After more than 15 years of NG6 use, we moved to NGL-Bi for data and quality control access. NGL-Bi is better suited for metadata management and will allow to make data submission easier. For sequencing runs done on GeT core facility since 01/01/2025, you can also access a tsv metadata file for ENA experiment on NGL-Bi.

We also change our data storage policy : all raw data produced by GeT core facility will be stored for only 3 months, after data releasing, for all projects. Depending on your project and the production date, there are different use cases :

• If you have a partnership project with GeT-PlaGe (data stored for 2 years after production), or you have a contract with Bioinfo GenoToul core facility to extend the storage period of your data on NG6 :
• If you don't plan to produce new data with GeT-PlaGe in the coming months : your data can stay on NG6. They will be erased at the end of the retention period.
• If you plan to produce new data with GeT-PlaGe in the coming months : after interaction with Bioinfo genotoul core facility, a project space will be created for you where we will move your data from NG6 (our own reponsability) and where you will be able to store new data copied from NGL-Bi, as of 01/01/2025. Contact for any question : ng6-support(at)groupes.renater.fr

• For all other projects
• Your data will be deleted 3 months after their release, from NG6 or from NGL-Bi

NG6 will be maintained until 12/31/2026.

You can access your username and change your password using this web interface.

Each user you defined at project creation are linked to your project. These persons have personal credentials to access NGL-Bi and can access data.

An email is automatically sent to all users linked to a project as soon as data is delivered after internal validation.

You can forward this email to other people so they can access your project data. Be aware that doing this gives access to all data produced for your project. It is not possible to share only a specific analysis.

When the library insert length is smaller than the sequencing read length, you can find the sequencing adapaters the end of your reads.

You can find the different sequencing adapters below :

• TruSeq Adapter - Read 1 : "GATCGGAAGAG-CACACGTCTGAACTCCAGTC"
• Illumina single End PCR Primer - Read 2 : "GATCGGAAGAG-CGTCGTGTAGGGAAAGAGTG"
• Nextera  transposase sequence - Read 1 : 5’ TCGTCGGCAGCGTC-AGATGTGTATAAGAGACAG
• Nextera  transposase sequence - Read 2 : 5’ GTCTCGTGGGCTCGG-AGATGTGTATAAGAGACAG

You can use cutadapt to remove the adapter sequences, specifying the following sequences : 

• Nextera index : CTGTCTCTTATACACATCT
• Illlumina Index : AGATCGGAAGAGC

Nanopore reads can contain adapters and barcodes, for multiplexed runs.

Dorado can help you remove these ones.

Check the sequencing kit name used for library preparation in ToulligQC or sequencing report at analysis level in NGL-Bi.

• SQK-LSK114 adapter sequences
• Top strand: 5'-TTTTTTTTCCTGTACTTCGTTCAGTTACGTATTGCT-3’
• Bottom strand: 5’-GCAATACGTAACTGAACGAAGTACAGG-3’
• SQK-NBD114-24 adapter sequences
• Top strand: 5'-TTTTTTTTCCTGTACTTCGTTCAGTTACGTATTGCT-3'
• Bottom strand: 5'-ACGTAACTGAACGAAGTACAGG-3'
• Barcode flanking sequences
• Forward sequence: 5' - AAGGTTAA - barcode - CAGCACCT - 3'
• Reverse sequence: 5' - GGTGCTG - barcode - TTAACCTTAGCAAT - 3'

You can find official information on https://nanoporetech.com/document/chemistry-technical-document#barcode-sequences.

Native Barcoding Expansion 1-12

Native Barcoding Expansion 13-24

Barcode flanking sequences

In addition to the barcodes themselves, the barcoding primers have additional flanking sequences, which add an extra level of context during analysis. The flanking sequences differ depending on the kit:

Native Barcoding Expansion 1-12 (EXP-NBD104) and Native Barcoding Expansion 13-24

5' - AAGGTT - barcode - ACAGCACCT - 3'

The data retention period is set to 3 months, after its validation.

You will receive a reminder email a month before your data exceed the retention limit.