Items where Author is "Coll, F"
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Number of items: 31.
2018
Coll, F;
Phelan, J;
Hill-Cawthorne, GA;
Nair, MB;
Mallard, K;
Ali, S;
Abdallah, AM;
Alghamdi, S;
Alsomali, M;
Ahmed, AO;
+41 more...
Portelli, S;
Oppong, Y;
Alves, A;
Bessa, TB;
Campino, S;
Caws, M;
Chatterjee, A;
Crampin, AC;
Dheda, K;
Furnham, N;
Glynn, JR;
Grandjean, L;
Ha, DM;
Hasan, R;
Hasan, Z;
Hibberd, ML;
Joloba, M;
Jones-López, EC;
Matsumoto, T;
Miranda, A;
Moore, DJ;
Mocillo, N;
Panaiotov, S;
Parkhill, J;
Penha, C;
Perdigão, J;
Portugal, I;
Rchiad, Z;
Robledo, J;
Sheen, P;
Shesha, NT;
Sirgel, FA;
Sola, C;
Sousa, EO;
Streicher, EM;
Van Helden, P;
Viveiros, M;
Warren, RM;
McNerney, R;
Pain, A;
Clark, TG;
(2018)
Author Correction: Genome-wide analysis of multi- and extensively drug-resistant Mycobacterium tuberculosis.
Nature genetics.
ISSN 1061-4036
DOI: https://doi.org/10.1038/s41588-018-0074-3
Full text not available from this repository.
Coll, F;
Phelan, J;
Hill-Cawthorne, GA;
Nair, MB;
Mallard, K;
Ali, S;
Abdallah, AM;
Alghamdi, S;
Alsomali, M;
Ahmed, AO;
+41 more...
Portelli, S;
Oppong, Y;
Alves, A;
Bessa, TB;
Campino, S;
Caws, M;
Chatterjee, A;
Crampin, AC;
Dheda, K;
Furnham, N;
Glynn, JR;
Grandjean, L;
Minh Ha, D;
Hasan, R;
Hasan, Z;
Hibberd, ML;
Joloba, M;
Jones-López, EC;
Matsumoto, T;
Miranda, A;
Moore, DJ;
Mocillo, N;
Panaiotov, S;
Parkhill, J;
Penha, C;
Perdigão, J;
Portugal, I;
Rchiad, Z;
Robledo, J;
Sheen, P;
Shesha, NT;
Sirgel, FA;
Sola, C;
Oliveira Sousa, E;
Streicher, EM;
Helden, PV;
Viveiros, M;
Warren, RM;
McNerney, R;
Pain, A;
Clark, TG;
(2018)
Genome-wide analysis of multi- and extensively drug-resistant Mycobacterium tuberculosis.
Nature genetics.
ISSN 1061-4036
DOI: https://doi.org/10.1038/s41588-017-0029-0
Last, AR;
Pickering, H;
Roberts, CH;
Coll, F;
Phelan, J;
Burr, SE;
Cassama, E;
Nabicassa, M;
Seth-Smith, HMB;
Hadfield, J;
+7 more...
Cutcliffe, LT;
Clarke, IN;
Mabey, DCW;
Bailey, RL;
Clark, TG;
Thomson, NR;
Holland, MJ;
(2018)
Population-based analysis of ocular Chlamydia trachomatis in trachoma-endemic West African communities identifies genomic markers of disease severity.
Genome medicine, 10 (1).
p. 15.
ISSN 1756-994X
DOI: https://doi.org/10.1186/s13073-018-0521-x
2017
Ajileye, A;
Alvarez, N;
Merker, M;
Walker, TM;
Akter, S;
Brown, K;
Moradigaravand, D;
Schön, T;
Andres, S;
Schleusener, V;
+14 more...
Omar, SV;
Coll, F;
Huang, H;
Diel, R;
Ismail, N;
Parkhill, J;
de Jong, BC;
Peto, TE;
Crook, DW;
Niemann, S;
Robledo, J;
Smith, EG;
Peacock, SJ;
Köser, CU;
(2017)
Some synonymous and non-synonymous gyrA mutations in Mycobacterium tuberculosis lead to systematic false-resistance results to fluoroquinolones with the Hain GenoType MTBDRsl assays.
Antimicrobial agents and chemotherapy.
ISSN 0066-4804
DOI: https://doi.org/10.1128/AAC.02169-16
Coll, F;
Harrison, EM;
Toleman, MS;
Reuter, S;
Raven, KE;
Blane, B;
Palmer, B;
Kappeler, ARM;
Brown, NM;
Török, ME;
+2 more...
Parkhill, J;
Peacock, SJ;
(2017)
Longitudinal genomic surveillance of MRSA in the UK reveals transmission patterns in hospitals and the community.
Science translational medicine, 9 (413).
ISSN 1946-6234
DOI: https://doi.org/10.1126/scitranslmed.aak9745
Harrison, EM;
Coll, F;
Toleman, MS;
Blane, B;
Brown, NM;
Török, ME;
Parkhill, J;
Peacock, SJ;
(2017)
Genomic surveillance reveals low prevalence of livestock-associated methicillin-resistant Staphylococcus aureus in the East of England.
Scientific reports, 7 (1).
p. 7406.
ISSN 2045-2322
DOI: https://doi.org/10.1038/s41598-017-07662-2
Jamrozy, D;
Coll, F;
Mather, AE;
Harris, SR;
Harrison, EM;
MacGowan, A;
Karas, A;
Elston, T;
Estée Török, M;
Parkhill, J;
+1 more...
Peacock, SJ;
(2017)
Evolution of mobile genetic element composition in an epidemic methicillin-resistant Staphylococcus aureus: temporal changes correlated with frequent loss and gain events.
BMC genomics, 18 (1).
p. 684.
ISSN 1471-2164
DOI: https://doi.org/10.1186/s12864-017-4065-z
Ludden, C;
Reuter, S;
Judge, K;
Gouliouris, T;
Blane, B;
Coll, F;
Naydenova, P;
Hunt, M;
Tracey, A;
Hopkins, KL;
+4 more...
Brown, NM;
Woodford, N;
Parkhill, J;
Peacock, SJ;
(2017)
Sharing of carbapenemase-encoding plasmids between Enterobacteriaceae in UK sewage uncovered by MinION sequencing.
Microbial genomics, 3 (7).
e000114.
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000114
Nakatani, Y;
Opel-Reading, HK;
Merker, M;
Machado, D;
Andres, S;
Kumar, SS;
Moradigaravand, D;
Coll, F;
Perdigão, J;
Portugal, I;
+19 more...
Schön, T;
Nair, D;
Devi, KRU;
Kohl, TA;
Beckert, P;
Clark, TG;
Maphalala, G;
Khumalo, D;
Diel, R;
Klaos, K;
Aung, HL;
Cook, GM;
Parkhill, J;
Peacock, SJ;
Swaminathan, S;
Viveiros, M;
Niemann, S;
Krause, KL;
Köser, CU;
(2017)
Role of alanine racemase mutations in Mycobacterium tuberculosis D-cycloserine resistance.
Antimicrobial agents and chemotherapy.
ISSN 0066-4804
DOI: https://doi.org/10.1128/AAC.01575-17
Raven, KE;
Gouliouris, T;
Brodrick, H;
Coll, F;
Brown, NM;
Reynolds, R;
Reuter, S;
Török, ME;
Parkhill, J;
Peacock, SJ;
(2017)
Complex Routes of Nosocomial Vancomycin-Resistant Enterococcus faecium Transmission Revealed by Genome Sequencing.
Clinical infectious diseases, 64 (7).
pp. 886-893.
ISSN 1058-4838
DOI: https://doi.org/10.1093/cid/ciw872
Toleman, MS;
Watkins, ER;
Williams, T;
Blane, B;
Sadler, B;
Harrison, EM;
Coll, F;
Parkhill, J;
Nazareth, B;
Brown, NM;
+1 more...
Peacock, SJ;
(2017)
Investigation of a Cluster of Sequence Type 22 Methicillin-Resistant Staphylococcus aureus Transmission in a Community Setting.
Clinical infectious diseases.
ISSN 1058-4838
DOI: https://doi.org/10.1093/cid/cix539
2016
Harrison, EM;
Ludden, C;
Brodrick, HJ;
Blane, B;
Brennan, G;
Morris, D;
Coll, F;
Reuter, S;
Brown, NM;
Holmes, MA;
+5 more...
O'Connell, B;
Parkhill, J;
Török, ME;
Cormican, M;
Peacock, SJ;
(2016)
Transmission of methicillin-resistant Staphylococcus aureus in long-term care facilities and their related healthcare networks.
Genome medicine, 8 (1).
p. 102.
ISSN 1756-994X
DOI: https://doi.org/10.1186/s13073-016-0353-5
Phelan, J;
Coll, F;
McNerney, R;
Ascher, DB;
Pires, DE;
Furnham, N;
Coeck, N;
Hill-Cawthorne, GA;
Nair, MB;
Mallard, K;
+6 more...
Ramsay, A;
Campino, S;
Hibberd, ML;
Pain, A;
Rigouts, L;
Clark, TG;
(2016)
Mycobacterium tuberculosis whole genome sequencing and protein structure modelling provides insights into anti-tuberculosis drug resistance.
BMC medicine, 14 (1).
p. 31.
ISSN 1741-7015
DOI: https://doi.org/10.1186/s12916-016-0575-9
Phelan, JE;
Coll, F;
Bergval, I;
Anthony, RM;
Warren, R;
Sampson, SL;
Gey van Pittius, NC;
Glynn, JR;
Crampin, AC;
Alves, A;
+20 more...
Bessa, TB;
Campino, S;
Dheda, K;
Grandjean, L;
Hasan, R;
Hasan, Z;
Miranda, A;
Moore, D;
Panaiotov, S;
Perdigao, J;
Portugal, I;
Sheen, P;
de Oliveira Sousa, E;
Streicher, EM;
van Helden, PD;
Viveiros, M;
Hibberd, ML;
Pain, A;
McNerney, R;
Clark, TG;
(2016)
Recombination in pe/ppe genes contributes to genetic variation in Mycobacterium tuberculosis lineages.
BMC genomics, 17 (1).
p. 151.
ISSN 1471-2164
DOI: https://doi.org/10.1186/s12864-016-2467-y
Refrégier, G;
Abadia, E;
Matsumoto, T;
Ano, H;
Takashima, T;
Tsuyuguchi, I;
Aktas, E;
Cömert, F;
Gomgnimbou, MK;
Panaiotov, S;
+6 more...
Phelan, J;
Coll, F;
McNerney, R;
Pain, A;
Clark, TG;
Sola, C;
(2016)
Turkish and Japanese Mycobacterium tuberculosis sublineages share a remote common ancestor.
Infection, genetics and evolution, 45.
pp. 461-473.
ISSN 1567-1348
DOI: https://doi.org/10.1016/j.meegid.2016.10.009
Toleman, MS;
Reuter, S;
Coll, F;
Harrison, EM;
Blane, B;
Brown, NM;
Török, ME;
Parkhill, J;
Peacock, SJ;
(2016)
Systematic surveillance detects multiple silent introductions and household transmission of methicillin-resistant Staphylococcus aureus USA300 in the east of England.
The Journal of infectious diseases.
ISSN 0022-1899
DOI: https://doi.org/10.1093/infdis/jiw166
Toleman, MS;
Reuter, S;
Coll, F;
Harrison, EM;
Peacock, SJ;
(2016)
Local Persistence of Novel MRSA Lineage after Hospital Ward Outbreak, Cambridge, UK, 2011-2013.
Emerging infectious diseases, 22 (9).
pp. 1658-9.
ISSN 1080-6040
DOI: https://doi.org/10.3201/eid2209.151100
2015
Abdallah, AM;
Hill-Cawthorne, GA;
Otto, TD;
Coll, F;
Guerra-Assunção, JA;
Gao, G;
Naeem, R;
Ansari, H;
Malas, TB;
Adroub, SA;
+10 more...
Verboom, T;
Ummels, R;
Zhang, H;
Panigrahi, AK;
McNerney, R;
Brosch, R;
Clark, TG;
Behr, MA;
Bitter, W;
Pain, A;
(2015)
Genomic expression catalogue of a global collection of BCG vaccine strains show evidence for highly diverged metabolic and cell-wall adaptations.
Scientific reports, 5.
p. 15443.
ISSN 2045-2322
DOI: https://doi.org/10.1038/srep15443
Ali, A;
Hasan, Z;
McNerney, R;
Mallard, K;
Hill-Cawthorne, G;
Coll, F;
Nair, M;
Pain, A;
Clark, TG;
Hasan, R;
(2015)
Whole Genome Sequencing Based Characterization of Extensively Drug-Resistant Mycobacterium tuberculosis Isolates from Pakistan.
PloS one, 10 (2).
e0117771.
ISSN 1932-6203
DOI: https://doi.org/10.1371/journal.pone.0117771
Coll, F;
McNerney, R;
Preston, MD;
Guerra-Assunção, JA;
Warry, A;
Hill-Cawthorne, G;
Mallard, K;
Nair, M;
Miranda, A;
Alves, A;
+9 more...
Perdigão, J;
Viveiros, M;
Portugal, I;
Hasan, Z;
Hasan, R;
Glynn, JR;
Martin, N;
Pain, A;
Clark, TG;
(2015)
Rapid determination of anti-tuberculosis drug resistance from whole-genome sequences.
Genome medicine, 7 (1).
p. 51.
ISSN 1756-994X
DOI: https://doi.org/10.1186/s13073-015-0164-0
Guerra-Assunção, J;
Crampin, A;
Houben, R;
Mzembe, T;
Mallard, K;
Coll, F;
Khan, P;
Banda, L;
Chiwaya, A;
Pereira, R;
+5 more...
McNerney, R;
Fine, P;
Parkhill, J;
Clark, T;
Glynn, J;
(2015)
Large-scale whole genome sequencing of M. tuberculosis provides insights into transmission in a high prevalence area.
eLife, 4.
ISSN 2050-084X
DOI: https://doi.org/10.7554/eLife.05166
Kanji, A;
Hasan, Z;
Ali, A;
McNerney, R;
Mallard, K;
Coll, F;
Hill-Cawthorne, G;
Nair, M;
Clark, TG;
Zaver, A;
+2 more...
Jafri, S;
Hasan, R;
(2015)
Characterization of genomic variations in SNPs of PE_PGRS genes reveals deletions and insertions in extensively drug resistant (XDR) M. tuberculosis strains from Pakistan.
International journal of mycobacteriology, 4 (1).
pp. 73-9.
ISSN 2212-5531
DOI: https://doi.org/10.1016/j.ijmyco.2014.11.049
Phelan, J;
Maitra, A;
McNerney, R;
Nair, M;
Gupta, A;
Coll, F;
Pain, A;
Bhakta, S;
Clark, TG;
(2015)
The draft genome of Mycobacterium aurum, a potential model organism for investigating drugs against Mycobacterium tuberculosis and Mycobacterium leprae.
International journal of mycobacteriology, 4 (3).
pp. 207-16.
ISSN 2212-5531
DOI: https://doi.org/10.1016/j.ijmyco.2015.05.001
Samad, H;
Coll, F;
Preston, MD;
Ocholla, H;
Fairhurst, RM;
Clark, TG;
(2015)
Imputation-Based Population Genetics Analysis of Plasmodium falciparum Malaria Parasites.
PLoS genetics, 11 (4).
e1005131.
ISSN 1553-7390
DOI: https://doi.org/10.1371/journal.pgen.1005131
2014
Bergval, I;
Coll, F;
Schuitema, A;
de Ronde, H;
Mallard, K;
Pain, A;
McNerney, R;
Clark, TG;
Anthony, RM;
(2014)
A proportion of mutations fixed in the genomes of in vitro selected isogenic drug-resistant Mycobacterium tuberculosis mutants can be detected as minority variants in the parent culture.
FEMS microbiology letters, 362 (2).
pp. 1-7.
ISSN 0378-1097
DOI: https://doi.org/10.1093/femsle/fnu037
Coll, F;
McNerney, R;
Guerra-Assunção, JA;
Glynn, JR;
Perdigão, J;
Viveiros, M;
Portugal, I;
Pain, A;
Martin, N;
Clark, TG;
(2014)
A robust SNP barcode for typing Mycobacterium tuberculosis complex strains.
Nature communications, 5.
p. 4812.
ISSN 2041-1723
DOI: https://doi.org/10.1038/ncomms5812
Coll, F;
Preston, M;
Guerra-Assunção, JA;
Hill-Cawthorn, G;
Harris, D;
Perdigão, J;
Viveiros, M;
Portugal, I;
Drobniewski, F;
Gagneux, S;
+6 more...
Glynn, JR;
Pain, A;
Parkhill, J;
McNerney, R;
Martin, N;
Clark, TG;
(2014)
PolyTB: A genomic variation map for Mycobacterium tuberculosis.
Tuberculosis (Edinburgh, Scotland), 94 (3).
pp. 346-54.
ISSN 1472-9792
DOI: https://doi.org/10.1016/j.tube.2014.02.005
Guerra-Assunção, JA;
Houben, RM;
Crampin, AC;
Mzembe, T;
Mallard, K;
Coll, F;
Khan, P;
Banda, L;
Chiwaya, A;
Pereira, RP;
+5 more...
McNerney, R;
Harris, D;
Parkhill, J;
Clark, TG;
Glynn, JR;
(2014)
Relapse or reinfection with tuberculosis: a whole genome sequencing approach in a large population-based cohort with high HIV prevalence and active follow-up.
The Journal of infectious diseases, 211 (7).
pp. 1154-63.
ISSN 0022-1899
DOI: https://doi.org/10.1093/infdis/jiu574
Perdigão, J;
Silva, H;
Machado, D;
Macedo, R;
Maltez, F;
Silva, C;
Jordao, L;
Couto, I;
Mallard, K;
Coll, F;
+6 more...
Hill-Cawthorne, GA;
McNerney, R;
Pain, A;
Clark, TG;
Viveiros, M;
Portugal, I;
(2014)
Unraveling Mycobacterium tuberculosis genomic diversity and evolution in Lisbon, Portugal, a highly drug resistant setting.
BMC genomics, 15.
p. 991.
ISSN 1471-2164
DOI: https://doi.org/10.1186/1471-2164-15-991
2013
Clark, TG;
Mallard, K;
Coll, F;
Preston, M;
Assefa, S;
Harris, D;
Ogwang, S;
Mumbowa, F;
Kirenga, B;
O'Sullivan, DM;
+8 more...
Okwera, A;
Eisenach, KD;
Joloba, M;
Bentley, SD;
Ellner, JJ;
Parkhill, J;
Jones-López, EC;
McNerney, R;
(2013)
Elucidating emergence and transmission of multidrug-resistant tuberculosis in treatment experienced patients by whole genome sequencing.
PloS one, 8 (12).
e83012.
ISSN 1932-6203
DOI: https://doi.org/10.1371/journal.pone.0083012
2012
Coll, F;
Mallard, K;
Preston, MD;
Bentley, S;
Parkhill, J;
McNerney, R;
Martin, N;
Clark, TG;
(2012)
SpolPred: Rapid and accurate prediction of Mycobacterium tuberculosis spoligotypes from short genomic sequences.
Bioinformatics (Oxford, England), 28 (22).
pp. 2991-3.
ISSN 1367-4803
DOI: https://doi.org/10.1093/bioinformatics/bts544