نتایج جستجو برای: actionable tools

تعداد نتایج: 269621  

Journal: :Journal of Software: Evolution and Process 2017

Journal: :Research Ideas and Outcomes 2017

2017
Glen J Weiss Sara A Byron Jessica Aldrich Ashish Sangal Heather Barilla Jeffrey A Kiefer John D Carpten David W Craig Timothy G Whitsett

BACKGROUND Small cell lung cancer (SCLC) that has progressed after first-line therapy is an aggressive disease with few effective therapeutic strategies. In this prospective study, we employed next-generation sequencing (NGS) to identify therapeutically actionable alterations to guide treatment for advanced SCLC patients. METHODS Twelve patients with SCLC were enrolled after failing platinum-...

2017
Natalia Paez Arango Lauren Brusco Kenna R. Mills Shaw Ken Chen Agda Karina Eterovic Vijaykumar Holla Amber Johnson Beate Litzenburger Yekaterina B. Khotskaya Nora Sanchez Ann Bailey Xiaofeng Zheng Chacha Horombe Scott Kopetz Carol J. Farhangfar Mark Routbort Russell Broaddus Elmer V. Bernstam John Mendelsohn Gordon B. Mills Funda Meric-Bernstam

PURPOSE Molecular profiling performed in the research setting usually does not benefit the patients that donate their tissues. Through a prospective protocol, we sought to determine the feasibility and utility of performing broad genomic testing in the research laboratory for discovery, and the utility of giving treating physicians access to research data, with the option of validating actionab...

2017
Julie A. Vendrell David Grand Isabelle Rouquette Valérie Costes Samira Icher Janick Selves Marion Larrieux Aurore Barbe Pierre Brousset Jérôme Solassol

Next-generation sequencing (NGS) has revolutionized the therapeutic care of patients by allowing high-throughput and parallel sequencing of large numbers of genes in a single run. However, most of available commercialized cancer panels target a large number of mutations that do not have direct therapeutic implications and that are not fully adapted to low quality formalin-fixed, paraffin-embedd...

Journal: :Empirical Software Engineering 2021

Static code warning tools often generate warnings that programmers ignore. Such can be made more useful via data mining algorithms select the “actionable” warnings; i.e. are usually not ignored. In this paper, we look for actionable within a sample of 5,675 seen in 31,058 static from FindBugs. We find with remarkable ease. Specifically, range methods (deep learners, random forests, decision tre...

2016
Chan Shen Funda Meric-Bernstam Xiaoping Su John Mendelsohn Sharon Giordano

Interest in genomic testing for the selection of cancer therapy is growing. However, the cost of genomic testing has not been well studied. We sought to determine the price of identifying mutations and copy number alterations (CNAs) in theoretically actionable genes across multiple tumor types. We reviewed data from The Cancer Genome Atlas to determine the frequency of alterations in nine tumor...

2016
Maria Schwaederle Hatim Husain Paul T. Fanta David E. Piccioni Santosh Kesari Richard B. Schwab Kimberly C. Banks Richard B. Lanman AmirAli Talasaz Barbara A. Parker Razelle Kurzrock

Analysis of cell-free DNA using next-generation sequencing (NGS) is a powerful tool for the detection/monitoring of alterations present in circulating tumor DNA (ctDNA). Plasma extracted from 171 patients with a variety of cancers was analyzed for ctDNA (54 genes and copy number variants (CNVs) in three genes (EGFR, ERBB2 and MET)). The most represented cancers were lung (23%), breast (23%), an...

Journal: :Clinical chemistry 2015
Hongdo Do Alexander Dobrovic

BACKGROUND Precision medicine is dependent on identifying actionable mutations in tumors. Accurate detection of mutations is often problematic in formalin-fixed paraffin-embedded (FFPE) tissues. DNA extracted from formalin-fixed tissues is fragmented and also contains DNA lesions that are the sources of sequence artifacts. Sequence artifacts can be difficult to distinguish from true mutations, ...

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