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Useful information |
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21/03/2024 |
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12780 |
21/03/2024 |
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Measurement uncertainty |
This page provides the output of a working group of the EURLs for Campylobacter, Coagulase Positive Staphylococci and Listeria monocytogenes
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13/01/2023 |
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11543 |
08/09/2022 |
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HOW-TO TRANSFER YOUR SEQUENCES TO THE EURL? |
The EURL proposes to upload your data on our FTP server.
Recommanded FTP sofware: FileZilla
Credentials:
Protocol: FTP File Transfer Protocol
Host: swiftp.anses.fr Port: 21
Encryption: Require implicit FTP over TLS
Logo Type: Normal
User : ftp-staphylocoques
Password: Sta-125-5MUvNkSvGkY
Tutorial:
From your computer files (left panel) drag and drop the files in the FTP directory (right panel).
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13/04/2022 |
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11259 |
12/04/2022 |
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Starflow : online service for the analysis of WGS datasets from S. aureus |
Get the user guide: link
This service allows to characterise the strains you have found in outbreak investigation, surveillance and/or research activities providing:
assembly with quality criterion
MLST typing
Staphylococcal Enterotoxin profile
cgMLST typing
Process:
1. collect your sequences
2. fill out the transfer form
3. create the zip file
4. upload your NGS data
5. StarFlow pipeline
6. Report provided online
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21/05/2024 |
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9579 |
14/04/2020 |
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How-to transfer your sequences to the EURL? |
The EURL proposes to upload your data on our FTP server.
Recommanded FTP sofware: FileZilla
Credentials:
host: swiftp.anses.fr
login: ftp-eurllmsup
password: 9CMNHgFMKbQH3OITWT2c
port: 21
Tutorial:
From your computer files (left panel) drag and drop the files in the FTP directory (right panel).
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25/02/2020 |
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9499 |
25/02/2020 |
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CPS Calendar |
2025:
19th June: 16th meeting of the Inter EURLs WG on NGS
17-18 June: Joint NGS training organised by the Inter EURLs WG on NGS at Maisons-Alfort
1-2 April: 19th Annual Workshop of EURL CPS
7th March: 10th meeting of the WG on typing methods
2024:
10th December: 15th meeting of the Inter EURLs WG on NGS
15th-16th October: EURL WGS training at the NRL in Slovenia
17th October: meeting of Inter EURLs WG on NGS guidance document on Quality Check of NGS data
26 June: 14th meeting of the Inter EURLs WG on NGS
25-26 June: Joint NGS training organised by the Inter EURLs WG on NGS at Uppsala
11-13 June: 18th Annual Workshop of EURL CPS
9 April: 9th meeting of the working group on typing methods
2023:
13 December: 13th meeting of the Inter EURLs WG on NGS
23 November: 8th meeting of the working group on typing methods
24-26 October: 17th Annual Workshop of EURL CPS
29 September: webinar on “Proficiency Tests on NGS: approaches in use at the European Union Reference Laboratories”
5-6 September: "Science meets Policy" conferences co-organised by EFSA and the Inter EURLs WG on NGS
30 June: 7th meeting of the working group on typing mehods
22 June: 12th meeting of the Inter EURLs WG on NGS
20-21 June : Joint NGS training organised by the Inter EURLs WG on NGS at Bilthoven
2nd March: meeting of the Inter EURLs WG on NGS - Discussion on Proficiency Tests
21st February: launching of the inter-laboratory comparison on the wet lab of Whole Genome Sequencing within the Working group on typing methods
2022:
6th December: 11th meeting of the Inter EURLs WG on NGS in Bruxelles
25th October: 6th meeting of the EURLs WG on typing methods
20th -21th October: EURLs joint-training on measurement uncertainty
5th-6th October: EURL WGS training at the NRL in Hungary
26th September: PT on CPS enumeration
15th - 16th September EURL SE training: Italian project of implementation ELISA specific ES
5th and 6th September: Training session on EN ISO 19020
22nd June: 10th meeting of the Inter EURLs WG on NGS
13th-14th June: Joint NGS training in Rome organised by the Inter EURLs WG on NGS
30th May - 1 June: 16th workshop of the EURL/NRLs
27th April: 7th meeting of the WG 25 on ISO 23418 (WGS)
29th March: PT staphylococcal enterotoxins detection
3rd March: Inter EURLs WG on NGS meeting: organization of joint trainings
1st Fevrier : 5th meeting of the EURLs WG on typing methods
2021:
14th December: 9th Inter EURLs WG on NGS meeting
18th October: PT on the CPS enumeration
22nd October: 4th meeting of the EURLs WG on typing methods
4th October: 15th workshop of the EURL/NRLs (enumeratio and typing)
30th June: I8th nter EURLs WG on NGS meeting
13th April: 6th meeting of the WG 25 on ISO 23418 (WGS)
4th May: 15th workshop of the EURL/NRLs
2020:
PT on the detection of staphylococcal enterotoxin
26-28 June: workshop of the EURL/NRLs
2019:
PT on the detection of staphylococcal enterotoxin
26-28 June: workshop of the EURL/NRLs
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14/05/2025 |
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7438 |
12/12/2018 |
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Enumeration |
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20/12/2024 |
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4016 |
10/04/2015 |
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CPS Characterisation |
Detection of Staphylococcal enterotoxins (SE): list, sequence of se genes, sequence of SE proteins
WGS pipeline:
1- StarFlow
2- Galaxy Workflow 1
Whole genome sequencing (WGS) protocols and methods:
Recommendations for WGS wet lab and dry lab methods
Protocol for manual DNA extraction and semi automated DNA extraction
Protocol for Illumina library preparation on a Miseq
Comparison of WGS with classical typing methods (Vingadassalon et al 2024)
SNP threshold for the analysis of CPS outbreaks (Duchez et al 2025)
Genomic analysis tool for the detection of enterotoxins coding genes (NAuRA - Merda et al 2019)
Conventional multiplex PCR (sea to see and ser and seg to sej and sep)
Multiplex RT-PCR: LSA-INS-1294
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13/06/2025 |
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3992 |
03/04/2015 |
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Extraction by dialysis concentration step |
Step by step
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29/01/2015 |
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3691 |
29/01/2015 |
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Working areas |
Bacterial Detection enumeration (soon)
Staphylococcal enterotoxins
Characterisation (soon)
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22/10/2014 |
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3398 |
22/10/2014 |
