Biochimica et Biophysica Acta (BBA) Gene Regulatory Mechanisms This is an RSS file. You can use it to subscribe to this data in your favourite RSS reader or to display this data on your own website or blog.

Editorial Board
Publication date: November–December 2019Source: Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms, Volume 1862, Issues 11–12Author(s): (Source: Biochimica et Biophysica Acta (BBA) Gene Regulatory Mechanisms)
Source: Biochimica et Biophysica Acta (BBA) Gene Regulatory Mechanisms - November 21, 2019 Category: Genetics & Stem Cells Source Type: research

Data generation and network reconstruction strategies for single cell transcriptomic profiles of CRISPR-mediated gene perturbations
This article is part of a Special Issue entitled: Transcriptional Profiles and Regulatory Gene Networks edited by Dr. Dr. Federico Manuel Giorgi and Dr. Shaun Mahony. (Source: Biochimica et Biophysica Acta (BBA) Gene Regulatory Mechanisms)
Source: Biochimica et Biophysica Acta (BBA) Gene Regulatory Mechanisms - November 20, 2019 Category: Genetics & Stem Cells Source Type: research

Regulation of mTOR signaling by long non-coding RNA
Publication date: Available online 18 November 2019Source: Biochimica et Biophysica Acta (BBA) - Gene Regulatory MechanismsAuthor(s): Karam AboudehenAbstractThe mechanistic target of rapamycin (mTOR) is a major signaling hub that coordinates cellular and organismal responses, such as cell growth, proliferation, apoptosis, and metabolism. Dysregulation of mTOR signaling occurs in many human diseases, and there are significant ongoing efforts to pharmacologically target this pathway. Long noncoding RNAs (lncRNA), defined by a length > 200 nucleotides and absence of a long open-reading-frame, are a class of non-protein-co...
Source: Biochimica et Biophysica Acta (BBA) Gene Regulatory Mechanisms - November 19, 2019 Category: Genetics & Stem Cells Source Type: research

RNA structure and splicing regulation
Publication date: Available online 12 November 2019Source: Biochimica et Biophysica Acta (BBA) - Gene Regulatory MechanismsAuthor(s): Francisco E. Baralle, Ravindra N. Singh, Stefan Stamm (Source: Biochimica et Biophysica Acta (BBA) Gene Regulatory Mechanisms)
Source: Biochimica et Biophysica Acta (BBA) Gene Regulatory Mechanisms - November 13, 2019 Category: Genetics & Stem Cells Source Type: research

Editorial Board
Publication date: October 2019Source: Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms, Volume 1862, Issue 10Author(s): (Source: Biochimica et Biophysica Acta (BBA) Gene Regulatory Mechanisms)
Source: Biochimica et Biophysica Acta (BBA) Gene Regulatory Mechanisms - November 13, 2019 Category: Genetics & Stem Cells Source Type: research

Alternatively spliced MBNL1 isoforms exhibit differential influence on enhancing brown adipogenesis
In this study, we first identified the discriminative expression and splicing profiles of the muscleblind-like 1 (MBNL1) gene in postnatal brown adipose tissues (BATs) compared to those of embryonic BATs. A shift in the MBNL1+ex 5 isoform 7 (MBNL17) to MBNL1−ex 5 isoform 1 (MBNL11) was characterized throughout BAT development or during the in vitro browning of pre-WAs, 3T3-L1 cells. The interplay between MBNL1 and the exonic CCUG motif constitutes an autoregulatory mechanism for excluding MBNL1 exon 5. The simultaneous association of RNA-binding motif protein 4a (RBM4a) with exonic and intronic CU elements collaborativel...
Source: Biochimica et Biophysica Acta (BBA) Gene Regulatory Mechanisms - November 13, 2019 Category: Genetics & Stem Cells Source Type: research

Transfer of regulatory knowledge from human to mouse for functional genomics analysis
Publication date: Available online 13 September 2019Source: Biochimica et Biophysica Acta (BBA) - Gene Regulatory MechanismsAuthor(s): Christian H. Holland, Bence Szalai, Julio Saez-RodriguezAbstractTranscriptome profiling followed by differential gene expression analysis often leads to lists of genes that are hard to analyze and interpret. Functional genomics tools are powerful approaches for downstream analysis, as they summarize the large and noisy gene expression space into a smaller number of biological meaningful features. In particular, methods that estimate the activity of processes by mapping transcripts level to ...
Source: Biochimica et Biophysica Acta (BBA) Gene Regulatory Mechanisms - November 10, 2019 Category: Genetics & Stem Cells Source Type: research

CircINHA resists granulosa cell apoptosis by upregulating CTGF as a ceRNA of miR-10a-5p in pig ovarian follicles
Publication date: October 2019Source: Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms, Volume 1862, Issue 10Author(s): Tianya Guo, Jinbi Zhang, Wang Yao, Xing Du, QiQi Li, Long Huang, Menglan Ma, Qifa Li, Honglin Liu, Zengxiang PanAbstractMammalian ovarian follicular atresia is a complex and fine-regulated biological process with active involvement of connective tissue growth factor (CTGF). The emergence of studies of endogenous non-coding RNAs has raised a new aspect for exploration of the regulatory mechanisms involved in follicular atresia. Here, we aimed to illustrate a circRNA involved in the CTGF reg...
Source: Biochimica et Biophysica Acta (BBA) Gene Regulatory Mechanisms - November 10, 2019 Category: Genetics & Stem Cells Source Type: research

Structures of SF3b1 reveal a dynamic Achilles heel of spliceosome assembly: Implications for cancer-associated abnormalities and drug discovery
Publication date: Available online 9 November 2019Source: Biochimica et Biophysica Acta (BBA) - Gene Regulatory MechanismsAuthor(s): Debanjana Maji, Alan M. Grossfield, Clara L. KielkopfAbstractThe pre-mRNA splicing factor SF3b1 exhibits recurrent mutations among hematologic malignancies and cancers, and consequently is a major therapeutic target of clinically-advanced spliceosome inhibitors. In this review, we highlight and rigorously analyze emerging views of SF3b1 conformational transitions, including the human SF3b particle either in isolation or bound to spliceosome inhibitors, and human or yeast spliceosome assemblie...
Source: Biochimica et Biophysica Acta (BBA) Gene Regulatory Mechanisms - November 10, 2019 Category: Genetics & Stem Cells Source Type: research

Small Drosophila zinc finger C2H2 protein with an N-terminal zinc finger-associated domain demonstrates the architecture functions
Publication date: Available online 6 November 2019Source: Biochimica et Biophysica Acta (BBA) - Gene Regulatory MechanismsAuthor(s): Oksana Maksimenko, Olga Kyrchanova, Natalia Klimenko, Nikolay Zolotarev, Anna Elizarova, Artem Bonchuk, Pavel GeorgievAbstractRecently, the concept has arisen that a special class of architectural proteins exists, which are responsible not only for global chromosome architecture but also for the local regulation of enhancer–promoter interactions. Here, we describe a new architectural protein, with a total size of only 375 aa, which contains an N-terminal zinc finger-associated domain (ZAD) ...
Source: Biochimica et Biophysica Acta (BBA) Gene Regulatory Mechanisms - November 7, 2019 Category: Genetics & Stem Cells Source Type: research

Splicing in the pathogenesis, diagnosis and treatment of ciliopathies
This article is part of a Special Issue entitled: RNA structure and splicing regulation edited by Francisco Baralle, Ravindra Singh and Stefan Stamm. (Source: Biochimica et Biophysica Acta (BBA) Gene Regulatory Mechanisms)
Source: Biochimica et Biophysica Acta (BBA) Gene Regulatory Mechanisms - November 6, 2019 Category: Genetics & Stem Cells Source Type: research

Inference of plant gene regulatory networks using data-driven methods: A practical overview
Publication date: Available online 31 October 2019Source: Biochimica et Biophysica Acta (BBA) - Gene Regulatory MechanismsAuthor(s): Shubhada R. Kulkarni, Klaas VandepoeleAbstractTranscriptional regulation is a complex and dynamic process that plays a vital role in plant growth and development. A key component in the regulation of genes is transcription factors (TFs), which coordinate the transcriptional control of gene activity. A gene regulatory network (GRN) is a collection of regulatory interactions between TFs and their target genes. The accurate delineation of GRNs offers a significant contribution to our understandi...
Source: Biochimica et Biophysica Acta (BBA) Gene Regulatory Mechanisms - November 1, 2019 Category: Genetics & Stem Cells Source Type: research

Differential chamber-specific expression and regulation of long non-coding RNAs during cardiac development
In this study, we investigated the differential expression profile during cardiogenesis of previously reported lncRNAs in heart development. Our data revealed that Braveheart, Fendrr, Carmen display a preferential adult expression while Miat, Alien, H19 preferentially display chamber-specific expression at embryonic stages. We also demonstrated that these lncRNAs are differentially regulated by Nkx2.5, Srf and Mef2c, Pitx2 > Wnt > miRNA signaling pathway and angiotensin II and thyroid hormone administration. Importantly isoform-specific expression and distinct nuclear vs cytoplasmic localization of Braveheart, Carm...
Source: Biochimica et Biophysica Acta (BBA) Gene Regulatory Mechanisms - November 1, 2019 Category: Genetics & Stem Cells Source Type: research

Intronic RNA: Ad‘junk’ mediator of post-transcriptional gene regulation
This article is part of a Special Issue entitled: RNA structure and splicing regulation edited by Francisco Baralle, Ravindra Singh and Stefan Stamm. (Source: Biochimica et Biophysica Acta (BBA) Gene Regulatory Mechanisms)
Source: Biochimica et Biophysica Acta (BBA) Gene Regulatory Mechanisms - November 1, 2019 Category: Genetics & Stem Cells Source Type: research

Oxoglutarate dehydrogenase and acetyl-CoA acyltransferase 2 selectively associate with H2A.Z-occupied promoters and are required for histone modifications
Publication date: Available online 1 November 2019Source: Biochimica et Biophysica Acta (BBA) - Gene Regulatory MechanismsAuthor(s): Sujung Choi, Jessica Pfleger, Yong Heui Jeon, Zhi Yang, Minzhen He, Hyewon Shin, Danish Sayed, Sophie Astrof, Maha AbdellatifAbstractHistone H2A.Z plays an essential role in regulating transcriptional rates and memory. Interestingly, H2A.Z-bound nucleosomes are located in both transcriptionally active and inactive promotors, with no clear understanding of the mechanisms via which it differentially regulates transcription. We hypothesized that its functions are mediated through recruitment of ...
Source: Biochimica et Biophysica Acta (BBA) Gene Regulatory Mechanisms - November 1, 2019 Category: Genetics & Stem Cells Source Type: research