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Genetics

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Publicly Accessible Penn Dissertations

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Articles 1 - 3 of 3

Full-Text Articles in Molecular Biology

The Mitotic Genome: Accessibility And Transcriptional Control, Chris Hsiung Jan 2016

The Mitotic Genome: Accessibility And Transcriptional Control, Chris Hsiung

Publicly Accessible Penn Dissertations

Mitosis entails dramatic global alterations to genome structure and regulation, including

chromosome condensation, dissociation of the transcriptional machinery from chromosomes, and transcriptional silencing. Here I report studies that address the macromolecular accessibility of the mitotic genome and the control of transcriptional reactivation upon mitotic exit in a mammalian cell line. The results obtained from measuring the sensitivity of chromatin to DNase I cleavage by sequencing (DNase-seq) in pure mitotic cell populations demonstrate that macromolecular accessibility of the mitotic genome is widely preserved. Thus, steric hindrance from chromatin condensation is insufficient for explaining the eviction of transcription factors from mitotic chromatin ...


Epigenomic And Transcriptional Regulation Of Hepatic Metabolism By Rev-Erb And Hdac3, Dan Feng Jan 2013

Epigenomic And Transcriptional Regulation Of Hepatic Metabolism By Rev-Erb And Hdac3, Dan Feng

Publicly Accessible Penn Dissertations

Metabolic activities are regulated by the circadian clock, and disruption of the clock exacerbates metabolic diseases including obesity and diabetes. Transcriptomic studies in metabolic organs suggested that the circadian clock drives the circadian expression of important metabolic genes. Here we show that histone deacetylase 3 (HDAC3) is recruited to the mouse liver genome in a circadian manner. Histone acetylation is inversely related to HDAC3 binding, and this rhythm is lost when HDAC3 is absent. Diurnal recruitment of HDAC3 corresponds to the expression pattern of REV-ERBĪ±, an important component of the circadian clock. REV-ERBĪ± colocalizes with HDAC3 near genes regulating lipid ...


Higher-Order Chromatin Organization In Hematopoietic Transcription, Wulan Deng Jan 2012

Higher-Order Chromatin Organization In Hematopoietic Transcription, Wulan Deng

Publicly Accessible Penn Dissertations

Coordinated transcriptional networks underlie complex developmental processes. Transcription factors play central roles in such networks by binding to core promoters and regulatory elements and thereby controlling transcription activities and chromatin states in the genome. GATA1 is a hematopoietic transcription factor that controls multiple hematopoietic lineages by activating and repressing gene expression, yet the in vivo mechanisms that specify these opposing activities are unknown. By examining the composition of GATA1 associated protein complexes in a genetic complementary erythroid cell system as well as through the use of tiling arrays, we found that a multi-protein complex containing SCL/TAL1, LMO2, Ldb1, and ...