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GenomicsGenome wide localization of chromatin bound NUP98-PHF23 (NP23)
We analyzed the genome wide localization of H3K4me3, H3K27me3 and the NUP98-PHF23 (with V5 tag) fusion protein which binds H3K4me3 via its PHD finger, using ChIP-seq. Results correlated with gene expression profiles. NUP98-PHF23 bound only 1.6% of H3K4me3 marks including Hoxa/b + Meis1. Assess H3K4m...
ORGANISM(S): Mus musculus 
2014-03-06 | E-GEOD-54786 | biostudies-arrayexpress
GenomicsGenome-wide map of PAX3-FKHR binding sites in rhabdomyosarcoma
We report the genome-wide maps of PAX3-FKHR binding sites. Chromatin immunoprecipitation was performed against PAX3-FKHR positive (Rh4) and PAX3-FKHR negative (RD) rhabdomyosarcoma cells with a monoclonal antibody (pFM2) specific for the fusion region of PAX3-FKHR. We obtained 4 million sequence t...
ORGANISM(S): Homo sapiens 
2010-08-17 | E-GEOD-19063 | biostudies-arrayexpress
TranscriptomicsGene expression study of leukemic and premalignant hematopoietic tissues from NUP98-PHF23 (NP23) mice.
NUP98-PHF23 is oncogenic and results in a Hoxa/b + Meis1 overexpression in NP23 leukemias and in premalignant (clinically healthy) hematopoietic tissues. Gene expression profiles from AML, pre-T LBL and B-ALL were compared to wild type bone marrow, thymus and spleen tissues respectively. Similarly, ...
ORGANISM(S): Mus musculus 
2014-03-06 | E-GEOD-54787 | biostudies-arrayexpress
TranscriptomicsA methyl-deviator epigenotype of estrogen-receptor-positive breast carcinoma is associated with malignant biology
We broadly profiled DNA methylation in breast cancers (n=351) and benign parenchyma (n=47) for correspondence with disease phenotype using formalin-fixed paraffin-embedded (FFPE) diagnostic surgical pathology specimens. Exploratory analysis revealed a distinctive primary invasive carcinoma subclass ...
ORGANISM(S): Homo sapiens 
2011-12-08 | E-GEOD-29428 | biostudies-arrayexpress
TranscriptomicsTranscription profiling by array of human jurkat cells after mitogen stimulation
Gene expression analysis identified 27 of these 744 p300 and pol II associated genes as significantly increased (p? 0.05) within the first hour following mitogen stimulation Experiment Overall Design: Total RNA was purified from Jurkat T-cells treated 0, 30, and 60 min with phorbol ester and ionomyc...
ORGANISM(S): Homo sapiens 
2009-12-11 | E-GEOD-11118 | biostudies-arrayexpress
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