry out broad, unbiased studies, particularly in the context of human diseases. Nevertheless, a unified analysis of the genome, epigenome, tra  ...[more]

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