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TranscriptomicsTranscription profiling of ciprofloxacin induction of a susceptibility determinant in Pseudomonas aeruginosa
PAO1 was grown in sub-inhibitory ciprofloxacin (0.1x-, 0.3x-, 1x-MIC) until log phase. Microarrays were done on total RNA isolated from these cultures. Loop design and dye swapping were used.
ORGANISM(S): Pseudomonas aeruginosa 
2013-01-30 | E-FPMI-1 | biostudies-arrayexpress
GenomicsRegulation of the KEAP1/NRF2 oxidative stress response pathway by BRD4 in prostate and colorectal cancer
To identify genes regulated by BRD4 and to provide insight into new mechanisms de-regulated by BRD4, such as the response to oxidative stress, we integrated BRD4-binding regions with BRD4 gene expression data. For this analysis we performed BRD4 chromatin immunoprecipitation experiments and BRD4 kn...
ORGANISM(S): Homo sapiens 
2014-02-28 | E-GEOD-50491 | biostudies-arrayexpress
GenomicsModulation of enhancer looping and differential gene targeting by Epstein-Barr virus transcription factors directs epigenetic reprogramming
Epstein-Barr virus (EBV) epigenetically reprogrammes B-lymphocytes to drive immortalization and facilitate viral persistence. Host-cell transcription is perturbed principally through the actions of EBV EBNA 2, 3A, 3B and 3C, with cellular genes deregulated by specific combinations of these EBNAs thr...
ORGANISM(S): Homo sapiens 
2013-09-13 | E-GEOD-47629 | biostudies-arrayexpress
ProteomicsApplication of 193 nm UVPD for phosphoproteomic analysis of HeLa and HCC70
Application of 193 nm ultraviolet photodissociation (UVPD) for phosphoproteomics analysis of IMAC enriched HeLa and HCC70 lysates. HCC70 cells were either maintained in full media or serum starved for 6 hours prior to lysis. Each sample was analyzed by three UVPD and three HCD technical replicates u...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2016-04-04 | MSV000079626 | MassIVE
GenomicsIdentification of maternal imprinting control regions (ICRs) in the post-implantation mouse embryo.
Genomewide DNA methylation profiles, generated by MeDIP-seq, for 8.5dpc wildtype and Dnmt3l-/+ mouse embryos were compared to identify differentially methylated regions (DMRs) that depend on the activity of the de novo DNA methyltransferase cofactor Dnmt3l in the oocyte. These DMRs were further char...
ORGANISM(S): Mus musculus 
2012-10-04 | E-GEOD-32687 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of BXSB mice to study lupus erythematosus
Genetic basis of systemic lupus erythematosus in BXSB mice.
ORGANISM(S): Mus musculus 
2013-01-30 | E-MIMR-7 | biostudies-arrayexpress
TranscriptomicsExposure time during postembryonic development influences persistent biological effects of the insecticide carbaryl in green frogs (Lithobates clamitans)
The impact of pesticides on amphibian metamorphosis may vary depending on developmental stage of individuals during the exposure period. Some anurans experience increased rates of development when exposure to the insecticide carbaryl occurs later in larval development. We exposed developing northern...
ORGANISM(S): Rana clamitans 
2013-02-21 | E-GEOD-42338 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of human sigmoid colon biopsies from healthy and patients with ulcerative colitis
Gene expression profiles were performed to compare the difference in sigmoid colon biopsies between from healthy control and patients with ulcerative colitis. Experiment Overall Design: Total RNA was isolated sigmoid biopdy from 5 healthy and 6 UC patients. Pooled 5 ug total RNA equally for each gr...
ORGANISM(S): Homo sapiens 
2009-03-07 | E-GEOD-10791 | biostudies-arrayexpress
Genomics200PT.bam - samples
200PT : WG Aligned Sequence (bam)/ Aligned WG sequence data in this dataset are from CPCGene Tumour/Normal Pairs used in the 200PT Study
EGAD00001004061 | EGA
TranscriptomicsDnmt3a haploinsufficiency transforms Flt3-ITD myeloproliferative disease into a rapid, spontaneous, and fully-penetrant acute myeloid leukemia (Single Cell RNA-Seq)
Cytogenetically normal acute myeloid leukemia (CN-AML) represents nearly 50% of human acute myeloid leukemia (AML) cases with a 5-year overall survival of approximately 30%. In CN-AML with poorer prognosis, mutations in the de novo DNA methyltransferase (DNMT3A) and the FMS-like tyrosine kinase 3 (F...
ORGANISM(S): Mus musculus 
2016-03-27 | E-GEOD-77847 | biostudies-arrayexpress
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