Statistical Analysis of Genome Scale Data

NSF Award Search: Award # 1461364 - Collaborative Research

Special emphasis will be put on the efficiency of the methods so that they allow for analysis of genome-scale data sets. All methods will be implemented and ...

MAGeCK enables robust identification of essential genes from ...

... gene and pathway hits from high-throughput sequencing data. We developed a statistical approach called Model-based Analysis of Genome-wide ...

Guidelines for Genome-Scale Analysis of Biological Rhythms

These methods hold significant promise for future discovery, particularly when combined with computational modeling. However, genome-scale ...

Genome-scale analysis of the uses of the Escherichia coli genome

The integration of heterogeneous genome-scale data (i.e., sequence, expression data, and mRNA half-life data) is readily achieved in the context of an in silico ...

Genome-scale counting: methods for quantitative high-throughput ...

Robinson, Mark,. Count-based differential expression analysis of RNA sequencing data using R and Bioconductor. In Nature Protocols, 8, 1765. 2013. , Open ...

GMATA: An Integrated Software Package for Genome-Scale SSR ...

We developed novel software package Genome-wide Microsatellite Analyzing Tool Package (GMATA) integrating SSR mining, statistical analysis and plotting.

Guidelines for Genome-Scale Analysis of Biological Rhythms.

Therefore, we encourage the use of standardized, synthetic data for benchmarking the accuracy of each statistical method (see below) and rigorous empirical ...

Practical experimental design and data analysis for genome-scale ...

The opening chapters are carefully presented to be accessible both to biologists with training only in basic statistics and to computational ...

Enabling Statistically Consistent Genome-Scale Phylogenetic ...

(Science 2014) presented the "statistical binning" technique to improve gene tree estimation in multi-locus analyses, and showed that it improved the accuracy ...

MetaboAnalyst

Statistical Meta-analysis ... Users can upload several annotated metabolomics data sets collected under comparable conditions to identify robust biomarkers ( ...

Clustering Methods for Statistical Analysis of Genome Databases

Statistical analysis: The statistical analysis of micro array data is probably the most difficult problem associated with the use of clustering. The aim is to ...

KEGG: Kyoto Encyclopedia of Genes and Genomes - GenomeNet

... scale molecular datasets generated by genome sequencing and other high-throughput experimental technologies. ... Conserved gene, gene set and gene order analysis ...

STATISTICAL METHODS FOR THE ANALYSIS OF CANCER ...

... STATISTICAL. METHODS FOR THE ANALYSIS OF CANCER GENOME SEQUENCING DATA" (October 2007). Johns Hopkins University,. Dept. of Biostatistics ...

Statistics for Genomics: Introduction to RNAseq - YouTube

Comments8 ; Statistics for Genomics: Normalization. Rafael Irizarry · 12K views ; Next-Generation Sequencing Technologies - Elaine Mardis (2012).

Gene Expression Profiling and the Use of Genome-Scale In Silico ...

coli. We will try to address two classes of expression profiling data usage: (i) how expression profiling can be analyzed using more traditional ...

PHC 6937 Statistical and Computational Analysis of Genomic Data ...

The course will focus on statistical and computational methods/tools on next generation sequencing data analysis. Topics include introduction and analysis of ...

Unraveling regulatory circuitry by combinatoral analysis of genome ...

4. Combining different types of genome-scale data to answer the same biological question. 5. A database management system (DBMS) specifically ...

Seurat - Guided Clustering Tutorial - Satija Lab

For this tutorial, we will be analyzing the a dataset of Peripheral Blood Mononuclear Cells (PBMC) freely available from 10X Genomics.

Intro to Genomic Data | Workshop - YouTube

... analysis environments 45:18 Exploring the genomic data 52:13 Exercise 2: Examining the genomic data 57:59 Overview of GWAS 1:02:33 Exercise ...

Tools for Single Cell Genomics • Seurat - Satija Lab

Seurat is an R package designed for QC, analysis, and exploration of single-cell RNA-seq data. Seurat aims to enable users to identify and interpret sources of ...