Transcriptional regulatory networks of the proteasome in mammalian systems
Sign Up to like & getrecommendations! Published in 2022 at "IUBMB Life"
DOI: 10.1002/iub.2586
Abstract: The tight regulation of proteostasis is essential for physiological cellular function. Mammalian cells possess a network of mechanisms that ensure proteome integrity under normal or stress conditions. The proteasome, being the major cellular proteolytic machinery,… read more here.
Keywords: proteasome mammalian; networks proteasome; regulatory networks; mammalian systems ... See more keywords
DOKI: Domain knowledge-driven inference method for reverse-engineering transcriptional regulatory relationships among genes in cancer
Sign Up to like & getrecommendations! Published in 2020 at "Computers in biology and medicine"
DOI: 10.1016/j.compbiomed.2020.104017
Abstract: Efficient reverse-engineering methods are important for identifying transcriptional regulatory relationships among genes in cancer. These methods are becoming increasingly useful in this era where huge volumes of data are generated through the use of high-throughput… read more here.
Keywords: relationships among; regulatory relationships; domain knowledge; transcriptional regulatory ... See more keywords
Impacts of the cross-correlated noises on the fluctuation behaviors of a gene transcriptional regulatory system
Sign Up to like & getrecommendations! Published in 2019 at "Physica A: Statistical Mechanics and its Applications"
DOI: 10.1016/j.physa.2018.09.108
Abstract: Abstract The fluctuation behaviors of a gene transcriptional regulatory system subjected to the cross-correlated noises are investigated. Based on the approximate Fokker–Planck Equation, the analytic expressions of the associate relaxation time and the correlation function… read more here.
Keywords: system; time; gene transcriptional; fluctuation ... See more keywords
Core transcriptional regulatory circuitries in cancer
Sign Up to like & getrecommendations! Published in 2020 at "Oncogene"
DOI: 10.1038/s41388-020-01459-w
Abstract: Transcription factors (TFs) coordinate the on-and-off states of gene expression typically in a combinatorial fashion. Studies from embryonic stem cells and other cell types have revealed that a clique of self-regulated core TFs control cell… read more here.
Keywords: core tfs; transcriptional regulatory; core transcriptional; regulatory circuitries ... See more keywords
Transcriptional Regulatory Networks in Hepatitis C Virus-induced Hepatocellular Carcinoma
Sign Up to like & getrecommendations! Published in 2018 at "Scientific Reports"
DOI: 10.1038/s41598-018-32464-5
Abstract: Understanding the transcriptional regulatory elements that influence the progression of liver disease in the presence of hepatitis C virus (HCV) infection is critical for the development of diagnostic and therapeutic approaches. Systems biology provides a… read more here.
Keywords: virus induced; hepatitis virus; transcriptional regulatory; regulatory networks ... See more keywords
Divergence in Transcriptional and Regulatory Responses to Mating in Male and Female Fruitflies
Sign Up to like & getrecommendations! Published in 2019 at "Scientific Reports"
DOI: 10.1038/s41598-019-51141-9
Abstract: Mating induces extensive physiological, biochemical and behavioural changes in female animals of many taxa. In contrast, the overall phenotypic and transcriptomic consequences of mating for males, hence how they might differ from those of females,… read more here.
Keywords: male female; divergence transcriptional; sex; transcriptional regulatory ... See more keywords
TRlnc: a comprehensive database for human transcriptional regulatory information of lncRNAs
Sign Up to like & getrecommendations! Published in 2021 at "Briefings in bioinformatics"
DOI: 10.1093/bib/bbaa011
Abstract: Long noncoding RNAs (lncRNAs) have been proven to play important roles in transcriptional processes and biological functions. With the increasing study of human diseases and biological processes, information in human H3K27ac ChIP-seq, ATAC-seq and DNase-seq… read more here.
Keywords: information; database human; trlnc; lncrnas ... See more keywords
Application of topic models to a compendium of ChIP-Seq datasets uncovers recurrent transcriptional regulatory modules
Sign Up to like & getrecommendations! Published in 2020 at "Bioinformatics"
DOI: 10.1093/bioinformatics/btz975
Abstract: MOTIVATION The availability of thousands of genome-wide ChIP-Seq datasets across hundreds of transcriptional factors (TFs) and cell lines provides an unprecedented opportunity to jointly analyze large-scale transcription factor binding in vivo, making possible the discovery… read more here.
Keywords: chip seq; seq datasets; topic models; tflda ... See more keywords
Characterizing Transcriptional Regulatory Sequences in Coronaviruses and Their Role in Recombination
Sign Up to like & getrecommendations! Published in 2020 at "Molecular Biology and Evolution"
DOI: 10.1093/molbev/msaa281
Abstract: Abstract Novel coronaviruses, including SARS-CoV-2, SARS, and MERS, often originate from recombination events. The mechanism of recombination in RNA viruses is template switching. Coronavirus transcription also involves template switching at specific regions, called transcriptional regulatory… read more here.
Keywords: characterizing transcriptional; coronavirus; trs; transcriptional regulatory ... See more keywords
A functional LSD1 coregulator screen reveals a novel transcriptional regulatory cascade connecting R-loop homeostasis with epigenetic regulation
Sign Up to like & getrecommendations! Published in 2021 at "Nucleic Acids Research"
DOI: 10.1093/nar/gkab180
Abstract: Abstract The lysine specific demethylase 1 (LSD1) plays a pivotal role in cellular differentiation by regulating the expression of key developmental genes in concert with different coregulatory proteins. This process is impaired in different cancer… read more here.
Keywords: novel transcriptional; ddx19a; regulatory cascade; coregulator ... See more keywords
POSTAR2: deciphering the post-transcriptional regulatory logics
Sign Up to like & getrecommendations! Published in 2019 at "Nucleic Acids Research"
DOI: 10.1093/nar/gky830
Abstract: Abstract Post-transcriptional regulation of RNAs is critical to the diverse range of cellular processes. The volume of functional genomic data focusing on post-transcriptional regulation logics continues to grow in recent years. In the current database… read more here.
Keywords: postar2; regulatory logics; post transcriptional; post ... See more keywords