[PDF] Top 20 Statistical methods for identifying differentially expressed genes in RNA-Seq experiments
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Statistical methods for identifying differentially expressed genes in RNA-Seq experiments
... for RNA-Seq data analysis, based upon the argu- ment that the over-dispersion is most likely caused by within group variation in expression if the experiment includes independent biological replicates ... See full document
8
Statistical Tests for Identification of Differentially Expressed Genes in Microarray Data
... microarray experiments, differentially expressed genes, or discriminator genes, are the genes with considerably different expression patterns in two user-defined ...of ... See full document
6
Use of RNA sequencing to evaluate rheumatic disease patients
... UCSC Genes) are determined using programs such as HTSeq ...for RNA-seq, such as the length of the tran- script and the sequencing ...of genes/transcripts in FPKM ...between genes. It is ... See full document
10
RNA Seq and Bulked Segregant Analysis of Genes Related to High Growth in Ginkgo biloba Half Sibling Families
... of differentially expressed genes (DEGs) to reduce false positives that may be caused by inde- pendent statistical hypothesis testing of expression values of a large number of ...of ... See full document
22
Effect of hyperoside on cervical cancer cells and transcriptome analysis of differentially expressed genes
... for RNA-Seq. Differentially expressed genes (DEGs) were identified by comparing gene expression between the Hy and control ...Candidate genes were determined through DEG ... See full document
14
A statistical approach for identifying differential distributions in single cell RNA seq experiments
... first statistical method to detect differences in scRNA-seq experiments that explicitly accounts for potential multi-modality of the distribution of expressed cells in each ...scRNA- ... See full document
15
Role of WDHD1 in Human Papillomavirus-Mediated Oncogenesis Identified by Transcriptional Profiling of E7-Expressing Cells
... set. RNA-seq is a more sensitive method for reliably iden- tifying differentially expressed genes, especially low-abundance genes, than traditional methods for ... See full document
14
Corset: enabling differential gene expression analysis for de novoassembled transcriptomes
... different genes (Additional file 1: Figure ...GABPA genes, which reside on opposite strands but have overlapping ...and methods). While there are contigs for each of the genes separately ... See full document
14
Investigation of reproducibility of differentially expressed genes in DNA microarrays through statistical simulation
... reference RNA samples and rat toxicogenomics ...reference RNA samples and rat toxicogenomics dataset as well as consistent with the range typically found in clinical microarray experiments, ... See full document
5
Competitive endogenous RNA (ceRNA) regulation network of lncRNAs, miRNAs, and mRNAs in Wilms tumour
... limited. Methods: The expression profiles of mRNAs, miRNAs and lncRNAs in Wilms tumour samples and normal samples were obtained from the Therapeutically Applicable Research to Generate Effective Treatment (TARGET) ... See full document
10
Original Article Differential gene expression profile analysis in corticosterone-treated PC12 cells
... generation RNA-Seq technology to compara- tively study differentially expressed gene pro- files between corticosterone treated and con- trol PC12 cells, aiming to identify all responsive ... See full document
7
Identification of differentially expressed genes in the development of osteosarcoma using RNA-seq
... dysregulated genes in primary OS and metastasis OS were predicted through GO and KEGG ...candidate genes were detected in OS tissues through ...vivo experiments in future ... See full document
12
Integrated high-throughput analysis identifies super enhancers associated with chemoresistance in SCLC
... Although the total number of regulatory elements may be in the millions, only a few hundred SEs con- trol key genes, giving each cell its own unique iden- tity and functions. Accordingly, SEs have been shown to be ... See full document
12
Sex chromosomes drive gene expression and regulatory dimorphisms in mouse embryonic stem cells
... by RNA sequen- cing (RNA-seq) from three early passage cell lines of each cross and sex and two early passage XO cell lines derived from a BC cross (denoted ...the differentially ... See full document
18
Marker-Assisted elimination of drought-susceptible accessions in upland rice breeding
... 2017), RNA-Seq (Huang et ...candidate genes homologous to those identified in other species (Shaar- Moshe et ...of identifying genes related to drought tolerance via whole- genome ... See full document
10
A cytokine screen using CRISPR-Cas9 knock-in reporter pig iPS cells reveals that Activin A regulates NANOG
... Media used in these experiments, designated “T1”, was LCDMV (used for culturing PC-iPS) minus LIF. Experi- ments were conducted in 12-well plates (Nunc; 150628), and NANOG tdTomato PC-iPS cells were passaged three ... See full document
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<p>Transcriptome profiling of dorsal root ganglia in a rat model of complex regional pain syndrome type-I reveals potential mechanisms involved in pain</p>
... in RNA-sequencing (RNA-Seq) technique and bioinformatics have made it possible to perform whole transcriptome analysis of gene ...changes. RNA-Seq technique has been used to pro fi le ... See full document
16
RNA-Seq Analysis for Identifying Host Genes Involved in Response to Monilinia vaccinii-corymbosi Infection of Blueberry.
... these genes (Birkenbihl and Somssich 2011; Ding and Wang ...PR genes, as seen by the GO terms related to mRNA production in the up-regulated ...PR genes being induced are not conferring resistance to ... See full document
128
Comprehensive analysis of DNA methylation and gene expression profiles in cholangiocarcinoma
... ferentially expressed genes (DEGs), UCA1, miR-122, and CLIC1, based on next-generation sequencing data in CCA ...dysregulated genes showed that they could promote CCA progression through the ... See full document
13
RNA-Seq based transcriptome of whole blood from immunocompetent pigs (Sus scrofa) experimentally infected with Mycoplasma suis strain Illinois
... IFN-γ-regulated genes (a type II-IFN) could indicate a mechanism of impaired IFN-γ control of ...IFN genes were not differentially expressed in our study, however only one time point was ... See full document
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