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Tutorial RNASeq of comparative transcriptomics based on the species Sparus aurata
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Tutorial RNASeq differential expression
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CONTENTS
1. PRELIMINARY INFORMATION
1.1 - Tutorial objective
1.2 - Tutorial material and case study
1.3 - Experiment design and support
1.4 - Installing and activating RNASeq and the Server-Side
2. STEP-BY-STEP MODE TUTORIAL
2.1. - TOPHAT/HISAT2 & CUFFLINKS
2.1.1 - Preparing your experiment
2.1.2 - Quality analysis and preprocessing
2.1.3 - Mapping
2.1.4 - Transcriptome Assembly
2.1.5 - Differential Expression analysis
2.1.6 - GOSeq
2.2. - MAPPING & COUNTING PROTOCOL
2.2.1 - Genome mapping
2.2.1.1 - Preparing your experiment
2.2.1.2 - Quality analysis and preprocessing
2.2.1.3. - Mapping
2.2.1.4 - Postprocessing
2.2.1.5 - Differential Expression analysis
2.2.1.6 - GOseq
2.2.2 - Transcriptome mapping
2.2.2.1 - Preparing your experiment
2.2.2.2 - Quality analysis and preprocessing
2.2.2.3 - Mapping
2.2.2.4 - Postprocesing
2.2.2.5 - Differential Expression
3. PIPELINE MODE TUTORIAL
3.1 - TopHat/Hisat2 & Cufflinks protocol
3.2 - Mapping & Counting protocol
4. BIBLIOGRAPHY
CITE US
Avisos
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01_FASTQC
02_CUTADAPT
03_PRINSEQ
04_FASTQC
05_TOPHAT
06_CUFFLINKS
06_CUFFDIFF
01_FASTQC
02_CUTADAPT
03_PRINSEQ
04_FASTQC
05_Bowtie2
06_CORSET
07_edgeR
Siguiente actividad
01_FASTQC ►
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Calendario
Secciones del curso
CONTENTS
1. PRELIMINARY INFORMATION
1.1 - Tutorial objective
1.2 - Tutorial material and case study
1.3 - Experiment design and support
1.4 - Installing and activating RNASeq and the Server-Side
2. STEP-BY-STEP MODE TUTORIAL
2.1. - TOPHAT/HISAT2 & CUFFLINKS
2.1.1 - Preparing your experiment
2.1.2 - Quality analysis and preprocessing
2.1.3 - Mapping
2.1.4 - Transcriptome Assembly
2.1.5 - Differential Expression analysis
2.1.6 - GOSeq
2.2. - MAPPING & COUNTING PROTOCOL
2.2.1.1 - Prepare your experiment for the mapping & counting analysis
2.2.1.2 - Quality analysis and preprocessing
2.2.1.3 - Mapping
2.2.1.4 - Postprocessing
2.2.1.5 - Differential Expression analysis
3. PIPELINE MODE TUTORIAL
3.1 - TopHat/Hisat2 & Cufflinks protocol
3.2 - Mapping & Counting protocol
4. BIBLIOGRAPHY
Pipeline mode: Tophat & Cufflinks protocol results
Pipeline mode: Mapping & Counting protocol results
CITE US
CASE STUDY
2.2.1 - Genome mapping
2.2.1.6 - GOseq
2.2.2 - Transcriptome mapping
2.2.2.1 - Preparing your experiment
2.2.2.2 - Quality analysis and preprocessing
2.2.2.3 - Mapping
2.2.2.4 - Postprocessing
2.2.2.5 - Differential Expression analysis
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