Rapid identification of causal mutations in tomato EMS populations via mapping-by-sequencing

2016 ◽  
Vol 11 (12) ◽  
pp. 2401-2418 ◽  
Author(s):  
Virginie Garcia ◽  
Cécile Bres ◽  
Daniel Just ◽  
Lucie Fernandez ◽  
Fabienne Wong Jun Tai ◽  
...  
Keyword(s):  
Rapid Identification ◽  
Mapping By Sequencing

scholarly journals Easymap: A User-Friendly Software Package for Rapid Mapping-by-Sequencing of Point Mutations and Large Insertions

2021 ◽  
Vol 12 ◽  
Author(s):  
Samuel Daniel Lup ◽  
David Wilson-Sánchez ◽  
Sergio Andreu-Sánchez ◽  
José Luis Micol
Keyword(s):  
Point Mutations ◽  
Rapid Identification ◽  
Graphical Interface ◽  
Rna Seq ◽  
Source Program ◽  
Next Generation Sequencing Ngs ◽  
User Friendly ◽  
Ngs Data ◽  
Mapping By Sequencing ◽  
Generation Sequencing

Mapping-by-sequencing strategies combine next-generation sequencing (NGS) with classical linkage analysis, allowing rapid identification of the causal mutations of the phenotypes exhibited by mutants isolated in a genetic screen. Computer programs that analyze NGS data obtained from a mapping population of individuals derived from a mutant of interest to identify a causal mutation are available; however, the installation and usage of such programs requires bioinformatic skills, modifying or combining pieces of existing software, or purchasing licenses. To ease this process, we developed Easymap, an open-source program that simplifies the data analysis workflows from raw NGS reads to candidate mutations. Easymap can perform bulked segregant mapping of point mutations induced by ethyl methanesulfonate (EMS) with DNA-seq or RNA-seq datasets, as well as tagged-sequence mapping for large insertions, such as transposons or T-DNAs. The mapping analyses implemented in Easymap have been validated with experimental and simulated datasets from different plant and animal model species. Easymap was designed to be accessible to all users regardless of their bioinformatics skills by implementing a user-friendly graphical interface, a simple universal installation script, and detailed mapping reports, including informative images and complementary data for assessment of the mapping results. Easymap is available at http://genetics.edu.umh.es/resources/easymap; its Quickstart Installation Guide details the recommended procedure for installation.

scholarly journals Easymap: a user-friendly software package for rapid mapping by sequencing of point mutations and large insertions

2021 ◽  
Author(s):  
Samuel Daniel Lup ◽  
David Wilson-Sánchez ◽  
Sergio Andreu-Sánchez ◽  
José Luis Micol
Keyword(s):  
Point Mutations ◽  
Rapid Identification ◽  
Rna Seq ◽  
Source Program ◽  
Ethylmethane Sulfonate ◽  
Next Generation Sequencing Ngs ◽  
User Friendly ◽  
Ngs Data ◽  
Mapping By Sequencing ◽  
Generation Sequencing

Mapping-by-sequencing strategies combine next-generation sequencing (NGS) with classical linkage analysis, allowing rapid identification of the causal mutations of the phenotypes exhibited by mutants isolated in a genetic screen. Computer programs that analyze NGS data obtained from a mapping population of individuals derived from a mutant of interest in order to identify a causal mutation are available; however, the installation and usage of such programs requires bioinformatic skills, modifying or combining pieces of existent software, or purchasing licenses. To ease this process, we developed Easymap, an open-source program that simplifies the data analysis workflows from raw NGS reads to candidate mutations. Easymap can perform bulked segregant mapping of point mutations induced by ethylmethane sulfonate (EMS) with DNA-seq or RNA-seq datasets, as well as tagged-sequence mapping for large insertions, such as transposons or T-DNAs. The mapping analyses implemented in Easymap have been validated with experimental and simulated datasets from different plant and animal model species. Easymap was designed to be accessible to all users regardless of their bioinformatics skills by implementing a user-friendly graphical interface, a simple universal installation script, and detailed mapping reports, including informative images and complementary data for assessment of the mapping results.

Endovascular management of ruptured abdominal aortic aneurysms and acute aortic dissections

VASA ◽  
2019 ◽  
Vol 48 (1) ◽  
pp. 35-46
Author(s):  
Stephen Hofmeister ◽  
Matthew B. Thomas ◽  
Joseph Paulisin ◽  
Nicolas J. Mouawad
Keyword(s):  
Abdominal Aortic Aneurysms ◽  
Rapid Identification ◽  
Aortic Aneurysms ◽  
Endovascular Interventions ◽  
Current State ◽  
Technological Advances ◽  
Abdominal Aortic ◽  
Ruptured Abdominal Aortic Aneurysms ◽  
Vascular Emergencies ◽  
Aortic Dissections

Abstract. The management of vascular emergencies is dependent on rapid identification and confirmation of the diagnosis with concurrent patient stabilization prior to immediate transfer to the operating suite. A variety of technological advances in diagnostic imaging as well as the advent of minimally invasive endovascular interventions have shifted the contemporary treatment algorithms of such pathologies. This review provides a comprehensive discussion on the current state and future trends in the management of ruptured abdominal aortic aneurysms as well as acute aortic dissections.

Rapid identification of mycobacteria by the gen-probe accuprobesystem

Pathology ◽  
1993 ◽  
Vol 25 (3) ◽  
pp. 313-315 ◽  
Author(s):  
Richard Lumb ◽  
Janice A. Lanser ◽  
Irene S. Lim
Keyword(s):  
Rapid Identification
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