Bioinformatics and Computational Biology

Contact details

Principal Investigator

Pablo Mir RiveraPablo Mir Rivera

Technician in Charge

Juan Antonio Cordero VarelaJuan Antonio Cordero Varela

Bioinformatics and Computational Biology

  1. Introduction
  2. Techniques
  3. Equipment
  4. Usage rules
  5. Prices

The Bioinformatics and Computational Biology Unit provides researchers from the IBiS and external organizations services of advising, planning, processing and analysis of high-throughput data, essentially genomic data, as well as the access to the high performance computing cluster at the institute.

Location:2ª Planta

Working hours:L-V: De 9:00 a 17:00 *

(*) Those experiments that need time past the established hours could be made prior knowledge of the technician in charge.

  •  Transcriptomics (RNA-Seq, Chip-Seq, microarrays and qPCR).
    • Data processing and quality analysis of samples: image analysis, data normalization, sample clustering, intensity distribution analysis, among others.
    • Differential expression analysis.
    • Functional enrichment analysis.
      • Gene ontology (GO).
      • Metabolic pathways (KEGG).
      • Signaling pathways.

 

  • Proteomics (iTRAQ).
    • Data processing and quality analysis.
    • Differential expression analysis.
    • PTM analysis.
    • Functional enrichment analysis.

 

  • Protein functional annotation.
    • Multiple sequence alignment.
    • Orthology analysis.
    • Protein structure modelling and comparison.
    • Phylogenetic analysis.

 

Click on the different equipment for details on features.

Head Node

 

  • 2 Processors Xeon Ivy Bridge E5-2630 V2 2,6 six cores (Hiper Threading), 15 Mb cache and 7,2 GT/s.
  • X9DRi-LN4F+ cmotherboard, VGA Matrox G200eW, 12 Hot Swap, 3 PCI-E 3.0 x16, 1 PCI-E 3.0 x8, 4 Gigabit Ethernet cards, IPMI 2.0 for KVM over.
  • 1 Mellanox Infiniband card (FDR 56 Gb/s).
  • 32 RAM DDR3/1600 Mhz ECC Reg.
  • 2 x SSD 120 disks (RAID 1).
  • 6 x 4 TB disks (Seagate 7200 rpm, 128 Mb, 6GT/s How Swap , 20 TB RAID5).
  • LSI 2108 Raid controller 0, 1, 5, 6, 10, 50, 60.
Head Node

Computing Nodes

 

  • 18 Processors Xeon Ivy Bridge E5-2630 V2 2,6 eight cores (Hiper Threading), 20 Mb cache and 7,2 GT/s.
  • 8 Intel Server S2600WP motherboard (Washington Pass), 1 PCI-E x16 Low Profile.
  • 8 Mellanox Infiniband network cards (FDR 56Gb/s).
  • 768 RAM DDR3/1600 Mhz ECC Reg.
  • 8 SSD 120 disks
Computing Nodes

As a general rule

  • Both the analyses and the maintenance of the infrastrucure are restricted to the technician.
  • Los análisis solicitados, así como el mantenimiento de los equipos, quedas limitados. If you need to make use of the computational resources of the cluster, please conctact first the service.
  • In order to make a request of the service, please contact us: bioinformatica-ibis@us.es.
  • An in-depth description of the experiment is recommended, as well as the aim of the analysis.
  • The unit will send an email when analysis is finished.
  • Data will be stored in the respective folder of the service in the internal network of the IBiS, for researchers from the institute. For those from other organisations, please contact first.

Below you can download the applicable fees.

For information about fees and charges applicable to our services, please contact: bioinformatica-ibis@us.es.