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GenomicsCombinatorial Control of RBP-jk and EBF1 Chromosome Occupancy induced by viral co-activator EBNA2
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Homo sapiens 
2015-12-16 | E-GEOD-75504 | biostudies-arrayexpress
GenomicsAlternative transcription exceeds alternative splicing in generating the transcriptome diversity of cerebellar development
Mammalian development is an intricate process regulated by multiple gene isoforms and their epigenetic states, which are yet undefined. Using integrative massive parallel sequencing and bioinformatics approach, we built genome-wide inventory of transcript variants, their promoters and histone modifi...
ORGANISM(S): Mus musculus 
2011-06-07 | E-GEOD-23525 | biostudies-arrayexpress
GenomicsIdentification of Host-Chromosome Binding Sites and Candidate Gene Targets for KSHV LANA
LANA is essential for tethering the KSHV genome to metaphase chromosomes and for modulating host-cell gene expression, but the binding sites in the host-chromosome remain unknown. Here, we use LANA-specific chromatin immunoprecipitation coupled with high-throughput sequencing (ChIP-Seq) to identify ...
ORGANISM(S): Homo sapiens 
2012-01-06 | E-GEOD-34890 | biostudies-arrayexpress
GenomicsGenome-wide mapping of RNA Pol-II promoter usage in mouse tissues by ChIP-seq
We report active promoters in five adult mouse tissues - brain, kidney, liver, lung and spleen using ChIP-Seq aganist RNAP-II antibody. We identified 38,639 active RNAP-II transcribed promoters, including 12,270 novel promoters. Of these, 6384 promoters are tissue specific which are CpG poor and con...
ORGANISM(S): Mus musculus 
2010-09-07 | E-GEOD-21773 | biostudies-arrayexpress
TranscriptomicsLectin-type oxidized LDL receptor 1 defines population of polymorphonuclear myeloid-derived suppressor cells in cancer patients
Polymorphonuclear myeloid-derived suppressor cells (PMN-MDSC) are important regulators of immune responses and promoters of tumor progression in cancer1,2. The heterogeneity of these cells as well as their distinction from neutrophils hampers the progress in understanding of the biology and clinical...
ORGANISM(S): Homo sapiens 
2016-07-22 | E-GEOD-79404 | biostudies-arrayexpress
GenomicsCohesins Repress KSHV Immediate Early Gene Transcription During Latency
Chromatin-organizing factors, like CTCF and cohesins, have been implicated in the control of complex viral regulatory programs. We investigated the role of CTCF and cohesin in the control of the latent to lytic switch for Kaposi's Sarcoma-Associated Herpesvirus (KSHV). We found that cohesin subun...
ORGANISM(S): Homo sapiens 
2012-06-02 | E-GEOD-38411 | biostudies-arrayexpress
TranscriptomicsIdentification of MEF2B, EBF1, and IL6R as chromosome bound targets of EBNA1 essential for EBV infected B-lymphocyte survival
EBNA1 is the EBV-encoded nuclear antigen required for viral episome maintenance during latency. EBNA1 is a sequence specific DNA binding protein with high affinity binding sites for the viral genome, especially OriP. EBNA1 can also bind sequence specifically to a large number of sites in the host ...
ORGANISM(S): Homo sapiens 
2015-12-16 | E-GEOD-73887 | biostudies-arrayexpress
GenomicsGenome-Wide Analysis of Host-Chromosome Binding Sites for Epstein-Barr Virus Nuclear Antigen 1 (EBNA1)
The Epstein-Barr Virus (EBV) Nuclear Antigen 1 (EBNA1) protein is required for the establishment of EBV latent infection in proliferating B-lymphocytes. EBNA1 is a multifunctional DNA-binding protein that stimulates DNA replication at the viral origin of plasmid replication (OriP), regulates transc...
ORGANISM(S): Homo sapiens 
2011-07-16 | E-GEOD-30709 | biostudies-arrayexpress
TranscriptomicsFoxp1 is a rate-limiting and essential negative regulator of Tfh cell differentiation
CD4+ T follicular helper (Tfh) cells are essential for germinal center (GC) and high-affinity antibody responses. Yet the regulation that determines the initial development of Tfh cells is still largely unknown. Here we find that transcription factor Foxp1, previously shown to be essential in mainta...
ORGANISM(S): Mus musculus 
2014-05-18 | E-GEOD-50725 | biostudies-arrayexpress
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