A5044253674- Epigenetics and DNA Methylation
- Genomics and Chromatin Dynamics
- Cancer-related gene regulation
- RNA modifications and cancer
- Animal Vocal Communication and Behavior
- Lymphoma Diagnosis and Treatment
- Cancer Genomics and Diagnostics
- CAR-T cell therapy research
- Ubiquitin and proteasome pathways
- Marine animal studies overview
- Estrogen and related hormone effects
- Prostate Cancer Treatment and Research
- Genomics and Phylogenetic Studies
- Genomics and Rare Diseases
- Protein Degradation and Inhibitors
- RNA and protein synthesis mechanisms
- Animal Behavior and Reproduction
Retina Vitreous Associates of Florida
2024
Bristol-Myers Squibb (United States)
2022-2024
Exact Sciences (United States)
2024
Predictive Science (United States)
2022
Active Motif (United States)
2018-2019
University of Southern California
2013-2014
University of California, Davis
2013-2014
Sequenom (United States)
2014
Gene expression is epigenetically regulated by a combination of histone modifications and methylation CpG dinucleotides in promoters. In normal cells, CpG-rich promoters are typically unmethylated, marked with such as H3K4me3, highly active. During neoplastic transformation, CG-rich become aberrantly methylated, corresponding the removal active transcriptional silencing. Outside promoter regions, distal enhancers play major role cell type-specific regulation gene expression. Enhancers, which...
Most prostate cancers express the androgen receptor (AR), and tumor growth progression are facilitated by exceptionally low levels of systemic or intratumorally produced androgens. Thus, absolute inhibition signaling axis remains goal current therapeutic approaches to treat cancer (PCa). Paradoxically, high dose androgens also exhibit considerable efficacy as a treatment modality in patients with late-stage metastatic PCa. Here we show that androgens, functioning through an AR monomer,...
Abstract Background DNA methylation and repressive histone modifications cooperate to silence promoters. One mechanism by which regions of methylated could acquire is via methyl DNA-binding transcription factors. The zinc finger protein ZBTB33 (also known as Kaiso) has been shown in vitro bind preferentially interact with the SMRT/NCoR deacetylase complexes. We have performed bioinformatic analyses Kaiso ChIP-seq datasets test a model whereby binding CpGs leads loss acetylated histones at...
Abstract Alzheimer’s disease is a neurodegenerative disorder clinically defined by gradual cognitive impairment and alteration in executive function. We conducted an epigenome-wide association study (EWAS) of neuropathologically characterized cohort 296 brains, including (AD) non-demented controls (ND), exploring the relationship with RNA expression from matched donors. detected 5246 CpGs 832 regions differentially methylated, finding overlap previous EWAS but also new associations....
Chromatin immunoprecipitation (ChIP) is the most widely used approach for identification of genome-associated proteins and their modifications. We have previously introduced a microplate-based ChIP platform, Matrix ChIP, where entire procedure done on same plate without sample transfers. Compared to conventional protocols, assay faster has increased throughput. However, even with microplate assays, preparation chromatin fragmentation (which required map genomic locations) remains major...
Ethologists discovered over 100 years ago that some lifelong behavioural patterns were acquired exclusively during restricted developmental phases called critical periods (CPs). Developmental song learning in zebra finches is one of the most striking examples a CP for complex learned behaviour. After post-hatch day 65, whether or not juvenile male can memorize ‘tutor' depends on his experiences month prior. If he experienced tutor, no longer learn, but if has been isolated from hearing tutor...
One big limitation of computational tools for analyzing ChIP-seq data is that most them ignore non-unique tags (NUTs) match the human genome even though NUTs comprise up to 60% all raw in data. Effectively utilizing these would increase sequencing depth and allow a more accurate detection enriched binding sites, which turn could lead precise significant biological interpretations. In this study, we have developed tool, LOcating Non-Unique matched Tags (LONUT), improve regions from Our LONUT...
Gene expression is epigenetically regulated by a combination of histone modifications and methylation CpG dinucleotides in promoters. In normal cells, CpG-rich promoters are typically unmethylated, marked with such as H3K4me3, highly active. During neoplastic transformation, CG-rich become aberrantly methylated, corresponding the removal active transcriptional silencing. Outside promoter regions, distal enhancers play major role cell type-specific regulation gene expression. Enhancers, which...
Abstract Somatic variant calling involves the identification of genomic alterations that occur in somatic cells, requiring deep coverage to enable high sensitivity for low-frequency variants. Characterizing variants across entire genome therefore benefits from novel cost-efficient sequencing platforms, such as UG100. Here, we present optimization tools short and structural on WGS WES data For variants, optimized DeepVariant (DV) using matched tumor-normal sample pairs, improving both...
Abstract CC-99282 is a novel CELMoD® agent that was optimized for activity in non-Hodgkin lymphoma (NHL). potently degrades Ikaros and Aiolos, resulting enhanced antiproliferative, apoptotic, immune-stimulatory diffuse large B-cell (DLBCL) models, including those with acquired chemoresistance (Lopez-Girona A, et al. Hematol Oncol. 2021). In lymphocytes, negatively regulates gene expression via histone modifications, polycomb repressive complex 2 (PRC2)-mediated H3 lysine 27 trimethylation...
Abstract Aberrant epigenetic changes which include alterations in DNA methylation, nucleosome positioning and histone modifications have been studied extensively the context of tumorigenesis. The role methylation organization genome-wide chromatin structure its interaction with other modifiers cancer, however, remains unclear. Here, we use Nucleosome Occupancy Methylation whole-genome sequencing (NOMe-seq) assay to compare a colorectal cancer cell line, HCT116, derivatives that carry...