[PDF] Top 20 Accurate prediction of cell type specific transcription factor binding
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Accurate prediction of cell type specific transcription factor binding
... within cell type case. To this end, we select five combinations of cell type and transcription fac- tor spanning the range of performance values observed in the ...of prediction ... See full document
17
Cell fate control by pioneer transcription factors
... diverse cell types that are induced and maintained by cell type-specific chromatin states and patterns of gene ...new cell fates are induced during embryonic development, tissue ... See full document
5
Cell-type-specific separate regulation of the E6 and E7 promoters of human papillomavirus type 6a by the viral transcription factor E2.
... by binding of the E2 protein to both promoter-proximal binding sites did not function in HT3 ...cells. Binding affinity and off-rate analysis of individual E2 bind- ing sites within the NCR of ...E2 ... See full document
11
Replicative senescence is associated with nuclear reorganization and with DNA methylation at specific transcription factor binding sites
... six specific CpGs even facilitates reliable prediction of passage num- bers and cumulative population doublings for quality control of cell preparations ... See full document
15
Cell-type specific concentration regulation of the basal transcription factor TFIIH in XPBy/y mice model
... RNAP1 transcription [37]; (ii) spironolactone that induces XPB degradation [1, ...ing transcription since their use may hinder the cel- lular activities of normal non-malignant ...reduce ... See full document
11
“Study of Rice Telomere Binding Protein 1 (RTBP1): An IN Silico Approach” by Koel Mukherjee*, Ashutosh Kumar, Dev M Pandey and Ambarish S Vidyarthi, India.
... Telomere Binding Protein, one major type of transcription Factor is the necessary building blocks of telomere ...Telomere Binding Proteins in different actions like telomere length ... See full document
5
A general integrative genomic feature transcription factor binding site prediction method applied to analysis of USF1 binding in cardiovascular disease
... core binding site, identified 756 c-Myc binding sites on chromosomes 21 and ...c-Myc binding sites. A genome-wide study of the transcription factor signal transducer and activator of ... See full document
15
The human foamy virus Bel-1 transcription factor is a sequence-specific DNA binding protein.
... LTR transcription start, is, however, sufficient to mediate an essentially wild-type level of transactivation of the HFV LTR promoter by Bel-1 ...DNA binding site was found to be necessary but not ... See full document
7
Locus-specific hypomethylation of the mouse IAP retrotransposon is associated with transcription factor-binding sites
... dystrophy, and X-linked agammaglobulinemia in humans [2]. In mice, 10–12% of spontaneous mutant alleles arise as a result of the retrotransposition of LTR retrotranspo- sons, such as intracisternal A particle (IAP), ... See full document
12
Nuclear factor I and epithelial cell-specific transcription of human papillomavirus type 16.
... Band shift experiments using an a-32P-labeled Ad NFl binding site oligonucleotide with nuclear extracts from three epithelial lines HeLa, C33-A, and MCF-7; lanes 1 to 3, one liver cell l[r] ... See full document
9
Functional Analysis of the CAAT Box in the Major Late Promoter of the Subgroup C Human Adenoviruses
... conserved transcription elements found in the putative ...of transcription and of specificity, a further set of mutations was created and examined in the context of the viral ...disrupts binding of ... See full document
8
Effects of heat shock and hypoxia on protein synthesis in rainbow trout (Oncorhynchus mykiss) cells
... pronounced cell-type specificity, since it occurred in gill epithelial cells, which naturally experience large fluctuations in oxygen tensions, but not in hepatocytes or in RTG-2 ... See full document
9
Molecular biology of the type I human T cell leukemia virus (HTLV I) and adult T cell leukemia
... Abbreviations used in this paper: ATF, activating transcription factor; ATLL, adult T-cell leukemia/lymphoma; CREB, cyclic ANMP response element binding protein; HTLV-I, type I human T-c[r] ... See full document
7
Inactivation of specific β cell transcription factors in type 2 diabetes
... purchased from The Jackson Laboratory. Isolated human islets were embed- ded and immunostained as described (53). An islet cell was scored positive for nuclear factor only when at least 75% of the nucleus ... See full document
13
Stochastic Modeling of Transcription Factor Binding Fluctuations
... Single-cell analysis has revealed that genes are typically expressed at either a very high or a very low level; that is, promoters are either “off” or “on”, with no intermediate level of activity. This behavior is ... See full document
109
A Motif Co-Occurrence Approach for Genome-Wide Prediction of Transcription-Factor-Binding Sites in Escherichia coli
... the binding site mu- tations, care was taken neither to disrupt overlapping transcrip- tion factor binding sites, nor to create new sites for the 55 ...coli transcription factors for which ... See full document
9
Human T-Cell Leukemia Virus Type 1 (HTLV-1) bZIP Factor Requires Cellular Transcription Factor JunD To Upregulate HTLV-1 Antisense Transcription from the 3′ Long Terminal Repeat
... antisense transcription of the HTLV-1 3= LTR is con- trolled by Sp1 binding sites located in the U5 region (65) (see ...Sp1 binding sites or various com- binations of mutations in these sites, was ... See full document
9
Heat shock protein 70 down-regulates the production of toll-like receptor-induced pro-inflammatory cytokines by a heat shock factor-1/constitutive heat shock element-binding factor-dependent mechanism
... the cell type, and our understanding of the roles it may play, especially the extracellular form, remains incomplete, and is even controversial ...the cell, suggesting that both isoforms associate ... See full document
12
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... basal cell carcinoma cells as an in vitro model, it was demonstrated that the regulation of CXCR4 expression by TGFβ1 is mediated by the phosphorylation of extracellular signal-regulated protein kinases 1 and 2 ... See full document
7
Mutational analysis of the human factor IX promoter : a thesis presented in partial fulfilment of the requirements for the degree of Master of Science in Genetics at Massey University
... responsible for down-regulating factor IX transcription leading to factor IX deficiency by disrupting the binding sites of transcription factors critical for factor IX gene expression.. [r] ... See full document
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