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774 Aktuelle Fachpublikationen zum Thema Addition

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sPARTA: a parallelized pipeline for integrated analysis of plant miRNA and cleaved mRNA data sets, including new miRNA target-identification software

01.02.2015 | Atul Kakrana; Reza Hammond; Parth Patel; Mayumi Nakano; Blake C. Meyers, Nucleic Acids Research, 2015

Parallel analysis of RNA ends (PARE) is a technique utilizing high-throughput sequencing to profile uncapped, mRNA cleavage or decay products on a genome-wide basis. Tools currently available to validate miRNA targets using PARE data employ only annotated genes, whereas important targets may be ...

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Tls1 regulates splicing of shelterin components to control telomeric heterochromatin assembly and telomere length

01.02.2015 | Jiyong Wang; Xavier Tadeo; Haitong Hou; Stuart Andrews; James J. Moresco; John R. Yates III; Peter L. Nagy; Songtao Jia, Nucleic Acids Research, 2015

Heterochromatin preferentially forms at repetitive DNA elements through RNAi-mediated targeting of histone-modifying enzymes. It was proposed that splicing factors interact with the RNAi machinery or regulate the splicing of repeat transcripts to directly participate in heterochromatin assembly. ...

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Absolute and relative quantification of RNA modifications via biosynthetic isotopomers

01.02.2015 | Stefanie Kellner; Antonia Ochel; Kathrin Thüring; Felix Spenkuch; Jennifer Neumann; Sunny Sharma; Karl-Dieter Entian ..., Nucleic Acids Research, 2015

In the resurging field of RNA modifications, quantification is a bottleneck blocking many exciting avenues. With currently over 150 known nucleoside alterations, detection and quantification methods must encompass multiple modifications for a comprehensive profile. LC–MS/MS approaches offer a ...

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Human mediator MED17 subunit plays essential roles in gene regulation by associating with the transcription and DNA repair machineries

08.12.2014 | Yuko Kikuchi, Hiroyasu Umemura, Saori Nishitani, Satoshi Iida, Rikiya Fukasawa, Hiroto Hayashi, Yutaka Hirose, Aki T ..., Genes to Cells, 2014

In eukaryotes, holo‐Mediator consists of four modules: head, middle, tail, and CDK/Cyclin. The head module performs an essential function involved in regulation of RNA polymerase II (Pol II). We studied the human head module subunit MED17 (hMED17). Recent structural studies showed that yeast ...

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SUMOylation by the E3 Ligase TbSIZ1/PIAS1 Positively Regulates VSG Expression in Trypanosoma brucei

04.12.2014 | Diana López-Farfán et al., PLoS Pathogens, 2014

by Diana López-Farfán, Jean-Mathieu Bart, Domingo I. Rojas-Barros, Miguel Navarro Bloodstream form trypanosomes avoid the host immune response by switching the expression of their surface proteins between Variant Surface Glycoproteins (VSG), only one of which is expressed at any given time. ...

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PRL1, an RNA-Binding Protein, Positively Regulates the Accumulation of miRNAs and siRNAs in Arabidopsis

04.12.2014 | Shuxin Zhang et al., PLoS Genetics, 2014

by Shuxin Zhang, Yuhui Liu, Bin Yu The evolutionary conserved WD-40 protein PRL1 plays important roles in immunity and development. Here we show that PRL1 is required for the accumulation of microRNAs (miRNAs) and small interfering RNAs (siRNAs). PRL1 positively influences the processing of ...

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Degradation of DNA damage-independently stalled RNA polymerase II is independent of the E3 ligase Elc1

01.12.2014 | Eleni Karakasili; Cornelia Burkert-Kautzsch; Anja Kieser; Katja Sträßer, Nucleic Acids Research, 2014

Transcription elongation is a highly dynamic and discontinuous process, which includes frequent pausing of RNA polymerase II (RNAPII). RNAPII complexes that stall persistently on a gene during transcription elongation block transcription and thus have to be removed. It has been proposed that the ...

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Why double-stranded RNA resists condensation

01.12.2014 | Igor S. Tolokh; Suzette A. Pabit; Andrea M. Katz; Yujie Chen; Aleksander Drozdetski; Nathan Baker; Lois Pollack; Ale ..., Nucleic Acids Research, 2014

The addition of small amounts of multivalent cations to solutions containing double-stranded DNA leads to inter-DNA attraction and eventual condensation. Surprisingly, the condensation is suppressed in double-stranded RNA, which carries the same negative charge as DNA, but assumes a different ...

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A comprehensive survey of non-canonical splice sites in the human transcriptome

01.12.2014 | Guillermo E. Parada; Roberto Munita; Cledi A. Cerda; Katia Gysling, Nucleic Acids Research, 2014

We uncovered the diversity of non-canonical splice sites at the human transcriptome using deep transcriptome profiling. We mapped a total of 3.7 billion human RNA-seq reads and developed a set of stringent filters to avoid false non-canonical splice site detections. We identified 184 splice sites ...

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Loss of MITF expression during human embryonic stem cell differentiation disrupts retinal pigment epithelium development and optic vesicle cell proliferation

01.12.2014 | Elizabeth E. Capowski; Joseph M. Simonett; Eric M. Clark; Lynda S. Wright; Sara E. Howden; Kyle A. Wallace; Anna M. ..., Human Molecular Genetics, 2014

Microphthalmia-associated transcription factor (MITF) is a master regulator of pigmented cell survival and differentiation with direct transcriptional links to cell cycle, apoptosis and pigmentation. In mouse, Mitf is expressed early and uniformly in optic vesicle (OV) cells as they evaginate ...

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