1.     Submission of Email Enquiry

Please submit an email enquiry to the Massey Genome Service (MGS) regarding your project at mgs-Manager@massey.ac.nz. The enquiry provides the MGS service team with an outline of your project requirements, so the services can make informed decisions regarding your project design and requirements. Please include the following information in your email enquiry:

  • Client’s Name
  • PI Name
  • Client’s Organisation/Institute Name
  • Organisation/Institute paying for the Project (if different from Organisation/Institute)
  • Client’s phone number
  • Client’s email address
  • Additional client’s/contacts
  • Person who will be downloading the data when the project is completed
  • Project Title
  • Description of Project and Objectives – Aim of the project: What are the scientific aims of the project, and the desired outcomes? What do you want the data to tell you?
  • Request for project advise on: Sample requirements, platform choice, Data analysis
  • Experimental Plan (if known): Please describe the basic experimental plan including sample number, library type and number/type of Illumina MiSeq™ runs
  • Bioinformatics analysis required (Yes/No)
  • Do you require the Express Service or the Standard Service?

Express Service – Priority is placed on providing a faster turnaround time for the project. Data will be delivered to the client within 1-2 weeks, depending on the size of the project, from the date of delivery of the samples to the service. There is an additional 30% premium on the cost associated with the Express Service and this additional cost is stated in the Project Plan/Quotation for each project.

Standard Service – There is no priority placed on providing a fast turnaround time for the project. Data will be delivered to the client within 5-8 weeks, depending on the size of the project, from the date of delivery of the samples to the service.

You will receive an e-mail response back from the MGS Service Team within 2 working days regarding your enquiry. The service team may ask for more information to be supplied and a decision will be made as to the best approach to take for your project.

The MGS Service Team will put together a Project Plan and quotation and will email this through to you for review. Should you wish to proceed with the Project then please sign the Project Plan/Quotation and email this back to the MGS Service Team at mgs-manager@massey.ac.nz, along with an electronic copy of a Purchase Order (PO) for payment. You will need to raise the PO with your organization’s accounts department. For External Clients i.e. projects not funded by Massey University, the Project Plan and quotation will be accompanied by a Service Contract, which also needs to be signed, dated and an electronic copy returned to the MGS Service Team at mgs-manager@massey.ac.nz.

2.     Sample Preparation and Sample Quality Data Requirements

Upon acceptance of the Project Plan/Quotation (and Service Contract for External Clients) you will be asked to prepare your samples, and send data regarding the quality of your samples to the MGS. The service will assess the quality of your samples before you send them to the service. This is a preliminary check of sample quality. The service will also carry out sample QC checks when the samples arrive at the facility.

Please refer to the section "Sample Preparation, Quantification and Quality Requirements" for the quality data to supply and for details on determining the quality of your samples.

Please do NOT send your samples to MGS until you have been notified by MGS to do so. If your quality data does not meet the standards for sample quality you will be informed on procedures to take to improve the quality of your samples.

3.     Sample Delivery

You will be asked via e-mail to send your samples by courier to MGS on dry ice for RNA samples or ice packs for DNA samples. If you are local to the service you are welcome to hand deliver your samples. You will be e-mailed a copy of the “Sample Submission Form”, which must be completed, and a printed copy sent with your samples and electronic copy sent via email to mgs-manager@massey.ac.nz.

Please refer to "Sample Delivery Information" for instructions on how your samples should be sent.

4.     Sample Quality Assessment and Report

When the samples arrive at the MGS, a quality and quantification assessment will be carried out on the samples, before the service proceeds with the library preparation.

Please refer to "Sample and Library QC Checks Performed by the Service" for details on quality and quantification assessment MGS disclaimer, which will state why your samples do not meet our quality standard. This document MUST be signed and return to MGS via email at mgs-manager@massey.ac.nz, authorizing the service to either continue or not to continue with library preparation on the samples. You will incur the cost of the sample quality assessment whether or not you decide to continue. Should your samples meet the services quality standard, then the service will continue with the library preparation.

 

5.     Library Preparation

MGS will proceed with the preparation of your libraries. Once the libraries have been prepared, a quality and quantification assessment will be carried out on the libraries, before the service proceeds with the sequencing of the libraries.

Please refer to "Sample and Library QC Checks Performed by the Service" for details on quality and quantification assessment of the libraries. If the libraries do not meet our quality standards you will be sent a “Library Quality Report” containing an MGS disclaimer, which will state why your libraries do not meet our quality standards. This document MUST be signed and return to MGS via email at mgs-manager@massey.ac.nz, authorizing the service to either continue or not to continue with the sequencing of the libraries. You will incur the cost of library preparation whether or not you decide to continue. Should your libraries’ meet the services quality standard, then the service will continue with the library preparation.

 

6.     Sequencing of Libraries

The MGS will carry out the sequencing of the libraries once you send authorization to MGS to do so. The run quality is monitored in real-time, which monitors signal intensities, base quality scores, fluidics and imaging. Analysis is performed during the run to save on downstream analysis time. Primary analysis generates quality-scored base calls from the raw image files, which contain base calls per cycle.

Please refer to "Sample Preparation, Quantification and Quality Requirements" for Illumina MiSeq instrument run specifications and quality standards.

 

7.     Data Delivery

Data is delivered to you in a hard drive via overnight courier service along with a “Sequencing Run Report” and “Data Quality Report” containing the following:

- Sample quality information

- Library quality information

- Illumina MiSeq™ run quality

- Data quality information

The data is delivered in fastq format and the sequencing reads are quality trimmed to 0.01 probability.

Please note, data will NOT be delivered to customers until a PO has been received by MGS for payment.

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