Comprehensive detection of RNA targets that bind to chemical compounds using next-generation sequencing and data-driven method

2020 ◽  
Author(s):  
Yasubumi Sakakibara
Keyword(s):  
Next Generation Sequencing ◽  
Chemical Compounds ◽  
Data Driven ◽  
Next Generation ◽  
Rna Targets ◽  
Generation Sequencing

scholarly journals Statistical guidelines for quality control of next-generation sequencing techniques

2021 ◽  
Vol 4 (11) ◽  
pp. e202101113
Author(s):  
Maximilian Sprang ◽  
Matteo Krüger ◽  
Miguel A Andrade-Navarro ◽  
Jean-Fred Fontaine
Keyword(s):  
Quality Control ◽  
Next Generation Sequencing ◽  
Genome Mapping ◽  
Data Driven ◽  
Next Generation ◽  
Experimental Conditions ◽  
Ngs Data ◽  
Generation Sequencing ◽  
Quality Features

More and more next-generation sequencing (NGS) data are made available every day. However, the quality of this data is not always guaranteed. Available quality control tools require profound knowledge to correctly interpret the multiplicity of quality features. Moreover, it is usually difficult to know if quality features are relevant in all experimental conditions. Therefore, the NGS community would highly benefit from condition-specific data-driven guidelines derived from many publicly available experiments, which reflect routinely generated NGS data. In this work, we have characterized well-known quality guidelines and related features in big datasets and concluded that they are too limited for assessing the quality of a given NGS file accurately. Therefore, we present new data-driven guidelines derived from the statistical analysis of many public datasets using quality features calculated by common bioinformatics tools. Thanks to this approach, we confirm the high relevance of genome mapping statistics to assess the quality of the data, and we demonstrate the limited scope of some quality features that are not relevant in all conditions. Our guidelines are available at https://cbdm.uni-mainz.de/ngs-guidelines.

Next-Generation Sequencing

2012 ◽  
Vol 42 (9) ◽  
pp. 8
Author(s):  
PETER HULICK
Keyword(s):  
Next Generation Sequencing ◽  
Next Generation ◽  
Generation Sequencing

Labordiagnostik bei gastrointestinalen Tumoren

2020 ◽  
Vol 11 (05) ◽  
pp. 232-238
Author(s):  
Marcus Kleber
Keyword(s):  
Next Generation Sequencing ◽  
Kolorektales Karzinom ◽  
Next Generation ◽  
Generation Sequencing

ZUSAMMENFASSUNGDas kolorektale Karzinom (KRK) ist einer der häufigsten malignen Tumoren in Deutschland. Einer frühzeitigen Diagnostik kommt große Bedeutung zu. Goldstandard ist hier die Koloskopie. Die aktuelle S3-Leitlinie Kolorektales Karzinom empfiehlt zum KRK-Screening den fäkalen okkulten Bluttest. Für das Monitoring von Patienten vor und nach Tumorresektion werden die Messung des Carcinoembryonalen Antigens (CEA) und der Mikrosatellitenstabilität empfohlen. Für die Auswahl der korrekten Chemotherapie scheint derzeit eine Überprüfung des Mutationsstatus, mindestens des KRAS-Gens und des BRAF-Gens, sinnvoll zu sein. Eine Reihe an neuartigen Tumormarkern befindet sich momentan in der Entwicklung, hat jedoch noch nicht die Reife für eine mögliche Anwendung in der Routinediagnostik erreicht. Den schnellsten Weg in die breite Anwendung können Next-Generation-Sequencing-basierte genetische Tests finden.

Darstellung einer verminderten T-Zellrezeptorvariabilität bei refraktärer Zöliakie Typ II mittels Next Generation Sequencing

2014 ◽  
Vol 52 (08) ◽  
Author(s):  
M Schumann ◽  
J Ritter ◽  
K Zimmermann ◽  
JD Schulzke ◽  
B Siegmund ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Next Generation ◽  
Generation Sequencing

Next-Generation Sequencing of Sporadic Schwannomas Reveals Critical Importance of NF2 Alteration

2016 ◽  
Vol 77 (S 01) ◽  
Author(s):  
Pankaj Agarwalla ◽  
Wenya Bi ◽  
William Gibson ◽  
Shakti Ramkissoon ◽  
Steven Schumacher ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Next Generation ◽  
Critical Importance ◽  
Generation Sequencing
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