A5004404479- Genomics and Chromatin Dynamics
- Epigenetics and DNA Methylation
- RNA Research and Splicing
- Genomics and Phylogenetic Studies
- Microbial Community Ecology and Physiology
- Prenatal Screening and Diagnostics
- RNA modifications and cancer
- Assisted Reproductive Technology and Twin Pregnancy
- CRISPR and Genetic Engineering
- Gut microbiota and health
- RNA and protein synthesis mechanisms
- Plant Molecular Biology Research
- Genetic Syndromes and Imprinting
- Chromosomal and Genetic Variations
- Cancer-related gene regulation
- Histone Deacetylase Inhibitors Research
- Pregnancy and preeclampsia studies
- Genetics and Neurodevelopmental Disorders
- Protein Degradation and Inhibitors
- Hemoglobinopathies and Related Disorders
- Nuclear Structure and Function
- Health, Environment, Cognitive Aging
- Telomeres, Telomerase, and Senescence
- FOXO transcription factor regulation
- Insect and Arachnid Ecology and Behavior
Imperial College London
2025
UK Dementia Research Institute
2025
The Fourth People's Hospital
2025
National Chung Hsing University
2025
University of Pennsylvania
2017-2023
California University of Pennsylvania
2022
Drexel University
2012-2018
Creative Commons
2017
Philadelphia University
2016
Technion – Israel Institute of Technology
2013
Rulang Jiang, Yu Lan, Harry D. Chapman, Carrie Shawber, Christine R. Norton, David V. Serreze, Gerry Weinmaster, and Thomas Gridley The Jackson Laboratory, Bar Harbor, Maine 04609 USA; Department of Biological Chemistry, University California, Los Angeles (UCLA), School Medicine, Angeles, California 90024 USA
Aging is the strongest risk factor for Alzheimer’s disease (AD), although underlying mechanisms remain unclear. The chromatin state, in particular through mark H4K16ac, has been implicated aging and thus may play a pivotal role age-associated neurodegeneration. Here we compare genome-wide enrichment of H4K16ac lateral temporal lobe AD individuals against both younger elderly cognitively normal controls. We found that while leads to enrichment, entails dramatic losses proximity genes linked...
Background Currently, the naïve Bayesian classifier provided by Ribosomal Database Project (RDP) is one of most widely used tools to classify 16S rRNA sequences, mainly collected from environmental samples. We show that RDP has 97+% assignment accuracy and fast for 250 bp longer reads when read originates a taxon known database. Because samples will contain organisms taxa whose genes have not been previously sequenced, we aim benchmark how well other competing methods can discriminate these...
Abstract Nitrogen acquisition is a major challenge for herbivorous animals, and the repeated origins of herbivory across ants have raised expectations that nutritional symbionts shaped their diversification. Direct evidence N provisioning by internally housed rare in animals; among ants, it has been documented just one lineage. In this study we dissect functional contributions bacteria from conserved, multi-partite gut symbiosis Cephalotes through vivo experiments, metagenomics, vitro...
Abstract CRISPR-based genetic screening has revolutionized cancer drug target discovery, yet reliable, multiplex gene editing to reveal synergies between targets remains a major challenge. Here, we present simple and robust CRISPR-Cas12a-based approach for combinatorial in cells. By engineering the CRISPR-AsCas12a system with key modifications Cas protein its CRISPR RNA (crRNA), can achieve high efficiency screening. We demonstrate performance of our optimized AsCas12a (opAsCas12a) through...
Epithelial tissues rely on a highly coordinated balance between self-renewal, proliferation, and differentiation, disruption of which may drive carcinogenesis. The epigenetic regulator KMT2D (MLL4) is one the most frequently mutated genes in all cancers, particularly epithelial yet its normal function these unknown. Here, we identify novel role for coordinating this fine balance, as depletion from undifferentiated epidermal keratinocytes results reduced premature spurious activation terminal...
CCCTC-binding factor (CTCF) is a conserved zinc finger transcription implicated in wide range of functions, including genome organization, activation, and elongation. To explore the basis for CTCF functional diversity, we coupled an auxin-induced degron system with precision nuclear run-on. Unexpectedly, oriented motifs gene bodies are associated transcriptional stalling manner independent bound CTCF. Moreover, at different binding sites (CBSs) displays highly variable resistance to...
During mitosis, transcription is globally attenuated and chromatin architecture dramatically reconfigured. We exploited the M- to G1-phase progression interrogate contributions of architectural factor CTCF process genome re-sculpting in newborn nuclei. Depletion during transition alters short-range compartmentalization after mitosis. Chromatin domain boundary re-formation impaired upon loss, but a subset boundaries, characterized by transitions states, established normally. Without CTCF,...
The 16s rRNA gene is so far the most widely used marker for taxonomical classification and separation of prokaryotes. Since it universally conserved among prokaryotes, possible to use this classify a broad range prokaryotic organisms. At same time, has often been noted that too separate between prokaryotes at finer taxonomic levels. In paper, we examine how well levels similarity 73 additional universal or nearly genes correlate with genome-wide sequence similarity. We demonstrate percent...
Self-renewing somatic tissues depend upon the proper balance of chromatin-modifying enzymes to coordinate progenitor cell maintenance and differentiation, disruption which can promote carcinogenesis. As a result, drugs targeting epigenome hold significant therapeutic potential. The histone demethylase, LSD1 (KDM1A), is overexpressed in numerous cancers, including epithelial cancers; however, its role skin virtually unknown. Here we show that directly represses master transcription factors...
Self-renewal of spermatogonial stem cells is vital to lifelong production male gametes and thus fertility. However, the underlying mechanisms remain enigmatic. Here, we show that DOT1L, sole H3K79 methyltransferase, required for cell self-renewal. Mice lacking DOT1L fail maintain cells, characterized by a sequential loss germ from spermatogonia spermatids ultimately Sertoli only syndrome. Inhibition reduces activity after transplantation. promotes expression fate-determining HoxC...
Abstract Background Human gut microbial functions are often associated with various diseases and host physiologies. Aging, a less explored factor, is also suspected to affect or be affected by microbiome alterations. By combining functional feature selection supervised classification, we aim facilitate identification of age-related characteristics in metagenomes from several human studies (MetaHIT, MicroAge, MicroObes, Kurokawa et al. ’s Gill dataset). Results We apply two methods, term...