Cargando…

IVT-seq reveals extreme bias in RNA sequencing

BACKGROUND: RNA-seq is a powerful technique for identifying and quantifying transcription and splicing events, both known and novel. However, given its recent development and the proliferation of library construction methods, understanding the bias it introduces is incomplete but critical to realizi...

Descripción completa

Detalles Bibliográficos
Autores principales:	Lahens, Nicholas F, Kavakli, Ibrahim Halil, Zhang, Ray, Hayer, Katharina, Black, Michael B, Dueck, Hannah, Pizarro, Angel, Kim, Junhyong, Irizarry, Rafael, Thomas, Russell S, Grant, Gregory R, Hogenesch, John B
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	BioMed Central 2014
Materias:	Research
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4197826/ https://www.ncbi.nlm.nih.gov/pubmed/24981968 http://dx.doi.org/10.1186/gb-2014-15-6-r86

Ejemplares similares

Benchmark analysis of algorithms for determining and quantifying full-length mRNA splice forms from RNA-seq data
por: Hayer, Katharina E., et al.
Publicado: (2015)

CircaDB: a database of mammalian circadian gene expression profiles
por: Pizarro, Angel, et al.
Publicado: (2013)

Modeling of RNA-seq fragment sequence bias reduces systematic errors in transcript abundance estimation
por: Love, Michael I., et al.
Publicado: (2016)

Nebulisation of IVT mRNA Complexes for Intrapulmonary Administration
por: Johler, Sarah M., et al.
Publicado: (2015)

Questionnaire for the assessment of adherence barriers of intravitreal therapy: the ABQ-IVT
por: Müller, Sabrina, et al.
Publicado: (2021)

Detection Theory in Identification of RNA-DNA Sequence Differences Using RNA-Sequencing
por: Toung, Jonathan M., et al.
Publicado: (2014)

Variation is function: Are single cell differences functionally important?: Testing the hypothesis that single cell variation is required for aggregate function
por: Dueck, Hannah, et al.
Publicado: (2015)

IVT generation of guideRNAs for Cas9-enrichment Nanopore Sequencing
por: Gilpatrick, Timothy, et al.
Publicado: (2023)

IVT-SAPAS: Low-Input and Rapid Method for Sequencing Alternative Polyadenylation Sites
por: Fu, Yonggui, et al.
Publicado: (2015)

Multicellular, IVT-derived, unmodified human transcriptome for nanopore direct RNA analysis
por: McCormick, Caroline A., et al.
Publicado: (2023)

Advancements of in vitro transcribed mRNA (IVT mRNA) to enable translation into the clinics
por: Kang, Diana D., et al.
Publicado: (2023)

Ribosome profiling reveals an important role for translational control in circadian gene expression
por: Jang, Christopher, et al.
Publicado: (2015)

Accounting for GC-content bias reduces systematic errors and batch effects in ChIP-seq data
por: Teng, Mingxiang, et al.
Publicado: (2017)

An Efficient and Footprint-Free Protocol for the Transdifferentiation of Hepatocytes Into Insulin-Producing Cells With IVT mRNAs
por: Ma, Shinan, et al.
Publicado: (2020)

RT-IVT method allows multiplex real-time quantification of in vitro transcriptional mRNA production
por: Zhang, Fengyu, et al.
Publicado: (2023)

Purification of linearized template plasmid DNA decreases double-stranded RNA formation during IVT reaction
por: Martínez, Juan, et al.
Publicado: (2023)

New Prehospital Triage for Stroke Patients Significantly Reduces Transport Time of EVT Patients Without Delaying IVT
por: Cabal, Martin, et al.
Publicado: (2021)

PIVOT: platform for interactive analysis and visualization of transcriptomics data
por: Zhu, Qin, et al.
Publicado: (2018)

Comparative evaluation of full-length isoform quantification from RNA-Seq
por: Sarantopoulou, Dimitra, et al.
Publicado: (2021)

pEVL: A Linear Plasmid for Generating mRNA IVT Templates With Extended Encoded Poly(A) Sequences
por: Grier, Alexandra E, et al.
Publicado: (2016)

An Innovative PTD-IVT-mRNA Delivery Platform for CAR Immunotherapy of ErbB(+) Solid Tumor Neoplastic Cells
por: Georgiou-Siafis, Sofia K., et al.
Publicado: (2022)

The ThRombolysis in UnconTrolled Hypertension (TRUTH) protocol: an observational study on treatment strategy of elevated blood pressure in stroke patients eligible for IVT
por: Zonneveld, T. P., et al.
Publicado: (2015)

Machine Learning Helps Identify CHRONO as a Circadian Clock Component
por: Anafi, Ron C., et al.
Publicado: (2014)

In Vitro Investigations on Optimizing and Nebulization of IVT-mRNA Formulations for Potential Pulmonary-Based Alpha-1-Antitrypsin Deficiency Treatment †
por: Guan, Shan, et al.
Publicado: (2021)

Assessing the prevalence of mycoplasma contamination in cell culture via a survey of NCBI's RNA-seq archive
por: Olarerin-George, Anthony O., et al.
Publicado: (2015)

Development of a novel PTD-mediated IVT-mRNA delivery platform for potential protein replacement therapy of metabolic/genetic disorders
por: Miliotou, Androulla N., et al.
Publicado: (2021)

BEERS2: RNA-Seq simulation through high fidelity in silico modeling
por: Brooks, Thomas G., et al.
Publicado: (2023)

Model-based compound hypothesis testing for snATAC-seq data with PACS
por: Miao, Zhen, et al.
Publicado: (2023)

A comparison of Illumina and Ion Torrent sequencing platforms in the context of differential gene expression
por: Lahens, Nicholas F., et al.
Publicado: (2017)

RNA splicing analysis using heterogeneous and large RNA-seq datasets
por: Vaquero-Garcia, Jorge, et al.
Publicado: (2023)

Re-evaluation of the stroke prognostication using age and NIH Stroke Scale index (SPAN-100 index) in IVT patients — the-SPAN 100(65) index
por: Möbius, Cornelia, et al.
Publicado: (2018)

CAMPAREE: a robust and configurable RNA expression simulator
por: Lahens, Nicholas F., et al.
Publicado: (2021)

Ribo-seq enlightens codon usage bias
por: Paulet, Damien, et al.
Publicado: (2017)

Statistical evaluation of transcriptomic data generated using the Affymetrix one-cycle, two-cycle and IVT-Express RNA labelling protocols with the Arabidopsis ATH1 microarray
por: Holman, Tara J, et al.
Publicado: (2010)

In Vitro-Transcribed mRNA Chimeric Antigen Receptor T Cell (IVT mRNA CAR T) Therapy in Hematologic and Solid Tumor Management: A Preclinical Update
por: Soundara Rajan, Thangavelu, et al.
Publicado: (2020)

Simulating Illumina metagenomic data with InSilicoSeq
por: Gourlé, Hadrien, et al.
Publicado: (2019)

A new view of transcriptome complexity and regulation through the lens of local splicing variations
por: Vaquero-Garcia, Jorge, et al.
Publicado: (2016)

A Cross-Platform Comparison of Genome-Wide Expression Changes of Laser Microdissected Lung Tissue of C-Raf Transgenic Mice Using 3′IVT and Exon Array
por: Londhe, Kishor Bapu, et al.
Publicado: (2012)

Comparative evaluation of RNA-Seq library preparation methods for strand-specificity and low input
por: Sarantopoulou, Dimitra, et al.
Publicado: (2019)

A new approach to bias correction in RNA-Seq
por: Jones, Daniel C., et al.
Publicado: (2012)

Cannot write session to /tmp/vufind_sessions/sess_uva70k7s2egmcb6lk90u8qrtos