NGI Sweden Order Portal

NGI Sweden Order Portal

This portal is for submitting orders for services provided by the National Genomics Infrastructure Sweden (NGI). To make an order, please log in and choose the application most suitable for your project. If uncertain about the choice of technology, please select the “Request a meeting” option. You can read more about the different technologies and How to place an order under "Information" in the menu at the top of the page.

Projects from other countries are admissible, but have lower priority than projects performed by researchers based in Sweden. Depending on the queue situation, NGI may decide to decline a non-Swedish project altogether.

Status Turn Around Times and Status for the Stockholm node.

Request a meeting

If you are unsure about the appropriate method for your scientific problem, request a meeting for a discussion with us.

Illumina Sequencing

Order form for Illumina sequencing.

Ion Sequencing

Order form for sequencing by Ion Proton or Ion S5XL.

PacBio Sequencing

Order form for PacBio sequencing. This is available only at the NGI Uppsala UGC node.

Genotyping and array-based epityping

Order form for genotyping and DNA methylation analysis using the Illumina EPIC beadchip.

SciLifeLab offers funding for national genomics studies (2017-04-26)

SciLifeLab welcomes applications for Swedish research projects based on next generation DNA sequencing. In total, this third call will provide 30 million SEK in support for sequence analysis of unique and well-characterized sample collections to study either the genetic basis of disease or environmental effects on biodiversity.

Please go to this link for further instructions on how to apply.

Illumina NeoPrep system is being discontinued (2017-03-28)

Earlier this year Illumina informed us that the NeoPrep library preparation system will be discontinued (PDF). This method has been in use at the NGI Stockholm facility during the last couple of years and is now being replaced by other methods.

The Lucigen prep is still in the process of being validated but we feel confident it will be a good replacement for both the NeoPrep system and eventually also the regular PCR-free prep (Illumina TruSeq).

Illumina lowers the minimum average coverage requirements for HiSeqX to 15X (2017-01-12)

Illumina has recently updated the Special Conditions of Sale applicable to their HiSeqX instruments. The new Special Conditions lowers the requirements for average depth of coverage and now permits whole genome sequencing (WGS) and bisulphite sequencing down to an average depth of 15X coverage or greater.

The HiSeqX instruments are for many projects at NGI the most affordable Illumina instruments for WGS and bisulphite sequencing since it produces on average over 120 Gb of data per lane. However, many projects have been restricted by the previous conditions that WGS and bisulphite sequencing, of a sample isolated from a single species, had to reach an average depth of coverage of 30X or greater. The new requirements of 15X coverage or greater is therefore a substantial reduction which will make HiSeqX to an even more affordable and attractive alternative for many of our users.

The change applies from January 10 and onwards. Please contact one of our NGI project coordinators for further information and prices.

Christmas Holiday Period 2016 (2016-11-22)

Orders submitted after December 14 will not be processed until after the holiday break. Sample submission will be closed during the following period:

  • NGI Stockholm, Thursday 22 December - Friday 6 January
  • NGI Uppsala, Monday 17 December – Friday 6 January
The first map of genetic variation in Sweden (2016-10-20)

The first map of genetic variation in Sweden has now been presented. The results are based on whole genome DNA sequencing of 1 000 individuals, selected to cover the variation in the whole country. Thanks to this Sweden now has a national resource, which will facilitate research and diagnostics of genetic diseases. Project leader is Ulf Gyllensten, director of NGI Uppsala (Uppsala Genome Center), Uppsala University and the whole genome sequencing was performed at NGI Stockholm and NGI Uppsala (SNP&SEQ Technology Platform). You can read more about this new national resource at the SciLifeLab website

Current status for Stockholm node of NGI Sweden (2016-09-12)

The current status of operations can now be viewed in a graphical display. See the link in the text on the upper right of this page.

Project information updates (2016-07-06)

Several items of information are now updated in the orders. This includes project id, project name, and status which are fetched daily from the internal systems at the Stockholm node.

Phil Ewels' MultiQC tool published (2016-06-17)

"We present MultiQC, a tool to create a single report visualising output from multiple tools across many samples, enabling global trends and biases to be quickly identified. MultiQC can plot data from many common bioinformatics tools and is built to allow easy extension and customization." The paper (Open Access) is here and the documentation for the software (Open Source) is here.

Invoice address filled in automatically (2016-05-23)

If you set the invoice address and reference for your account, it will now automatically be filled in for any order you create. This does not apply to orders you clone; the information from the old order is used in that case.

Current best practice for de novo genome analysis (2016-05-20)

NGI Sweden and NBIS have created a document describing current best practice for de novo genome analysis. See the Documents page.

2017-05-11 The NGI Symposium series: Metagenomics, Metabarcoding and eDNA

- How NGS technologies can be used to study past and present biodiversity and as a tool for environmental monitoring

Time and place: May 11, 2017, BMC, Uppsala
Theme: Metagenomics, Metabarcoding and eDNA

It is with a great pleasure we announce the date and theme of this spring National Genomics Infrastructure (NGI) symposium serie.

Through theme-based half-day symposiums, NGI aims to provide researchers in Sweden the opportunity to interact, meet experts, get inspired, and learn more about a broad range of Next Generation Sequencing (NGS) and genotyping technologies and how they can be applied within various fields of research.

During the sympsium you will also get the opportunity to listen to and meet with personnel from the NGI facilities.

The seminar is free of charge, but registration is binding. Please note that due to the limited number of seats registrations will be accepted on first come – first serve basis. Registration deadline is May the 5th.

For more information and to register for the event, please visit the NGI seminar series website:

NGI Sweden is hosted by Science for Life Laboratory (SciLifeLab). See the NGI pages at the SciLifeLab web site for more information.

NGI includes facilities established by profs Ulf Gyllensten (Uppsala), Ann-Christine Syvänen (Uppsala) and Joakim Lundeberg (Stockholm). The National Genomics Infrastructure (NGI) was launched January 1st 2013. It originates from the VR RFI infrastructure SNISS.

NGI is supported by SciLifeLab, the Swedish Research Council (Vetenskapsrådet, VR) and host universities (KI, KTH, SU, UU). In addition, the Knut and Alice Wallenberg Foundation (KAW) has provided funding for instruments and computational infrastructure.