Core C: Research Design and Analysis

Major Resources

Data Analysis Servers

Number of nodes	CPU cores per node	Processor	Memory	Storage
3	12	Intel Xeon L5520 @ 2.27GHz	48GB	22TB
1	32	AMD Opteron 6134 @ 2.3 GHz	128GB	11TB
1	16	Intel Xeon X5650 @ 2.67GHz	64GB	7.1TB
1	4	Intel Xeon 5160 @ 3.0GHz	4GB	600GB

MicroArray Data Management Server

• Quad Processor AMD 848 Opteron 2.2 GHz
• 6 GB Ram
• 4 x 300GB SCSI RAID + 2TB Network-attached storage

Partial list of Software

• Ingenuity IPA - Pathway analysis tool
• Partek Genomic Suite - Microarray, Next Gen Sequencing (NGS), Integrated Genomics analysis tool
• Acumenta Literature Lab - Scientific literature mining tool
• CLC Genomics Workbench - NGS data analysis tool
• MATLAB - Technical computing tool
• R - Statistical computing tool
• SPSS - Statistical computing tool
• Affymetrix AGCC and GCOS - Instrument control and data management software for GeneChip system
  
• BLAST (Basic Local Alignment Search Tool) Server - Similarity search program designed to explore all of the available sequence databases of protein or DNA
  
• BLAT Server - inds sequences of minimum 40 bases with 95% or greater similarity on entire genome. BLAT on proteins finds sequences of 80% or greater similarity of length of 20 amino acids or more.
• DS_Gene - Multiple sequence alignment and analysis, sequence editing and comparison, fragment assembly, restriction and proteolyc enzyme mapping, primer analysis to predict PCR and sequencing primers and hybridization probes pattern, motif and gene finding
• StatMost - Statistical analysis, graphical information