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TranscriptomicsCyclophilin D extramitochondrial signaling controls cell cycle progression and chemokine-directed cell motility.
Mitochondria control bioenergetics and cell fate decisions, but whether they also participate in extra-organelle signaling is not understood. Here, we show that interference with cyclophilin D (CypD), a mitochondrial matrix protein and apoptosis regulator, causes accelerated cell proliferation and ...
ORGANISM(S): Mus musculus 
2013-03-08 | E-GEOD-41280 | biostudies-arrayexpress
TranscriptomicsModulation of gene expression in heart and liver of hibernating black bears (Ursus americanus)
We analyzed gene expression in the American black bear, Ursus americanus, using a custom 12,800 cDNA probe (BA02) microarray to detect differences in expression that occur in heart and liver during winter hibernation in comparison to summer active animals. We identified 245 genes in heart and 319 ge...
ORGANISM(S): Ursus americanus 
2011-05-10 | E-GEOD-27875 | biostudies-arrayexpress
TranscriptomicsThe Sp100 component of ND10/PML bodies is a potent tumor suppressor
The Sp100 component of ND10/PML bodies is a potent tumor suppressor: accelerated senescence and rapid malignant transformation of human fibroblasts through modulation of an embryonic stem cell program. Identifying the functions of proteins, which define specific subnuclear structures and territorie...
ORGANISM(S): Homo sapiens 
2012-12-04 | E-GEOD-20613 | 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
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
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
TranscriptomicsExamination of the MAPK pathway gene expression in patient samples
Microarray analysis of total RNA isolated from samples of circulating tumor cells from 7 patients before romidepsin infusion (0 hours), at 4 h after initiation of the infusion (4 hours) and 24 h after initiation of the infusion (24 hours). MAPK pathway related genes were selected to see differences ...
ORGANISM(S): Homo sapiens 
2013-06-03 | E-GEOD-45405 | biostudies-arrayexpress
UnknownHuman breast cancer associated fibroblasts exhibit subtype specific gene expression profiles
Not available
ORGANISM(S): Homo sapiens 
S-ECPF-GEOD-37614 | biostudies-other
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
TranscriptomicsDNA methylation analysis of PBMC from HIV and HIV/TB co-infected patients
Genome wide DNA methylation profiling of PBMC from South African patients either infected with HIV only or coinfected with HIV and tuberculosis (TB). The Illumina Infinium 27k Human DNA methylation Beadchip was used to obtain DNA methylation profiles from PBMC samples. Samples included 19 HIV patien...
ORGANISM(S): Homo sapiens 
2014-03-05 | E-GEOD-50835 | biostudies-arrayexpress
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