Optimizing the Illumina COVIDSeq laboratorial and bioinformatics pipeline on thousands of samples for SARS-CoV-2 Variants of Concern tracking.

Donzelli, Sara; Ciuffreda, Ludovica; Pontone, Martina; Betti, Martina; Massacci, Alice; Mottini, Carla; De Nicola, Francesca; Orlandi, Giulia; Goeman, Frauke; Giuliani, Eugenia; Sperandio, Eleonora; Piaggio, Giulia; Morrone, Aldo; Ciliberto, Gennaro; Fanciulli, Maurizio; Blandino, Giovanni; Pimpinelli, Fulvia; Pallocca, Matteo

Donzelli, Sara; Ciuffreda, Ludovica; Pontone, Martina; Betti, Martina; Massacci, Alice; Mottini, Carla; De Nicola, Francesca; Orlandi, Giulia; Goeman, Frauke; Giuliani, Eugenia; Sperandio, Eleonora; Piaggio, Giulia; Morrone, Aldo; Ciliberto, Gennaro; Fanciulli, Maurizio; Blandino, Giovanni; Pimpinelli, Fulvia; Pallocca, Matteo.

Afiliação

Donzelli S; Oncogenomics and Epigenetics, IRCCS Regina Elena National Cancer Institute, Rome, Italy.
Ciuffreda L; SAFU Unit, IRCCS Regina Elena National Cancer Institute, Rome, Italy.
Pontone M; Microbiology and Virology Unit, IRCCS San Gallicano Dermatological Institute, Rome, Italy.
Betti M; Biostatistics, Bioinformatics and Clinical Trial Center, IRCCS Regina Elena National Cancer Institute, Rome, Italy.
Massacci A; Biostatistics, Bioinformatics and Clinical Trial Center, IRCCS Regina Elena National Cancer Institute, Rome, Italy.
Mottini C; SAFU Unit, IRCCS Regina Elena National Cancer Institute, Rome, Italy.
De Nicola F; SAFU Unit, IRCCS Regina Elena National Cancer Institute, Rome, Italy.
Orlandi G; Scientific Direction, IRCCS San Gallicano Dermatological Institute, Rome, Italy.
Goeman F; SAFU Unit, IRCCS Regina Elena National Cancer Institute, Rome, Italy.
Giuliani E; Scientific Direction, IRCCS San Gallicano Dermatological Institute, Rome, Italy.
Sperandio E; Biostatistics, Bioinformatics and Clinical Trial Center, IRCCS Regina Elena National Cancer Institute, Rome, Italy.
Piaggio G; SAFU Unit, IRCCS Regina Elena National Cancer Institute, Rome, Italy.
Morrone A; Scientific Direction, IRCCS San Gallicano Dermatological Institute, Rome, Italy.
Ciliberto G; Scientific Direction, IRCCS Regina Elena National Cancer Institute, Rome, Italy.
Fanciulli M; SAFU Unit, IRCCS Regina Elena National Cancer Institute, Rome, Italy.
Blandino G; Oncogenomics and Epigenetics, IRCCS Regina Elena National Cancer Institute, Rome, Italy.
Pimpinelli F; Microbiology and Virology Unit, IRCCS San Gallicano Dermatological Institute, Rome, Italy.
Pallocca M; Biostatistics, Bioinformatics and Clinical Trial Center, IRCCS Regina Elena National Cancer Institute, Rome, Italy.

Comput Struct Biotechnol J ; 20: 2558-2563, 2022.

Article em En | MEDLINE | ID: mdl-35611117

Palavras-chave

BAM, Binary Alignment Map; BED, Browser Extensible Data; Bioinformatics workflow; COVID mutations; FDA, Food and Drug Administration; HPC, High Performance Computing; Illumina COVID-seq; LIMS, Laboratory Information Management System; NGS, Next Generation Sequencing; Oncology; Oncology Metagenomics; RBD, Receptor-Binding Domain; SARS-CoV-2 Variants of Concern; SARS-CoV-2 genome; SARS-CoV-2 mutation; SARS-CoV-2, Severe Acute Respiratory Syndrome Coronavirus; TAT, Turnaround Time; VoC, Variants of Concern

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Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Idioma: En Ano de publicação: 2022 Tipo de documento: Article

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Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Idioma: En Ano de publicação: 2022 Tipo de documento: Article