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762 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 ...


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. ...


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 ...


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 ...


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 ...


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 ...


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 ...


A genome-wide association study identifies susceptibility loci of silica-related pneumoconiosis in Han Chinese

01.12.2014 | Minjie Chu; Xiaoming Ji; Weihong Chen; Ruyang Zhang; Chongqi Sun; Ting Wang; Chen Luo; Jianhang Gong; Meng Zhu; Jing ..., Human Molecular Genetics, 2014

Pneumoconiosis is the most serious occupational disease in China and its leading cause is occupational silica exposure. Pneumoconiosis takes several years to develop depending on the exposure level of silica. However, individual variation in the susceptibility to pneumoconiosis has been observed ...


A human mitochondrial poly(A) polymerase mutation reveals the complexities of post-transcriptional mitochondrial gene expression

01.12.2014 | William C. Wilson; Hue-Tran Hornig-Do; Francesco Bruni; Jeong Ho Chang; Alexis A. Jourdain; Jean-Claude Martinou; Ma ..., Human Molecular Genetics, 2014

The p.N478D missense mutation in human mitochondrial poly(A) polymerase (mtPAP) has previously been implicated in a form of spastic ataxia with optic atrophy. In this study, we have investigated fibroblast cell lines established from family members. The homozygous mutation resulted in the loss of ...


Detection Theory in Identification of RNA-DNA Sequence Differences Using RNA-Sequencing

14.11.2014 | Jonathan M. Toung et al., PLoS ONE, 2014

by Jonathan M. Toung, Nicholas Lahens, John B. Hogenesch, Gregory Grant Advances in sequencing technology have allowed for detailed analyses of the transcriptome at single-nucleotide resolution, facilitating the study of RNA editing or sequence differences between RNA and DNA genome-wide. In ...


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