An Introduction to deep-sequencing analysis for biologists 2021 - 2022 Click here for the course requirements The exams will be held on-line via the moodle, in the following dates: Exam Schedule A: 27/02/2022, 1000 – 1200 zoom: https://weizmann.zoom.us/j/95943144893?pwd=a25pcmVvbVB1SFlJMTNvWkF4WUdWUT09 Exam Schedule B: 16/03/2022, 1000 – 1200 in Feinberg computers room B Good luck!


Date	Time	Location	Topic	Lecturers
25-Oct	10:15-12:00	Feinberg room C	Experimental design	Noa Wigoda
28-Oct	9:15-10:00	Feinberg computers room B	Exercise 1: Experimental design (Due 4.11.21) Exercise 1: answers	Noa Wigoda


Nov 1st	10:15-12:00	Feinberg room C	Introduction to Illumina NGS technology	Ester Feldmesser


Nov 8th	10:15-12:00	Feinberg room C	Illumina primary analysis	Noa Wigoda
Nov 11th	9:15-10:00	Feinberg computers room B	Exercise 2: Quality control (FastQC) is in the Moodle (Due 18.11.21)	Noa Wigoda, Gil Stelzer


Nov 15th	10:15-11:00	Feinberg room C	Sequence alignment or mapping	Ester Feldmesser
	11:15-12:00		Alignment visualization	Ester Feldmesser
Nov 18th	9:15-10:00	Feinberg computers room B	Exercise 3: IGV, looking at bam files is in the Moodle (Due 25.11.21) Exercise 3: answers	Ester Feldmesser


Nov. 22nd	10:15-12:00	Feinberg room C	Gene Expression Analysis (RNA-seq & MARS-seq)	Dena Leshkowitz
Nov. 25th	9:15-10:00	Feinberg computers room B	Exercise 4: UTAP: User-friendlyTranscriptome Analysis Pipeline, eLearning- is in the Moodle (Due 6.12.21)	Dena Leshkowitz, Bareket Dassa


Nov. 29th	10:15-11:00	Feinberg room C	Clustering	Ester Feldmesser
	11:15-12:00		Exploratory analysis	Ester Feldmesser
Dec 2nd	9:15-10:00	Feinberg computers room B	Demonstration of clustering with Partek	Ester Feldmesser


Dec 6th	10:15-11:00	Feinberg room C	Functional analysis: Gene Ontology	Noa Wigoda
	11:15-12:00		Functional analysis: Pathways analysis	Bareket Dassa
Dec. 9th	9:15-10:00	Feinberg computers room B	Exercise 5: gProfiler and Gene Analytics - is in the Moodle (Due 16.12.21)	Noa Wigoda, Bareket Dassa


Dec 13th	10:15-11:00	Feinberg room C	Assembly and quantification of transcripts from RNA-Seq data	Dena Leshkowitz
	11:15-12:00		Long read sequencing using Oxford Nanopore Technology (ONT) and Pacific Biosciences (PacBio)	Gil Stelzer
Dec 15th	9:15-10:00	Feinberg computers room B	Open Exercise	Ester Feldmesser


Dec 20th	10:15-12:00	Feinberg room C	Variant detection	Tsviya Olender
Dec 23th	9:15-10:00	Feinberg computers room B	Exercise 6: Variant detection in the moodle (Due 30.12.21)	Tsviya Olender, Bareket Dassa


Dec 27th	10:15-11:00	Feinberg room C	ChIP-Seq: Using High-Throughput Sequencing to Discover Protein-DNA Interactions	Dena Leshkowitz
	11:15-12:00		ATAC-Seq: mapping chromatin accessibility	Bareket Dassa
Dec 30th	9:15-10:00	Zoom	Exercise 7: run ATAC-Seq via UTAP pipelines (Due 6.12.21) Instructions: How to mount to wexac	Dena Leshkowitz, Bareket Dassa


Jan 3rd	10:15-11:00	Zoom	Introduction to Single-cell RNA-sequencing (scRNA-seq)	Gil Stelzer
	11:15-12:00		Single Cell Analysis, Zoom recording	Dena Leshkowitz
Jan 6th	9:15-10:00	Zoom	Exercise 8: scRNA analysis (Due )	Dena Leshkowitz, Gil Stelzer


Jan 10th	10:15-11:00	Zoom	Metagenomics	Bareket Dassa

Jan 17th			NO CLASS

Jan 24th	10:15-12:00	Zoom	Session with example questions for the exam

Feb 24th	10:15-12:00	Zoom	(optional) Open class for Q&A. Zoom link: https://weizmann.zoom.us/j/92001257732?pwd=YjUxQVROcGUyUEc1YitzT2Y4eWxmZz09

		In Moodle & Zoom	Exam Schedule A: 27/02/2022, 1000 - 1200, zoom: https://weizmann.zoom.us/j/95943144893?pwd=a25pcmVvbVB1SFlJMTNvWkF4WUdWUT09
		In Moodle & Zoom	Exam Schedule B: 16/03/2022, 1000 - 1200, Feinberg computers room B

An Introduction to deep-sequencing analysis for biologists 2021 - 2022