A fee of $75 will be charged to retrieve your data. We keep backups of data for six months so if you lose your USB or delete your BaseSpace run within this time frame, we will likely have a backup copy. You need to open an account using your email and include the email address in your service request form. Why am I having trouble accessing my data on Basespace? For an additional cost, you may request the data also be transferred to a USB.ĥ. Are the indices removed from the FASTQ files?Īll sequencing project data will be transferred on Illumina’s BaseSpace website. The FASTA file for this mock can be found in a downloadable file below.ģ. This mock community can be used for error analysis (see: Mothur Wiki). The mock community used is commercially produced ZymoBIOMICS Microbial Community DNA Standard (cat# D6306), which is a mixture of genomic DNA extracted from pure cultures of eight bacterial and two fungal strains. What is the Mock control and why do I need it? Touchdown is a great tool for low biomass samples, but should used with caution as any trace amounts of 16S will amplify including that in the negative controls.ġ. Additionally, after 20 rounds of touchdown PCR, another 20 rounds of standard PCR are performed. This increases specificity and sensitivity in PCR amplification as described here. The touchdown program is modified from the standard program as the initial annealing temperature is higher than the optimal Tm of the primers and is gradually reduced over subsequent cycles until the Tm temperature or “touchdown temperature” is reached. What is touchdown PCR and how does it differ from standard PCR? If quantifying the sample, please use a fluorescence-based assay such as Picogreen and not the Nanodrop.Ĥ. On the plus side, you will receive more coverage of those samples than if you submitted a full plate. Yes, if you do not have an entire plate you are still responsible for the cost of the entire plate. Do I have to pay for an entire plate if I am submitting less? However, this cannot be guaranteed as many factors can influence average reads/sample.Ģ. What are your average reads per sample?įor samples that have amplified well, the average is 20K reads per sample on the Nano 500v2 flowcell and 15-20K per sample on the standard 500v2 flowcell. By initiating your order through the MMPC, your submission ensures continued financial support for the Core services our lab provides. The MMPC is a NIH-sponsored resource that provides experimental testing services to scientists studying diabetes, obesity, diabetic complications, and other metabolic diseases in mice. We are part of the National Mouse Metabolic Phenotyping Centers (MMPC). Why am I asked if I do metabolic mouse work on the submission form? Yes, please find plate map in downloads below.ĩ. Do you have a template for the plate map I need to submit electronically? This kit is a great option for clients submitting a single plate.Ĩ. It yields fewer reads (~1.5 Million reads vs the full 500v2 kit’s estimated 20 Million reads), but this output is enough for data analysis. The MiSeq Nano kit is a smaller version of the full 500-cycle Illumina kit we use for 16S rRNA gene sequencing. There is a surcharge for external clients. Can I use your services if I am not affiliated with the University of Michigan? It is best practice to submit an aliquot of your DNA for submission and keep a set for yourself.Ħ. We are not responsible for DNA that was not claimed and disposed after the grace period. For internal clients, please pick up DNA when receiving your USB containing the data. If you are an external client and have sent in samples for DNA extraction, we will ship your DNA back at cost to you. We will keep DNA for 60 days after submission samples will be disposed after this period. How long will you keep my DNA (submitted or extracted)? Please consult this User Help Guide to sign up for a MiCores account.ĥ. External clients are asked to use our Qualtrics survey. Internal clients can login to your MiCores account and fill out a service request. What is the process for an internal or external submission? Yes, please refer to the relevant service’s page for links to detailed instructions.ģ. Are there protocols I can follow to prepare my samples for submission/shipping? Yes, we will ask whether you would like us to troubleshoot your samples. If some of my samples fail to amplify can the lab try other conditions to improve amplification?
0 Comments
Leave a Reply. |
AuthorWrite something about yourself. No need to be fancy, just an overview. ArchivesCategories |