Highly Sensitive EGFRvIII Detection in Circulating Extracellular Vesicle RNA of Glioma Patients

SM Batool, K Muralidharan, T Hsia, S Falotico… - Clinical Cancer …, 2022 - AACR
Purpose: Liquid biopsy offers an attractive platform for noninvasive tumor diagnosis,
prognostication, and prediction of glioblastoma clinical outcomes. Prior studies report that …

Inconsistent patterns of microbial diversity and composition between highly similar sequencing protocols: a case study with reef-building corals

HE Epstein, A Hernandez-Agreda, S Starko… - Frontiers in …, 2021 - frontiersin.org
16S rRNA gene profiling (amplicon sequencing) is a popular technique for understanding
host-associated and environmental microbial communities. Most protocols for sequencing …

The impact of RNA secondary structure on read start locations on the Illumina sequencing platform

A Price, J Garhyan, C Gibas - PLoS One, 2017 - journals.plos.org
High-throughput sequencing is subject to sequence dependent bias, which must be
accounted for if researchers are to make precise measurements and draw accurate …

Modeling classic attenuation regulation of gene expression in bacteria

VA Lyubetsky, SA Pirogov, LI Rubanov… - … of Bioinformatics and …, 2007 - World Scientific
A model is proposed primarily for the classical RNA attenuation regulation of gene
expression through premature transcription termination. The model is based on the concept …

On the processing of metabolic information through metabolite–gene communication networks: An approach for modelling causality

J Szymanski, M Bielecka, F Carrari, AR Fernie… - Phytochemistry, 2007 - Elsevier
Gene-metabolite correlation networks of three independent biological systems were
interrogated using an approach to define, and subsequently model, causality. The major …

RNAmodel Web Server: Modeling classic attenuation in bacteria

L Rubanov, V Lyubetsky - In silico biology, 2007 - content.iospress.com
RNAmodel web server was recently established at the IITP RAS to implement our previously
proposed model of the classic attenuation regulation of gene expression in bacteria. This …

[PDF][PDF] Statement of translational relevance

SM Batool, K Muralidharan, T Hsia, S Falotico… - academia.edu
Purpose Liquid biopsy offers an attractive platform for non-invasive tumor diagnosis,
prognostication and prediction of glioblastoma clinical outcomes. Prior studies report that 30 …

Attenuation regulation as a term rewriting system

E Asarin, T Cachat, A Seliverstov, T Touili… - … on Algebraic Biology, 2007 - Springer
The classical attenuation regulation of gene expression in bacteria is considered. We
propose to represent the secondary RNA structure in the leader region of a gene or an …

Highly Sensitive EGFRvIII Detection

L Balaj, BS Carter, SM Batool - US Patent App. 18/503,936, 2024 - Google Patents
Provided herein are methods for the detection of EGFRvIII mutation in patient samples, eg, in
tumor tissue, cerebrospinal fluid, and plasma samples, using an optimized ddPCR assay …

[PDF][PDF] Investigating hybridization kinetics of oligos binding to DNA secondary structures

O Zou - 2019 - scholarworks.brandeis.edu
RNAs are molecules that rely on their 3D structure to regulate cell processes, such as
delivering molecules or making proteins. Therefore, disrupting the structure of RNA could …