Cargando…

clrDV: a differential variability test for RNA-Seq data based on the skew-normal distribution

BACKGROUND: Pathological conditions may result in certain genes having expression variance that differs markedly from that of the control. Finding such genes from gene expression data can provide invaluable candidates for therapeutic intervention. Under the dominant paradigm for modeling RNA-Seq gen...

Descripción completa

Detalles Bibliográficos
Autores principales:	Li, Hongxiang, Khang, Tsung Fei
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	PeerJ Inc. 2023
Materias:	Bioinformatics
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10544356/ https://www.ncbi.nlm.nih.gov/pubmed/37790621 http://dx.doi.org/10.7717/peerj.16126

Ejemplares similares

Getting the most out of RNA-seq data analysis
por: Khang, Tsung Fei, et al.
Publicado: (2015)

Variance component testing for identifying differentially expressed genes in RNA-seq data
por: Yang, Sheng, et al.
Publicado: (2017)

On the classification of simple and complex biological images using Krawtchouk moments and Generalized pseudo-Zernike moments: a case study with fly wing images and breast cancer mammograms
por: Goh, Jia Yin, et al.
Publicado: (2021)

Cross-platform normalization of microarray and RNA-seq data for machine learning applications
por: Thompson, Jeffrey A., et al.
Publicado: (2016)

cdev: a ground-truth based measure to evaluate RNA-seq normalization performance
por: Tran, Diem-Trang, et al.
Publicado: (2021)

Power analysis and sample size estimation for RNA-Seq differential expression
por: Ching, Travers, et al.
Publicado: (2014)

Error estimates for the analysis of differential expression from RNA-seq count data
por: Burden, Conrad J., et al.
Publicado: (2014)

How to normalize metatranscriptomic count data for differential expression analysis
por: Klingenberg, Heiner, et al.
Publicado: (2017)

Unipro UGENE NGS pipelines and components for variant calling, RNA-seq and ChIP-seq data analyses
por: Golosova, Olga, et al.
Publicado: (2014)

BingleSeq: a user-friendly R package for bulk and single-cell RNA-Seq data analysis
por: Dimitrov, Daniel, et al.
Publicado: (2020)

Transcriptome profiling by RNA-Seq reveals differentially expressed genes related to fruit development and ripening characteristics in strawberries (Fragaria × ananassa)
por: Hu, Panpan, et al.
Publicado: (2018)

Normalization of High Dimensional Genomics Data Where the Distribution of the Altered Variables Is Skewed
por: Landfors, Mattias, et al.
Publicado: (2011)

Software pipelines for RNA-Seq, ChIP-Seq and germline variant calling analyses in common workflow language (CWL)
por: Kyritsis, Konstantinos A., et al.
Publicado: (2023)

Integrated mRNA-seq and miRNA-seq analysis of goat fibroblasts response to Brucella Melitensis strain M5-90
por: Li, Baobao, et al.
Publicado: (2021)

3′ RNA-seq is superior to standard RNA-seq in cases of sparse data but inferior at identifying toxicity pathways in a model organism
por: McClure, Ryan S., et al.
Publicado: (2023)

High-performance pipeline for MutMap and QTL-seq
por: Sugihara, Yu, et al.
Publicado: (2022)

Integration of exome-seq and mRNA-seq using DawnRank, identified genes involved in innate immunity as drivers of breast cancer in the Indian cohort
por: Nirgude, Snehal, et al.
Publicado: (2023)

bestDEG: a web-based application automatically combines various tools to precisely predict differentially expressed genes (DEGs) from RNA-Seq data
por: Sangket, Unitsa, et al.
Publicado: (2022)

CLIPSeqTools—a novel bioinformatics CLIP-seq analysis suite
por: Maragkakis, Manolis, et al.
Publicado: (2016)

voomDDA: discovery of diagnostic biomarkers and classification of RNA-seq data
por: Zararsiz, Gokmen, et al.
Publicado: (2017)

Compacting and correcting Trinity and Oases RNA-Seq de novo assemblies
por: Cabau, Cédric, et al.
Publicado: (2017)

Seq2science: an end-to-end workflow for functional genomics analysis
por: van der Sande, Maarten, et al.
Publicado: (2023)

CLR via C#
por: Richter, Jeffrey
Publicado: (2010)

CLR via C#
por: Richter, Jeffrey
Publicado: (2012)

CLR via C♯
por: Richter, Jeffrey
Publicado: (2006)

Identifying stably expressed genes from multiple RNA-Seq data sets
por: Zhuo, Bin, et al.
Publicado: (2016)

I-ATAC: interactive pipeline for the management and pre-processing of ATAC-seq samples
por: Ahmed, Zeeshan, et al.
Publicado: (2017)

Detection and benchmarking of somatic mutations in cancer genomes using RNA-seq data
por: Coudray, Alexandre, et al.
Publicado: (2018)

Detection of condition-specific marker genes from RNA-seq data with MGFR
por: El Amrani, Khadija, et al.
Publicado: (2019)

SingleCAnalyzer: Interactive Analysis of Single Cell RNA-Seq Data on the Cloud
por: Prieto, Carlos, et al.
Publicado: (2022)

kakapo: easy extraction and annotation of genes from raw RNA-seq reads
por: Ramanauskas, Karolis, et al.
Publicado: (2023)

Detecting heterogeneity in single-cell RNA-Seq data by non-negative matrix factorization
por: Zhu, Xun, et al.
Publicado: (2017)

A robust semi-supervised NMF model for single cell RNA-seq data
por: Wu, Peng, et al.
Publicado: (2020)

Gene representation in scRNA-seq is correlated with common motifs at the 3′ end of transcripts
por: Li, Xinling, et al.
Publicado: (2023)

Validating a re-implementation of an algorithm to integrate transcriptome and ChIP-seq data
por: Ahmed, Mahmoud, et al.
Publicado: (2023)

First insight into the viral community of the cnidarian model metaorganism Aiptasia using RNA-Seq data
por: Brüwer, Jan D., et al.
Publicado: (2018)

DiscoSnp-RAD: de novo detection of small variants for RAD-Seq population genomics
por: Gauthier, Jérémy, et al.
Publicado: (2020)

qtQDA: quantile transformed quadratic discriminant analysis for high-dimensional RNA-seq data
por: Koçhan, Necla, et al.
Publicado: (2019)

consensusDE: an R package for assessing consensus of multiple RNA-seq algorithms with RUV correction
por: Waardenberg, Ashley J., et al.
Publicado: (2019)

A clustering method for small scRNA-seq data based on subspace and weighted distance
por: Ning, Zilan, et al.
Publicado: (2023)

Cannot write session to /tmp/vufind_sessions/sess_83mnr7gpee2udgltq40oj54kfm