Cargando…

The Vacc-SeqQC project: Benchmarking RNA-Seq for clinical vaccine studies

INTRODUCTION: Over the last decade, the field of systems vaccinology has emerged, in which high throughput transcriptomics and other omics assays are used to probe changes of the innate and adaptive immune system in response to vaccination. The goal of this study was to benchmark key technical and a...

Descripción completa

Detalles Bibliográficos
Autores principales:	Goll, Johannes B., Bosinger, Steven E., Jensen, Travis L., Walum, Hasse, Grimes, Tyler, Tharp, Gregory K., Natrajan, Muktha S., Blazevic, Azra, Head, Richard D., Gelber, Casey E., Steenbergen, Kristen J., Patel, Nirav B., Sanz, Patrick, Rouphael, Nadine G., Anderson, Evan J., Mulligan, Mark J., Hoft, Daniel F.
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Frontiers Media S.A. 2023
Materias:	Immunology
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9893923/ https://www.ncbi.nlm.nih.gov/pubmed/36741404 http://dx.doi.org/10.3389/fimmu.2022.1093242

Ejemplares similares

Corrigendum: The Vacc-SeqQC project: Benchmarking RNA-Seq for clinical vaccine studies
por: Goll, Johannes B., et al.
Publicado: (2023)

Transcriptomic and Metabolic Responses to a Live-Attenuated Francisella tularensis Vaccine
por: Goll, Johannes B., et al.
Publicado: (2020)

Quality control of single-cell RNA-seq by SinQC
por: Jiang, Peng, et al.
Publicado: (2016)

Alterations in the Human Plasma Lipidome in Response to Tularemia Vaccination
por: Maner-Smith, Kristal M., et al.
Publicado: (2020)

Proteomic Analysis of Human Immune Responses to Live-Attenuated Tularemia Vaccine
por: Chang, Yie-Hwa, et al.
Publicado: (2020)

RNA-SeQC: RNA-seq metrics for quality control and process optimization
por: DeLuca, David S., et al.
Publicado: (2012)

RNA-QC-chain: comprehensive and fast quality control for RNA-Seq data
por: Zhou, Qian, et al.
Publicado: (2018)

scRNABatchQC: multi-samples quality control for single cell RNA-seq data
por: Liu, Qi, et al.
Publicado: (2019)

mirnaQC: a webserver for comparative quality control of miRNA-seq data
por: Aparicio-Puerta, Ernesto, et al.
Publicado: (2020)

iSeqQC: a tool for expression-based quality control in RNA sequencing
por: Kumar, Gaurav, et al.
Publicado: (2020)

ATACseqQC: a Bioconductor package for post-alignment quality assessment of ATAC-seq data
por: Ou, Jianhong, et al.
Publicado: (2018)

DropletQC: improved identification of empty droplets and damaged cells in single-cell RNA-seq data
por: Muskovic, Walter, et al.
Publicado: (2021)

2739. Comparison of Hemagglutination Antibody Inhibition (HAI) Titers Following Influenza Vaccination by Birth Cohort and Repeated Influenza Vaccination History
por: Sherman, Amy C, et al.
Publicado: (2019)

Pericarditis Associated With Acute Zika Virus Infection in a Returning Traveler
por: Waggoner, Jesse J., et al.
Publicado: (2017)

BALDR: a computational pipeline for paired heavy and light chain immunoglobulin reconstruction in single-cell RNA-seq data
por: Upadhyay, Amit A., et al.
Publicado: (2018)

VaccImm: simulating peptide vaccination in cancer therapy
por: von Eichborn, Joachim, et al.
Publicado: (2013)

The Effects of Imprinting and Repeated Seasonal Influenza Vaccination on Adaptive Immunity after Influenza Vaccination
por: Sherman, Amy C., et al.
Publicado: (2020)

Pre-Existing Dengue Immunity Drives a DENV-Biased Plasmablast Response in ZIKV-Infected Patient
por: Bhaumik, Siddhartha K., et al.
Publicado: (2018)

Blockade Antibody Responses in Human Subjects Challenged with a New Snow Mountain Virus Inoculum
por: Ibaraki, Makoto, et al.
Publicado: (2023)

SeqAcademy: an educational pipeline for RNA-Seq and ChIP-Seq analysis
por: Ather, Syed Hussain, et al.
Publicado: (2020)

RSEQREP: RNA-Seq Reports, an open-source cloud-enabled framework for reproducible RNA-Seq data processing, analysis, and result reporting
por: Jensen, Travis L., et al.
Publicado: (2018)

2492. Clinical, Virologic, and Immunologic Characteristics of Zika Virus Infection in a Cohort of US Patients
por: Sahly, Hana M El, et al.
Publicado: (2018)

Systems Vaccinology for a Live Attenuated Tularemia Vaccine Reveals Unique Transcriptional Signatures That Predict Humoral and Cellular Immune Responses
por: Natrajan, Muktha S., et al.
Publicado: (2019)

Impact of BCG vaccination on the repertoire of human γδ T cell receptors
por: Xia, Mei, et al.
Publicado: (2023)

The Vaccination Concerns in COVID-19 Scale (VaCCS): Development and validation
por: Hamilton, Kyra, et al.
Publicado: (2022)

Decentralized Open Platform for Vaccination—A German Example: COVID-19-Vacc
por: Radonjic-Simic, Mirjana, et al.
Publicado: (2021)

Joint single cell DNA-seq and RNA-seq of gastric cancer cell lines reveals rules of in vitro evolution
por: Andor, Noemi, et al.
Publicado: (2020)

Clinical, Virologic, and Immunologic Characteristics of Zika Virus Infection in a Cohort of US Patients: Prolonged RNA Detection in Whole Blood
por: El Sahly, Hana M, et al.
Publicado: (2018)

SeqOthello: querying RNA-seq experiments at scale
por: Yu, Ye, et al.
Publicado: (2018)

Application of Seq2Seq Models on Code Correction
por: Huang, Shan, et al.
Publicado: (2021)

ScRNA-seq and ST-seq in liver research
por: He, Jia, et al.
Publicado: (2023)

Countably QC-Approximating Posets
por: Mao, Xuxin, et al.
Publicado: (2014)

Development of Immune-Specific Interaction Potentials and Their Application in the Multi-Agent-System VaccImm
por: Woelke, Anna Lena, et al.
Publicado: (2011)

Investigation of the effects of phthalates on in vitro thyroid models with RNA-Seq and ATAC-Seq
por: Nazzari, Marta, et al.
Publicado: (2023)

ARH-seq: identification of differential splicing in RNA-seq data
por: Rasche, Axel, et al.
Publicado: (2014)

CEL-Seq2: sensitive highly-multiplexed single-cell RNA-Seq
por: Hashimshony, Tamar, et al.
Publicado: (2016)

Improved annotation of the domestic pig genome through integration of Iso-Seq and RNA-seq data
por: Beiki, H., et al.
Publicado: (2019)

QC-LDPC code-based cryptography
por: Baldi, Marco
Publicado: (2014)

ATLAS MICROMEGAS PCB QA/QC
por: Wang, Zihan
Publicado: (2019)

Extensive Variation in Gene Expression is Revealed in 13 Fertility-Related Genes Using RNA-Seq, ISO-Seq, and CAGE-Seq From Brahman Cattle
por: Ross, Elizabeth M., et al.
Publicado: (2022)

Cannot write session to /tmp/vufind_sessions/sess_ksap919v801js2qg2qpvrhf70g