Identification of common and unique stress responsive genes of Arabidopsis thaliana under different abiotic stress through RNA-Seq meta-analysis
نویسنده
چکیده
............................................................................................................................... i DEDICATION .......................................................................................................................... iv ACKNOWLEDGEMENTS ....................................................................................................... v TABLE OF CONTENTS .......................................................................................................... vi LIST OF FIGURES ............................................................................................................... viii LIST OF TABLES ..................................................................................................................... x CHAPTER 1 ............................................................................................................................. 1 LITERATURE REVIEW ....................................................................................................... 1 1.1 ABIOTIC STRESS AND AGRICULTURE PRODUCTIVITY ................................ 2 1.2 MECHANISMS OF STRESS TOLERANCE: GENE EXPRESSION CHANGE .... 3 1.3 RNA-SEQ.................................................................................................................... 6 1.4 RNA-SEQ PIPELINE ................................................................................................. 7 1.5 SOFTWARE TOOLS OF THE RNA-SEQ PIPELINE .............................................. 7 1.5.1 READ ALIGNMENT: STAR.............................................................................. 7 1.5.2 READ COUNTING: FeatureCounts ................................................................... 8 1.5.3 DIFFERENTIAL EXPRESSION: DESeq2 ......................................................... 8 1.5.4 DIFFERENTIAL EXPRESSION: edgeR ............................................................ 9 1.6 REFERENCES .......................................................................................................... 10 CHAPTER 2 ........................................................................................................................... 15
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