Revision as of 09:53, 14 May 2014

Servers:

• 10.120.5.246 (main Linux server)
• 10.120.6.244 (second Linux server)
• 10.120.4.248 (Mac server)

Day 2 - 5/12/2014

• Intro_to_Unix_and_Scripting (Leon) -- http://data.marcottelab.org/XenBioinfo2014/pdf/SummerDay_LP.pdf (Lecture Note)
• Intro_to_Programming_and_Python (Taejoon)
• Awk (Leon)
• Xenopus_genome (Taejoon)

Day 3 - 5/13/2014

• Morning - RNAseq_part1 (Ian) http://data.marcottelab.org/XenBioinfo2014/pdf/RNAseq_intro_IQ.pdf
• Afternoon - RNAseq_part2 (Virginia) http://data.marcottelab.org/XenBioinfo2014/pdf/XenopusRNAseqLecture_VS.pdf
• Evening - DEseq (Ian) http://data.marcottelab.org/XenBioinfo2014/pdf/RNAseq_recap_IQ.pdf

References

• Mike Gilchrist's paper for 30-min time course RNA-seq in .X tropicalis
• Mkie Blower's paper for different prep method of X. laevis egg transcripts
• Rfx2 paper (RNA-seq + ChIP-seq)

Day 4 - 5/14/2014

• Morning 1/2 - Shotgun_Proteomics_Theory (Martin)
• Morning 2/2 - Shotgun_Proteomics_Data_Process (Taejoon)

• Afternoon I - Shotgun_Proteomics_Experiment_and_Analysis (Martin & Leon)
• Afternoon II - Proteomics_Differential_Expression_Analysis (Taejoon)

• Evening - Clustering_and_Classification (Leon)

Day 5 - 5/15/2014

• Machine_Learning_with_Weka (Leon)
• ChIPseq_prep_and_map (Ian)
• Vis_with_IGV (Ian)

Day 6 - 5/16/2014

• Motif_analysis (Ian)
• ChIPseq_peak_calling (Ian)
• BLAST_and_sequence_analysis (Taejoon)

Day 7 - 5/17/2014

• Gene_enrichment_analysis (Virginia)
• Network_analysis (Taejoon)
• RNAseq_assembly (Taejoon)