Single-cell RNA-seq data allows insight into normal cellular function and various disease states through molecular characterization of gene expression on the single cell level. Dimensionality reduction of such high-dimensional data sets is essential for visualization and analysis, but single-cell RNA-seq data are challenging for classical dimensionality-reduction methods because of the ... Read Here
Cell Bio Ch 10 Questions And Study Guide | Quizlet Flashcards ...
Start studying cell bio ch 10. Learn vocabulary, terms, and more with flashcards, games, and other study tools. - intensity = how much RNA present from a gene normal gene replaced by altered one - analyze function of mutant in absence of normal protein. ... Read Document
Statistical Modeling Of RNA-Seq Data
Statistical Modeling of RNA-Seq Data Julia Salzman1, Hui Jiang1 and Wing Hung Wong Abstract. Recently, ultra high-throughput sequencing of RNA (RNA-Seq) has been developed as an approach for analysis of gene expression. By ob-taining tens or even hundreds of millions of reads of transcribed sequences, ... Read Here
Glimma: Interactive Graphics For RNA-seq Analyses
Glimma: Interactive Graphics for RNA-seq Analyses User’s Guide Shian Su, Charity W. Law, Matthew E. Ritchie ferential expression analyses of RNA-sequencing (RNA-seq) and microarray data. Its pression values (top left). Signi cantly up- and down-regulated genes are highlighted in ... Retrieve Full Source
Network-based Bioinformatics Analysis Of Spatio-temporal RNA ...
Transcriptional programs underpinning normal and aberrant retinal development principle by extending our methodology to analyze RNA-Seq data from P21-Nrl-WT and KO retinae. Our Gene ex-pression levels were estimated using IsoEM [9], an ... Read Document
BioWardrobe: An Integrated Platform For Analysis Of ...
BioWardrobe: an integrated platform for analysis of epigenomics and transcriptomics data Andrey V. Kartashov1 and Artem Barski1,2* Abstract High-throughput sequencing has revolutionized biology by enhancing our ability to perform genome-wide studies. However, due to lack of bioinformatics expertise, modern technologies are still beyond the ... Get Document
Statistical And Computational Methods For Analyzing High ...
Statistical and Computational Methods for Analyzing High-Throughput Genomic Data by Jingyi Li Doctor of Philosophy in Biostatistics and the Designated Emphasis in Computational and Genomic Biology University of California, Berkeley Professor Peter J. Bickel, Chair In the burgeoning field of genomics, high-throughput technologies (e.g. microarrays, ... Visit Document
Integrative Bioinformatics Analysis Characterizing The Role ...
The analysis of RNA sequencing data Real Time PCR was employed to analyze the gene expression level of EDC3 in transfected cells and validate the transfection result. Predesigned TaqMan probes (EDC3: Hs00257810_m1) and TaqMan Gene Ex-pression Mastermix (Applied Biosystems) were used ... Access Full Source
MAP-RSeq: Mayo Analysis Pipeline For RNA Sequencing
MAP-RSeq result set (files and summary report) from MAP-RSeq gene expression counts module was vali- a RNA-Sequencing run can be downloaded from the dated using a synthetic dataset for which RNA-Seq MAP-RSeq homepage [10]. ... Retrieve Full Source
BayCount: A Bayesian Decomposition Method For Inferring Tumor ...
Decomposition method to infer tumor heterogeneity with highly over-dispersed RNA sequencing count data. Using negative binomial factor analysis, BayCount takes into account both the between-sample and gene-speci c random e ects on raw counts of sequencing reads mapped to each gene. For posterior inference, we develop an e - ... Read More
SCALE: Modeling Allele-specific Gene Expression By Single ...
SCALE: modeling allele-specific gene expression by single-cell RNA sequencing Yuchao Jiang1, Nancy R. Zhang2* and Mingyao Li3* Abstract Allele-specific expression is traditionally studied by bulk RNA sequencing, which measures average expression across cells. Single-cell RNA sequencing allows the comparison of expression distribution between ... Get Doc
Transcriptome And Targetome Analysis In MIR155 Expressing ...
Transcriptome and targetome analysis in MIR155 expressing cells using RNA-seq GUORONG XU,1 CLAIRE FEWELL,2 CHRISTOPHER TAYLOR,1,3 NAN DENG,1 DALE HEDGES,4 XIA WANG,2 KUN ZHANG,5 MICHELLE LACEY,6 ... View Full Source
Granatum: A Graphical Single-cell RNA-Seq Analysis Pipeline ...
SOFTWARE Open Access Granatum: a graphical single-cell RNA-Seq analysis pipeline for genomics scientists Xun Zhu1,2, Thomas K. Wolfgruber1,2, Austin Tasato3, Cédric Arisdakessian1,2, David G. Garmire3 and Lana X. Garmire1,2* Abstract Background: Single-cell RNA sequencing (scRNA-Seq) is an increasingly popular platform to study heterogeneity at ... Read Content
SIMLR: A Tool For Large-scale Genomic Analyses By Multi ...
SIMLR: a tool for large-scale genomic analyses by multi-kernel learning Bo Wang 1, Daniele Ramazzotti 1,2, Luca De Sano3, Junjie Zhu4, Emma Pierson1, and Sera m Batzoglou1 1Department of Computer Science, Stanford University, Stanford, CA, USA 2Department of Pathology, Stanford University, Stanford, CA, USA ... Fetch Here
BioXpress: An Integrated RNA-seq-derived Gene Expression ...
Genes obtained from NGS technology such as RNA sequencing (RNA-seq). Moreover, no singular effort is underway to manually curate data from publications on cancer-related gene expression, enabling easy comparison of expression data and knowledge from both small publi-cations and large-scale studies like The Cancer Genome ... Fetch Content
Microfluidic Single-cell Whole-transcriptome Sequencing
Single-cell RNA-Seq platform (C1; Fluidigm) and showed that implementation of a cDNA preparation protocol in microfluidic chambers offers advantages over tube-based approaches, includ-ing improved detection sensitivity. In this report, we investigated gene expression in mouse em-bryonic cells using microfluidic-facilitated RNA-Seq to analyze 56 ... Access Document
RNA-Rocket: An RNA-Seq Analysis Resource For Infectious ...
Gene Expression RNA-Rocket: An RNA-Seq Analysis Resource for Infectious Dis- o enable users to upload and analyze their own data W e use the Galaxy system to consolidate and provide the tools and se r-vices necessary to process high-throughput sequencing data. The use of Galaxy has many ... Read Full Source
Breast Cancer Analysis Using MiRNA Sequencing
Breast Cancer Analysis Using miRNA Sequencing Forough Firoozbakht University of Windsor Breast cancer is one of the most common types of cancer among women and it is the leading cause of death in American women between the ages of 40 and 55. One out of 8 females in the United States will develop breast cancer at some point in their lives. ... Read Here
METHODOLOGY Open Access Glbase: A Framework For Combining ...
Tween up-stream analysis (e.g. the genomic alignment of sequencing reads and ChIP-seq peak discovery) and down-stream analysis (e.g. ChIP-seq peak annotation, combining ChIP-seq/RNA-seq data, and the production of publication-quality figures). glbase is implemented as a Python module designed to be used non-interactively ... Fetch Full Source
RNA-Rocket: An RNA-Seq Analysis Resource For Infectious ...
Gene Expression RNA-Rocket: An RNA-Seq Analysis Resource for Infectious Dis- o enable users to upload and analyze their own data W e use the Galaxy system to consolidate and provide the tools and se can be used to determine transcript structure and the level of e x-pression in the target ... Doc Retrieval
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