Intro to biological network and their construction methods including genome sequences, omics data, literature mining, etc.
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Biological network construction methods overview
Biological network building, visualization and analysis
High Throughput Sequencing
GWAS training for ACE Mali - utilizing PLINK, a free, open-source whole genome association analysis toolset, designed to perform a range of basic, large-scale analyses
High Throughput Sequencing
Single-cell RNA-seq tutorial featuring an overview of scRNA-seq, scRNA-seq experimental design, and data analysis.
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Managing data and simple analyses in the Galaxy cyber-environment (Practical)
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How to Check the Quality of Illumina Sequencing Reads with FastQC
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Processing of Aligned Reads for RNA-seq using R from QC and trimming, to mapping and differential analysis
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Intro to NGS and Sanger Sequencing including the technology, sequencers and their applicability to differen research questions.
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Haplotype-based Association Test, Linkage Analysis for Binary Traits and Quantitative Traits
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NGS: Mapping and de novo assembly - examines intro to NGS analysis methods, especially mapping NGS reads and de novo assembly
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An introduction to next generation sequening platforms, analysis basics and common applications of NGS
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RNA-seq training with an introduction to RNA-seq, mapping reads, transcript assembly and diffferential expression.
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RNASeq with R-Bioconductor - provide an introduction to R, Bioconductor and RNASeq analysis
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Whole exome sequencing and variant analysis workflow and tools
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ChIP-seq Theory, Hands-on Analysis using Useq, and downstream analysis steps
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Introduction to visualizing and analyzing genome-scale data as networks
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New features in Ingenuity Pathway Analysis (IPA) including IPA Advanced Analytics
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Variants and NGS in the IGV Browser - visualizing large data sets with IGV
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Intro to interaction networks, predicting networks, finding avaialble interaction data as well as visualization and analysis tools
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Building, retrieving, visualizing and analyzing biological networks
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This training will introduce Cytoscape for data visualization and networks analysis. It is useful for researchers using omics data such as transcriptomics.
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Finding common transcription factor binding motifs for multiple gene or for the same gene (especially for yeast)
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Protein Association Network Analysis Using STRING database of known and predicted protein interactions
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DAVID: Functional enrichment analysis - database for annotation, visualization and integrated discovery
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NGS Platforms Short Videos: A Cost-Benefit Analysis - examine questions like cost benefit of purchasing a sequencher or contracting out, 2012 timeline of NGS platforms
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How to Check the Quality of Illumina Sequencing Reads with FastQC
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Trimming Adapters from Fastq Reads - how ot use cutadapt to trim NGS reads