Wednesday Mar 12, 2014
Mission and Goal
The Bioinformatics Facility at KUMC serves as a
resource for providing expert and timely bioinformatics consulting and data
analysis solutions. The Facility offers services to investigators both within
and outside KUMC on both grant-funded and chargeback-based projects for
management and analysis of large-scale biological datasets produced by
high-throughput genomics experiments.
The Facility’s primary goal is to identify opportunities and implement solutions for managing, visualizing, analyzing, and interpreting genomic data, including studies of gene expression (RNA-seq and microarrays), pathway analysis, protein-DNA binding (e.g. ChIP-seq), DNA methylation, and DNA variation, using high-throughput platforms in both human and model organisms.
The Bioinformatics Facility is a cost-recovery operation. We
will work with the investigator to find a funding model that works best for
each individual lab or center/department. Funding options include:
Model 3: Research Collaboration – Bioinformatics Facility
Personnel on Grants
Authorship and Attribution
A frequently asked question is whether research methodology consultants should be co-authors on scientific papers. Decisions about authorship should be independent of consideration of funding sources. As recommended in published guidelines (Parker & Berman: Criteria for authorship for statisticians in medical papers. Statistics in Medicine 17: 2289-2299), "The basis of financial support should be the time/effort spent on a project and the basis for authorship should be whether [the consultant] has made a scientific contribution to the project." If appropriate, it is often beneficial to include bioinformaticians as authors in publications since those are considered as the most critical evidence of long-term bioinformatics collaborations in most current grant funding reviews.
By JAMA's criteria for authorship for statistical
experts involved in data analysis and interpretation, an analytical consultant
is a co-author if (1) he/she took part in the drafting of the manuscript or (2)
he/she was involved in a critical revision of the manuscript for important
1. Facility staff develop new methods to meet the project's needs, or combine existing techniques in a novel way.
2. Facility staff have a significant role in designing the study.
3. Facility staff write part of the manuscript other than a standard paragraph or two describing which methods were used.
4. Facility staff are asked to critique an initial draft and spend a considerable amount of time suggesting alternative wording and presentation of results.
5. Facility staff provide data analysis along with biological interpretation of results.
All Next Generation Sequencing data will be held in KUMC Facility storage for the duration of active analysis. Thereafter data will be subject to deletion. It is the responsibility of the investigator to ensure that copy of data is preserved for the future analysis.
All microarray data is maintained on MDMS (http://bioinformatics.kumc.edu/mdms). However, it is recommended that investigators maintain copies of the data.
Terms and Conditions
Payment. Client agrees to pay for any services in
accordance with the agreement. The bioinformatics Facility requires payment
arrangements be made before any services are performed, and for payment to be
completed upon results are released. Unless otherwise specified by the KUMC
Bioinformatics Facility, all payments are due and payable within thirty (30)
days of the date of the invoice. Payment shall be deemed late if not received
within such time and shall be subject to interest equal to 2% per month, together
with all costs and expenses (including without limitation reasonable attorneys'
fees and disbursements and court costs) incurred by the KUMC Bioinformatics Facility
in collecting such overdue amounts.
Copyright (c) 2014