scholarly journals Bioinformatic analysis of barcoded cDNA libraries for small RNA profiling by next-generation sequencing

Methods ◽  
2012 ◽  
Vol 58 (2) ◽  
pp. 171-187 ◽  
Author(s):  
Thalia A. Farazi ◽  
Miguel Brown ◽  
Pavel Morozov ◽  
Jelle J. ten Hoeve ◽  
Iddo Z. Ben-Dov ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Small Rna ◽  
Bioinformatic Analysis ◽  
Cdna Libraries ◽  
Next Generation ◽  
Rna Profiling ◽  
Generation Sequencing

scholarly journals Repertoire of microRNAs in Epithelial Ovarian Cancer as Determined by Next Generation Sequencing of Small RNA cDNA Libraries

PLoS ONE ◽  
2009 ◽  
Vol 4 (4) ◽  
pp. e5311 ◽  
Author(s):  
Stacia K. Wyman ◽  
Rachael K. Parkin ◽  
Patrick S. Mitchell ◽  
Brian R. Fritz ◽  
Kathy O'Briant ◽  
...  
Keyword(s):  
Ovarian Cancer ◽  
Next Generation Sequencing ◽  
Epithelial Ovarian Cancer ◽  
Small Rna ◽  
Cdna Libraries ◽  
Next Generation ◽  
Generation Sequencing

scholarly journals Barcoded cDNA library preparation for small RNA profiling by next-generation sequencing

Methods ◽  
2012 ◽  
Vol 58 (2) ◽  
pp. 164-170 ◽  
Author(s):  
Markus Hafner ◽  
Neil Renwick ◽  
Thalia A. Farazi ◽  
Aleksandra Mihailović ◽  
John T.G. Pena ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Cdna Library ◽  
Small Rna ◽  
Library Preparation ◽  
Next Generation ◽  
Rna Profiling ◽  
Generation Sequencing ◽  
Cdna Library Preparation

Next-generation sequencing-based small RNA profiling of cerebrospinal fluid exosomes

2017 ◽  
Vol 636 ◽  
pp. 48-57 ◽  
Author(s):  
Yohsuke Yagi ◽  
Takuya Ohkubo ◽  
Hideya Kawaji ◽  
Akira Machida ◽  
Haruka Miyata ◽  
...  
Keyword(s):  
Cerebrospinal Fluid ◽  
Next Generation Sequencing ◽  
Small Rna ◽  
Next Generation ◽  
Rna Profiling ◽  
Generation Sequencing

scholarly journals Cataloguing the small RNA content of honey using next generation sequencing

2021 ◽  
Vol 2 ◽  
pp. 100014
Author(s):  
Christopher Smith ◽  
Nural Cokcetin ◽  
Thuyen Truong ◽  
Elizabeth Harry ◽  
Gyorgy Hutvagner ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Small Rna ◽  
Next Generation ◽  
Rna Content ◽  
Generation Sequencing

scholarly journals Uncontrolled Diabetes Mellitus Has No Major Influence on the Platelet Transcriptome

2018 ◽  
Vol 2018 ◽  
pp. 1-9 ◽  
Author(s):  
Thomas G. Nührenberg ◽  
Marco Cederqvist ◽  
Federico Marini ◽  
Christian Stratz ◽  
Björn A. Grüning ◽  
...  
Keyword(s):  
Diabetes Mellitus ◽  
Next Generation Sequencing ◽  
Platelet Reactivity ◽  
Platelet Rich Plasma ◽  
Expression Profiles ◽  
Bioinformatic Analysis ◽  
Differentially Expressed ◽  
Major Influence ◽  
Next Generation ◽  
Generation Sequencing

Background. Diabetes mellitus (DM) has been associated with increased platelet reactivity as well as increased levels of platelet RNAs in plasma. Here, we sought to evaluate whether the platelet transcriptome is altered in the presence of uncontrolled DM. Methods. Next-generation sequencing (NGS) was performed on platelet RNA for 5 patients with uncontrolled DM (HbA1c 9.0%) and 5 control patients (HbA1c 5.5%) with otherwise similar clinical characteristics. RNA was isolated from leucocyte-depleted platelet-rich plasma. Libraries of platelet RNAs were created separately for long RNAs after ribosomal depletion and for small RNAs from total RNA, followed by next-generation sequencing. Results. Platelets in both groups demonstrated RNA expression profiles characterized by absence of leukocyte-specific transcripts, high expression of well-known platelet transcripts, and in total 6,343 consistently detectable transcripts. Extensive statistical bioinformatic analysis yielded 12 genes with consistently differential expression at a lenient FDR < 0.1, thereof 8 protein-coding genes and 2 genes with known expression in platelets (MACF1 and ITGB3BP). Three of the four differentially expressed noncoding genes were YRNAs (RNY1, RNY3, and RNY4) which were all downregulated in DM. 23 miRNAs were differentially expressed between the two groups. Of the 13 miRNAs with decreased expression in the diabetic group, 8 belonged to the DLK1–DIO3 gene region on chromosome 14q32.2. Conclusions. In this study, uncontrolled DM had a remote impact on different components of the platelet transcriptome. Increased expression of MACF1, together with supporting predicted mRNA-miRNA interactions as well as reduced expression of RNYs in platelets, may reflect subclinical platelet activation in uncontrolled DM.

scholarly journals Preparing Unbiased T-Cell Receptor and Antibody cDNA Libraries for the Deep Next Generation Sequencing Profiling

2013 ◽  
Vol 4 ◽  
Author(s):  
Ilgar Z. Mamedov ◽  
Olga V. Britanova ◽  
Ivan V. Zvyagin ◽  
Maria A. Turchaninova ◽  
Dmitriy A. Bolotin ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
T Cell ◽  
T Cell Receptor ◽  
Cell Receptor ◽  
Cdna Libraries ◽  
Next Generation ◽  
Generation Sequencing

scholarly journals Small RNA Transcriptomes of Two Types of Exosomes in Human Whole Saliva Determined by Next Generation Sequencing

2013 ◽  
pp. 66-75 ◽  
Author(s):  
Yuko Ogawa ◽  
Yoshitaka Taketomi ◽  
Makoto Murakami ◽  
Masafumi Tsujimoto ◽  
Ryohei Yanoshita
Keyword(s):  
Next Generation Sequencing ◽  
Small Rna ◽  
Next Generation ◽  
Whole Saliva ◽  
Generation Sequencing
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