The Computational Biology Consulting Core (CBCC) was created to offer state-of-the-art computational biology services to biomedical researchers at the Johns Hopkins University. The Core is under the direction of Steven Salzberg and managed by Liliana Florea. It builds on the expertise of faculty in the Center for Computational Biology, using best practices and the latest validated technologies to design solutions targeted to researchers' needs.
We offer comprehensive analyses of sequencing data for a variety of genomics and other sequencing-based experiments, some of which are listed below. We can handle most types of sequencing data, including Illumina, PacBio, 454, and Sanger reads, and we have experience with a variety of sequencing protocols (RNA-seq, Chip-seq, whole-genome sequencing, whole-exome sequencing, etc). We use the very latest software, and we can work with you to design custom algorithms and analyses as needed.
Examples of analyses:
- transcriptome assembly (RNA-seq)
- genome assembly
- sequence alignment
- differential expression
- ChIP-seq analysis
- comparative genomics
- copy number variation
- SNP and structural variant detection
- 16S RNA analysis
- microbiome (metagenomic) sequence analysis
For all projects, we can arrange to transfer the data directly from the sequencing facility to our computers. We handle all data storage and computing needs, and we send you results of all analyses.
Prices for individual projects will depend on the size and demands of the project, including the need for designing custom solutions. While we cannot estimate the needs for each type of analysis, some examples are listed below. Please contact us for a more specific solution and pricing for your project. If you are preparing a grant proposal, please allow at least one week for a custom quote and to discuss your specific needs and analyses.
Examples (note that these are estimates based on typical projects):
- Small RNA-seq project: 2 samples, 60 million reads each - $2,080
- Medium RNA-seq project: 6 samples, 100 million reads each - $4,940
- Large RNA-seq analysis: 20 samples, 150 million reads each - $21,450
An RNA-seq project typically involves read mapping and quality control, transcript assembly and quantitation, and computation of differential expression for all genes. We also identify novel splice variants and differential expression of splice variants.
For more information or to submit a request for analytical services please contact:
Liliana Florea, Ph.D.
Faculty Manager, CBCC
McKusick-Nathans Institute of Genetic Medicine
1900 E. Monument St., Welch Medical Library 113
Johns Hopkins University School of Medicine
Baltimore, MD 21205