Our Q&A sessions are every Thursday, from 2:00-4:00 pm (NA 2.226). If this time is not convenient for you, please contact us and we will set a meeting that better fits your schedule. Please do so ahead of time so we can be prepared for our meeting. If we are doing analysis for your data, please make it a priority to discuss as many details about your experiment with us as you can. Not every experiment follows general guidelines for analysis and we are confident that with more understanding of your research, we will be able to help you reach your goals.
The following should give you an idea of what our bioinformatics pipeline has been configured to. Of course, these can be changed as per the researcher’s needs. Please contact us for individual inquiries.
|
Species |
Experiment |
Genome version |
Provider |
|---|---|---|---|
|
Human |
Whole exome/genome |
b37 |
Broad/NCBI |
|
Human |
RNA-Seq/ChIP-Seq |
hg19 |
UCSC |
|
Mouse |
Whole exome/genome |
GRCm38 |
NCBI |
|
Mouse |
RNA-Seq/ChIP-Seq |
mm10 |
UCSC |
|
Rat |
RNA-Seq/ChIP-Seq |
rn5 |
UCSC |
|
Fly |
Whole genome/RNA-Seq/ChIP-Seq |
dm3 |
UCSC |
|
Zebrafish |
RNA-Seq/ChIP-Seq |
danRer7 |
UCSC |
|
Neurospora |
Whole genome |
NC12 |
Broad |
|
Yeast |
RNA-Seq/ChIP-Seq |
sacCer3 |
UCSC |
Yes we can. Please contact us for individual inquiries.
Data QC mapping and basic analysis are free of charge if it is generated in the McDermott Sequencing core and within the scope of our standard pipeline. If custom analysis is needed, we can negotiate on a per sample, per project, hourly or collaborative basis depending on your needs.
If the data only needs basic analysis, please allow up to 1 week. We try not to rush the data as they need to go through a rigorous QC benchmark. If you are under a time crunch, please contact us and we will try our best to expedite the processing.
If you are part of the UTSW network, the data can be downloaded/viewed from the link that we send you.
In such cases, either an FTP link can be provided or a hard drive can be shipped to your location.
Your data and links are stored for one month in our storage. It is imperative that you copy the data during this time. We will send out an e-mail when your data is ready and another one before your data expires to make sure that you are aware of this.
This is usually the case. During submission of your samples, please be specific that only raw data is needed.
Your demultiplexed raw data is in gzipped FASTQ format. The qualities are encoded in Sanger format (Q33/Illumina 1.9).
Such requests need to be arranged with the sequencing core itself.
We allow at 0 mismatch during demultiplexing of the data.