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Rhizome Project Meeting(1) 5-4-2011. Min- Jeong Kim Gang Lab Institute of Biological Chemistry Washington State University Pullman, WA. Approach. gene A. gene B. mRNA. microarray. RNA- seq. Intensity of spot. Number of sequence. Expression level. Work Flow. Flow cell.

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rhizome project meeting 1 5 4 2011
Rhizome Project Meeting(1)5-4-2011

Min-Jeong Kim

Gang Lab

Institute of Biological Chemistry

Washington State University

Pullman, WA

approach
Approach

gene A

gene B

mRNA

microarray

RNA-seq

Intensity of spot

Number of sequence

Expression level

work flow
Work Flow

Flow cell

total rna purification
Total RNA Purification

Tissuelyser II

Qiagen RNA mini kit

www.qiagen.com

mrna isolation
mRNA Isolation

Total RNA

www.invitrogen.com

cluster generation with cbot 1
Cluster Generation with cBot (1)

Attach DNA to flow cell surface

Prepare DNA sample

cluster generation with cbot 2
Cluster Generation with cBot (2)

Bridge amplification

Fragments become double stranded

sequencing and data analysis
Sequencing and Data Analysis

Align data

Sequencing by synthesis(SBS)

progress on specific species
Progress on Specific Species

* Some are not available in the database

multiplexed rna seq
Multiplexed RNA-seq

Multiplexed sequencing

Adding the sequence index to a library

Clustering

Pooling 5 replicates in a tube

interaction relationship with ncgr
Interaction/Relationship with NCGR

Sequencing

Contig

Library

Flow cell

Blast

Database