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Open AccessJournal ArticleDOI

Functional Diversification of SRSF Protein Kinase to Control Ubiquitin-Dependent Neurodevelopmental Signaling

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TLDR
Surprisingly, it is shown that SRPK has acquired the capacity to control a neurodevelopmental ubiquitin signaling pathway, and unappreciated functional diversification of SRPK is revealed to regulate ubiquit in signaling that ensures correct regulation of neuro developmental gene expression.
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This article is published in Developmental Cell.The article was published on 2020-12-07 and is currently open access. It has received 27 citations till now. The article focuses on the topics: Ubiquitin ligase & Ubiquitin.

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Noncanonical functions of the serine-arginine-rich splicing factor (SR) family of proteins in development and disease.

TL;DR: The serine/arginine (SR)-rich protein family of splicing factors play versatile roles in RNA processing steps and are often essential for normal development as discussed by the authors, however, their misregulation contributes to human diseases such as cancer.
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Oncogenic dysregulation of pre-mRNA processing by protein kinases: challenges and therapeutic opportunities.

TL;DR: In this paper, the authors describe key findings that have been reported on these topics and discuss challenges and opportunities of developing therapeutic approaches targeting splicing factor kinases, and discuss the potential of using these kinases for drug development.
Journal Article

SRPK2 Phosphorylates Tau and Mediates the Cognitive Defects in Alzheimer's Disease

TL;DR: Zhang et al. as mentioned in this paper showed that SRPK2 phosphorylates tau on S214, suppresses tau-dependent microtubule polymerization, and inhibits axonal elongation in neurons.
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Good Cop, Bad Cop: The Different Roles of SRPKs

TL;DR: Specific cell states coupled to kinase levels, spatial specific interactions with substrates but also changes in the extent of phosphorylation that allow SR PKs to exhibit a rheostat-like control on their substrates could decide the proliferative or antiproliferative role of SRPKs.
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RNF12 is regulated by AKT phosphorylation and promotes TGF-β driven breast cancer metastasis

TL;DR: In this paper , RNF12 was found to be an important determinant in the crosstalk between the TGF-β and AKT signaling pathways during breast cancer progression.
References
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Journal ArticleDOI

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

TL;DR: This work presents DESeq2, a method for differential analysis of count data, using shrinkage estimation for dispersions and fold changes to improve stability and interpretability of estimates, which enables a more quantitative analysis focused on the strength rather than the mere presence of differential expression.
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STAR: ultrafast universal RNA-seq aligner

TL;DR: The Spliced Transcripts Alignment to a Reference (STAR) software based on a previously undescribed RNA-seq alignment algorithm that uses sequential maximum mappable seed search in uncompressed suffix arrays followed by seed clustering and stitching procedure outperforms other aligners by a factor of >50 in mapping speed.
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HTSeq—a Python framework to work with high-throughput sequencing data

TL;DR: This work presents HTSeq, a Python library to facilitate the rapid development of custom scripts for high-throughput sequencing data analysis, and presents htseq-count, a tool developed with HTSequ that preprocesses RNA-Seq data for differential expression analysis by counting the overlap of reads with genes.
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Activation of MAP kinase kinase is necessary and sufficient for PC12 differentiation and for transformation of NIH 3T3 cells

TL;DR: Results show that, depending on cellular context, activation of MAP kinase kinase is necessary and sufficient for cell differentiation or proliferation.
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Using GOstats to test gene lists for GO term association

TL;DR: The capabilities of GOstats, a Bioconductor package written in R, that allows users to test GO terms for over or under-representation using either a classical hypergeometric test or a conditionalhypergeometric that uses the relationships among GO terms to decorrelate the results are discussed.
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