Main projects defined in the Campylobacter jejuni/coli isolates database
| Project id | Short description | Full description | Isolates | Browse |
|---|---|---|---|---|
| 1 | Oxfordshire Human Surveillance |   This isolate is part of the sentinel surveillance scheme for human Campylobacteriosis in Oxfordshire which is a collaborative project between The Wellcome Trust Sanger Institute and The University of Oxford, funded by The Department for Environment, Food and Rural Affairs and The Food Standards Agency. Use of Oxfordshire sentinel surveillance data must be cited in any publication or presentation making use of it. | 9705 | |
| 5 | Oxfordshire Human Surveillance YR1 | 929 Yr1 WGS isolates with complete MLST profiles | 937 | |
| 9 | Oxfordshire Human Surveillance YR2 | DEFRA/FSA Oxfordshire human surveillance isolates. | 865 | |
| 10 | FS101013 PHE Historical isolates 1997-98 | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains UK historical clinical isolates obtained between 1997 - 1998. | 479 | |
| 14 | Oxfordshire Human Surveillance YR3 | 875 | ||
| 18 | Oxfordshire Human Surveillance YR1_dedup | 879 | ||
| 20 | Oxfordshire Human Surveillance YR2_dedup | DEFRA/FSA Oxfordshire Human Surveillance Year 2 isolates_de-duplicated | 847 | |
| 21 | Oxfordshire Human Surveillance YR3_dedup | DEFRA/FSA Oxfordshire Human Surveillance Year 3 isolates_de-duplicated | 830 | |
| 22 | Oxfordshire Human Surveillance YR4 | DEFRA/FSA Oxfordshire human surveillance isolates July 2014 - June 2015 | 721 | |
| 24 | Oxfordshire Human Surveillance YR4_dedup | DEFRA/FSA Oxfordshire human surveillance isolates July 2014 - March 2015 de-duplicated | 499 | |
| 25 | C. jejuni attribution dataset | C. jejuni isolates for attribution analyses. | 9373 | |
| 26 | C. coli Attribution dataset | C. coli isolates for attribution analyses. | 4020 | |
| 28 | Oxfordshire FSA Human Surveillance | This isolate is part of the Food Standards Agency funded project for enhanced molecular-based (MLST/wgMLST) surveillance and source attribution of human Campylobacter, in the UK. | 1718 | |
| 29 | FSA Campylobacter coli | Food Standards Agency funded project for generating tools for the molecular epidemiology of Campylobacter coli by next generation genome sequencing | 506 | |
| 31 | FS101013 Chicken carcass isolates | This project is part of the UK Food Standards Agency funded project FSA-FS101013. Chicken carcass isolates collected at abattoir. | 1078 | |
| 34 | FS101013 Chicken caecal pool isolates | This project is part of the UK Food Standards Agency funded project FSA-FS101013. Pooled chicken caecal isolates collected at abattoir. | 334 | |
| 38 | FS101013 pig abattoir survey | This project is part of the UK Food Standards Agency funded project FSA-FS101013. Pig abattoir isolates. | 78 | |
| 39 | FS101013 NWC Human Surveillance Yr1 | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains all clinical isolates from Newcastle and North Tyneside, obtained between October 2015 - September 2016. | 916 | |
| 40 | FS101013 OXC Human Surveillance Yr1 | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains all clinical isolates from Oxfordshire, obtained between October 2015 - September 2016. | 461 | |
| 41 | FS101013 NWC Human Surveillance Yr1 dd | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains clinical isolates from Newcastle and North Tyneside, obtained between October 2015 - September 2016, from which patient replicate samples have been excluded. | 887 | |
| 42 | FS101013 OXC Human Surveillance Yr1 dd | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains clinical isolates from Oxfordshire, obtained between October 2015 - September 2016, from which patient replicate samples have been excluded. | 441 | |
| 46 | FS101013 NWC Human Surveillance Yr2 | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains all clinical isolates from Newcastle and North Tyneside, obtained between October 2016 - September 2017. | 804 | |
| 47 | FS101013 NWC Human Surveillance Yr2 dd | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains clinical isolates from Newcastle and North Tyneside, obtained between October 2016 - September 2017, from which patient replicate samples have been excluded. | 776 | |
| 48 | FS101013 OXC Human Surveillance Yr2 | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains all clinical isolates from Oxfordshire, obtained between October 2016 - September 2017. | 618 | |
| 49 | FS101013 OXC Human Surveillance Yr2 dd | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains clinical isolates from Oxfordshire, obtained between October 2016 - September 2017, from which patient replicate samples have been excluded. | 588 | |
| 52 | FS101013 Retail Food Isolates | This project is part of the UK Food Standards Agency funded project FSA-FS101013. Isolates from retail chicken, duck, turkey, beef or lamb offal or meat. | 835 | |
| 53 | FS101013 NWC Human Surveillance Yr3 | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains all clinical isolates from Newcastle and North Tyneside, obtained between October 2017 - September 2018. | 828 | |
| 54 | FS101013 NWC Human Surveillance Yr3 dd | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains clinical isolates from Newcastle and North Tyneside, obtained between October 2017 - September 2018, from which patient replicate samples have been excluded. | 808 | |
| 55 | FS101013 OXC Human Surveillence Yr3 | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains all clinical isolates from Newcastle and North Tyneside, obtained between October 2017 - September 2018. | 640 | |
| 56 | FS101013 OXC Human Surveillance Yr3 dd | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains clinical isolates from Oxfordshire, obtained between October 2017 - September 2018, from which patient replicate samples have been excluded. | 621 | |
| 64 | FS101013 OXC Human Surveillance 2006-07 | This project is part of the UK Food Standards Agency funded project FSA-FS101013. Clinical isolates from Oxfordshire human surveillance between mid-September 2006 and mid-September 2007. | 568 | |
| 66 | FS101013_Ccoli_attribution_ref_dataset | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains reference C. coli isolates from poultry, ruminants and pigs for clinical source attribution. | 3521 | |
| 67 | FS101013_Cjejuni_attribution_ref_dataset | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains reference C. jejuni isolates from chicken, ruminants and wild birds for clinical source attribution. | 7715 | |
| 68 | FS101013_Ccoli_isolates_for_attribution | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains clinical C. coli isolates from 2015-2018 for attribution to probable source. | 399 | |
| 69 | FS101013_Cjejuni_isolates_forattribution | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains clinical C. jejuni isolates for attribution to probable source. | 3885 | |
| 70 | FS101013_OXC_Long_Ccoli | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains Oxfordshire clinical C. coli isolates from 2003 - 2018, for attribution to probable source. | 922 | |
| 71 | FS101013_OXC_Long_Cjejuni | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains Oxfordshire clinical C. jejuni isolates from 2003 - 2018, for attribution to probable source. | 8750 | |
| 72 | FS101013 OXC Human surveillance 2003-04 | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains all clinical isolates from Oxfordshire human surveillance between mid-September 2003 and mid-September 2004. | 447 | |
| 73 | FS101013 OXC Human surveillance 2003-4dd | This project is part of the UK Food Standards Agency funded project FSA-FS101013.The project contains all clinical isolates from Oxfordshire human surveillance between mid-September 2003 and mid-September 2004, from which patient replicate samples have been excluded. | 429 | |
| 74 | FS101013 OXC Human Surveillance2006-07dd | This project is part of the UK Food Standards Agency funded project FSA-FS101013. Clinical isolates from Oxfordshire human surveillance between mid-September 2006 and mid-September 2007, from which patient replicate samples have been excluded. | 552 | |
| 75 | FS101013 OXC C.coli for attribution | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains clinical C. coli isolates from Oxfordshire between 2015-2018 for attribution to probable source. | 156 | |
| 76 | FS101013 OXC C. jejuni for attribution | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains clinical C. jejuni isolates from Oxfordshire between 2015-2018 for attribution to probable source. | 1590 | |
| 77 | FS101013 NWC C. coli for attribution | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains clinical C. coli isolates from Newcastle and North Tyneside between 2015-2018 for attribution to probable source. | 243 | |
| 78 | FS101013 NWC C. jejuni for attribution | This project is part of the UK Food Standards Agency funded project FSA-FS101013. The project contains clinical C. jejuni isolates from Oxfordshire between 2015-2018 for attribution to probable source. | 2295 | |
| 79 | FS101013 PubMLST WGS C. coli isolates | This project is part of the UK Food Standards Agency funded project FSA-FS101013. Genome sequenced C. coli isolates from animals and foods to develop a whole genome sequence reference database from important sources of human infection | 1323 | |
| 80 | FS101013 PubMLST WGS C. jejuni isolates | This project is part of the UK Food Standards Agency funded project FSA-FS101013. Genome sequenced C. jejuni isolates from animals and foods to develop a whole genome sequence reference database from important sources of human infection | 4944 | |
| 102 | ML to predict source of C. jejuni | Project associated with the publication "Machine learning to predict the source of campylobacteriosis using whole genome data." | 20314 | |
| 106 | Third yr practical: final dataset | This project contains deduplicated clinical isolates from Oxfordshire, Newcastle and North Tyneside, retail food isolates from 2015-2018, and PHE historical clinical isolates from 1997-1998. Funded by the UK Food Standards Agency. | 5435 | |
| 107 | Third yr practical: test dataset | This project contains deduplicated clinical isolates from Oxfordshire and Newcastle and North Tyneside from 2015-2016. Funded by the UK Food Standards Agency. | 1328 | |
| 110 | 1998_2018_UK_human_10359_Dessi_Project | UK Longitudinal Fluoroquinolone resistance study used these 10359 human_stool isolates which are Campylobacter jejuni, UK only, quality N50 of =20,000 total size 1.4 - 1.8Mb =50 contigs | 10359 |