Computational Biology Core (CBC)

The Computational Biology Core (CBC) housed in the Institute for Systems Genomics at the University of Connecticut provides computational power and technical support to UConn researchers and affiliates. We collaborate with the Center for Genome Innovation (CGI) and Proteomics Core to provide full support to the research community.

We provide free community support through our Slack channel, data therapy sessions, and consultations. Please contact cbcsupport@uconn.edu to request software installs, server accounts, or a meeting. We encourage researchers to reach out to us if you have any questions about future experiments and how best to plan for downstream analysis.

Visit Facility Homepage

Contacts

General Contact

cbcsupport@uconn.edu

Staff

Instrumentation

Hardware

BBC Cluster (bbsrv3.biotech.uconn.edu)
UCHC HPC Cluster (xanadu-submit-int.cam.uchc.edu)

Specifications

Teaching HPC - BBC Cluster (bbcsrv3.biotech.uconn.edu)

32-node Dell Linux cluster running Centos 6.3 and Rocks 6.1 x64
Node configuration:
- 1: 16 x Quad-core 2.5 Ghz AMD 6370P processors with 512 GB RAM
- 4: 4 x 8-core 2.00 GHz Intel Xeon processors with 64 GB RAM
- 17: 2 x Quad-core 2.53 GHz Intel Xeon processors with 32 GB RAM
- 10: 2 x Dual-core 2.8 GHz AMD processors with 16 GB RAM
Local storage capacity: Dell PowerVault MD1000 18TB RAID Array

Research HPC - Xanadu Cluster (xanadu-submit-ext.cam.uchc.edu)

Node Configuration:
- 2188 CPU cores with 8+ TB RAM
- 7,000 GPU cores with large CPU-only and hybrid compute clusters
Virtualization Infrastructure:
- 728 CPU cores, 5+ TB RAM VMWare server and desktop virtualization hosts hosting 300+ Windows/Linux virtual machines with SSD high OPS performance cache tier
Datacenter Infrastructure:
- UPS generator backed power with redundant cooling
- 3x40 Gbe dark fiber connection to off-site DR location
Network (100+ Gbe):
- Full non-oversubscribed 10/40 GbE datacenter network core layer
- BioScienceCT Research Network – 100 GbE to CEN, Internet2, Storrs
- New HPC Science DMZ – low latency, 80 Gb-capable firewall
Storage (5+ PB):
- 5.0+ PB of storage including 1.2 PB EMC2 Isilon, 600 TB Qumulo QC24/QC208 scale-out clusters along with 3.8 PB Amplistor geo-spread cloud storage

Software

Software available on the clusters are freely available for use. Users must be comfortable in a Unix environment and understand how to properly submit jobs. For more information on available software, please see here.

Specifications

Available Software Types:

Annotation/Sequence Search
Chip-Seq
Genome Assembly
Metagenomics
Molecular Structure
Multiple Sequence Aligners
Phylogenetics
Population Genetics
Proteomics
RAD-Seq
Repeat Analysis
RNA-Seq
Sequence Clustering
Sequence File Manipulation/Quality Control
Sequence Submission
Short Read Aligners
Statistical Packages
Transcriptome Assembly
Variation Detection
Visualization Tool

Databases

The NCBI BLAST databases are updated on a biweekly basis and available to users with an account on the cluster. For more information on available databases, please see here.

Services and Rates

Education and Tutorials

Staff provide training and consultation in the use of bioinformatics tools at no charge. Current education opportunties are described here. For a list of available tutorials, please see here.

Other Services

Research collaboration
Project design and data analysis consultation
Bioinformatics support for next generation sequencing
Software development
Data analysis services (https://bioinformatics.uconn.edu/cbc_rates/)

Campus Address

Engineering and Science Building
Room 206D
Storrs Campus

Mailing Address

67 North Eagleville Road, Unit 3258
Storrs, CT 06269-3258 USA

Computational Biology Core (CBC)

Computational Biology Core (CBC)

Contacts

General Contact

Staff

Jill Wegrzyn, Ph.D.

Associate Professor and CBC Director

Vijender Singh, Ph.D.

Lead Bioinformatics Scientist/Associate Director (UCH)

Noah Reid, Ph.D.

Research Assistant Professor/Bioinformatics Scientist

Mia Nahom

Bioinformatics Technician

Stephen King

Senior Systems Administrator

Michael Wilson

Infrastructure Architect

Instrumentation

Hardware

Software

Databases

Services and Rates

Education and Tutorials

Other Services

Campus Address

Mailing Address