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SHIROKANE Tutorial (held on November, 2022)

Introduction for new users of SHIROKANE
Tips for running jobs on a large scale

Tutorial about Bioinformatics of Transcriptional Regulation (Sep, 29, 2012)

Tutorial about Bioinformatics of Transcriptional Regulation 1
Tutorial about Bioinformatics of Transcriptional Regulation 2
Tutorial about Bioinformatics of Transcriptional Regulation 3
Tutorial about Bioinformatics of Transcriptional Regulation Video

Tutorial about the statistical language R (held on February 16-17, 2012)

Tutorial about the statistical language R (1)
Tutorial about the statistical language R (2)
Tutorial about the statistical language R (3)
Tutorial about the statistical language R (4)
Tutorial about the statistical language R (5)
Tutorial about the statistical language R Data
Tutorial about the statistical language R Task

MPI Workshop (held on May 26, 27 2010)

MPI Workshop1
MPI Workshop2
MPI Workshop3
MPI Workshop (May 26, 2010) Video
MPI Workshop (May 27, 2010) Video

Using the Sun Grid Engine & Instructions for executing jobs on a large scale (held on April 28, 2010)

Instructions for executing jobs on a large scale (English)
Using the Sun Grid Engine Video
Instructions for executing jobs on a large scale Video

Introduction for New Users of the Super Computer System & Introduction to UNIX (held on April 27, 2010)

Outline of the super computer system
Introduction for New Users of the Super Computer System Video
Outline of the super computer system Video
Introduction to LINUX Video

Tutorial about the statistical language R (held on October 1-2, 2009)

Tutorial about the statistical language R (1)
Tutorial about the statistical language R (2)
Tutorial about the statistical language R (3)
Tutorial about the statistical language R (4)

Using Pipeline Pilot (held on May 19, 2009)

Using Pipeline Pilot

Using the Sun Grid Engine (held on April 28, 2009)

Using the Sun Grid Engine (English) (This version incorporates changes to the method of releasing the memory use limit, as implemented on May 27, 2009.)
Using the Sun Grid Engine (first part) Video (second part) Video

Introduction for New Users of the Super Computer System & Introduction to UNIX (held on April 27, 2009)

Outline of the super computer system
Introduction to LINUX (English)
Introduction for New Users of the Super Computer System Video
Outline of the super computer system Video
Introduction to LINUX. Video

KEGG/GenomeNet database (held on January 29-30, 2009)

Sequence data (GENES, KAAS, KO)
Pathway data (PATHWAY, Atlas, KGML)
Plant metabolism/Chemical data (PLANT, LIGAND)
Disease/BRITE data (DISEASE, BRITE, KegHier)
Medical product data (Drug, JAPIC, KegDraw)
Sequence analysis tools 1 (BLAST/FASTA, MOTIF) Sequence analysis tools 2 (CLUSTALW/MAFFT/PRRN, KegArray)
Chemical analysis tools (Simcomp, e-zyme, KCaM, GECS)
Using the database via KEGG API
Sequence data (GENES, KAAS, KO) Video
Pathway data (PATHWAY, Atlas, KGML) Video
Plant metabolism/Chemical data (PLANT, LIGAND) Video
Disease/BRITE data (DISEASE, BRITE, KegHier) Video
Medical product data (Drug, JAPIC, KegDraw) Video
Sequence analysis tools 1 (BLAST/FASTA, MOTIF) Video
Sequence analysis tools 2 (CLUSTALW/MAFFT/PRRN, KegArray) Video
Chemical analysis tools (Simcomp, e-zyme, KCaM, GECS) Video
Using the database via KEGG API Video

The Biological Interpretation of Gene Expression Profiles (held on January 27, 2009)

Introduction to BKL
Promoter analysis of genes induced upon activation of PAR-1
Biological interpretation of high-throughput gene expression profiles using BIOBASE’s ExPlain
Biological interpretation of high-throughput gene expression profiles using BIOBASE’s ExPlain (1) Video
Biological interpretation of high-throughput gene expression profiles using BIOBASE’s ExPlain (2) Video

The New Super Computer System (held on January 19, 2009)

The New Super Computer System
The New Super Computer System Video

The Statistical Language R (held on August 6, 2008)

Short Introduction to the Statistical Language R
Understanding data
Regression AOVA classical tests
Plotting

Using the Web Service (held on June 5, 2008)

Higet & SSS
Introduction to GeneCards
Introduction to the DBTBS database and transcriptional regulation in bacteria
Introduction to the DBTSS database
COXPRES
PSORT:Prediction system of protein localization sites in cells
Introduction to PDBj & eF-site
Introduction to the KEGG database
Introduction to the Database Center for Life Science

Using the Sun Grid Engine & Using the PC Cluster (held on April 23, 2008)

Using the Sun Grid Engine (For Sun Fire 15K, 6800)
Using the PC Cluster

Introduction for New Users of the Super Computer System & Introduction to UNIX (held on April 22, 2008)

Outline of the super computer system
Basic operation of LINUX

Introduction for New Users of the Super Computer System & Introduction to UNIX (held on October 16, 2007)

Overview of the Network
Outline of the super computer system
Basic operation of LINUX

The Statistical Language R (held on August 2-3, 2007)

Day 1 document1
Day 1 document2
Day 2 document1
Day 3 document2

Using the Web Service (held on May 22, 2007)

HiGet & SSS
Introduction to GeneCards
Introduction to the DBTSS database and transcriptional regulation in bacteria
Introduction to the DBTSS database
COXPRES
PSORT:Prediction system of protein localization sites in cells
Introduction to PDBj & eF-site

Using the Sun Grid Engine (held on April 27, 2007)

Using the Sun Grid Engine (For Sun Fire 15K, 6800)

Introduction for New Users of the Super Computer System & Introduction to UNIX (held on April 26, 2007)

Overview of the Network
Outline of the super computer system
Basic operation of LINUX

Introduction for New Users of the Super Computer System & Introduction to UNIX (held on October 24, 2006)

Overview of the Network
Outline of the super computer system
Outline of databases
Basic operation of LINUX

Using the Sun Grid Engine (held on April 25, 2006)

Using the Sun Grid Engine (For Sun Fire 15K, 6800)

Introduction for New Users of the Super Computer System & Introduction to UNIX (held on April 24, 2006)

Overview of the Network
Outline of the super computer system
Outline of the databases
Basic operation of LINUX

Using GCG (held on October 6-7, 2005)

SeqWeb (Web)
GCG (command line)

Using the databases (held on July 8, 2005)

Introduction to the databases available at the Human Genome Center
Introduction to the databases available on GenomeNet (handout)
Practice in using the GENES database in KEGG
Practice in using the PATHWAY database in KEGG
Introduction to the DBTSS database, Handout of promoter region analysis
Invited lecture: The PDB and PDBj protein structure databases

Using the Sun Grid Engine (held on May 26, 2005)

Using the Sun Grid Engine (For Sun Fire 15K, 6800)

Introduction for New Users of the Super Computer System & Introduction to UNIX (held on May 24, 2005)

Overview of the Network
Outline of the super computer system
Outline of the databases
Basic operation of LINUX

Using the PC Cluster (held on December 3, 2004)

Outline of the PC cluster
Using SCore
Using the Sun Grid Engine (For PC cluster gyoku)

Using GCG (held on October 7-8, 2004)

seqweb (overview + operation)
seqweb (practice)
unix (practice)
seqlab (outline)

Using the databases (held on June 29, 2004)

Outline of the databases