>

Introduction to Deep Sequencing Analysis course 2015

Date	Hours	Subject	Lecturer
June 21th	09:00-11:00	Introduction to Illumina NGS technology	Oren Ben-ami
	11:00-12:00	NGS applications and introduction to analysis	Esti Feldmesser
	12:00-12:30	Lunch
	12:30-13:30	Illumina Primary analysis Pipeline and Quality Control, Sequence alignment to genome	Dena Leshkowitz & Esti Feldmesser
	13:30-14:30	Exercise: Chipster for QC and Mapping	Dena Leshkowitz & Esti Feldmesser

June 22th	09:00-10:00	Introduction to RNA-Seq Analysis	Dena Leshkowitz
	10:15-11:15	RNAseq gene level differential expression and clustering	Gilgi Friedlander
	11:15-12:15	Exercise: Gene Level Differential Expression	Dena Leshkowitz
	12:15-12:45	Lunch
	12:45-13:45	Exercise: Clustering	Gilgi Friedlander
	14:00-14:45	Exercise: Transcriptome Analysis with the Tuxedo Suite	Dena Leshkowitz

June 23th	09:00-10:00	De Novo transcriptome assembly, Trinity RNAseq workshop slides	Esti Feldmesser
	10:00-11:00	Exercise: Transcriptome Assembly	Esti Feldmesser
	11:00-12:00	Introduction to single-cell transcriptomics	Esti Feldmesser
	12:00-12:30	Lunch
	12:30-13:30	Fluidigm platforms for Single Cell Genomics	Amos Grundwag
	13:30-14:30	PacBio SMRT Sequencing overview, PacBio Technical Application Note	Amos Grundwag

June 24th	09:00-10:00	Functional analysis: Gene Ontology and pathways	Esti Feldmesser
	10:15-11:00	Exercise: Functional Analysis	Esti Feldmesser
	11:15-12:30	ChIP-Seq: Using NGS to Discover Protein-DNA Interactions	Dena Leshkowitz
	12:30-13:10	Lunch
	13:30-14:30	Exercise: ChIP-Seq Analysis	Dena Leshkowitz

June 25th	09:00-10:00	Variant detection	Barak Markus
	10:00-10:45	Variant detection exercise	Barak Markus
	11:00-12:00	Gene Set Analysis (GSEA) and Ingenuity tools	Esti Feldmesser
	12:00-12:45	Lunch
	12:45-13:15	RNA-Seq Summary: Transcript Level Analysis Assessment	Dena Leshkowitz
	13:30-14:30	Course Summary: Questions & Answers	Dena Leshkowitz