Publication breakdown of dataset
162 records returned (1 - 25 displayed). Click the hyperlinks for detailed information.
| PubMed id | Year | Citation | Title | Isolates in database |
|---|---|---|---|---|
| 30210481 | 2018 | Rezaei Javan R, van Tonder AJ, King JP, Harrold CL, Brueggemann AB (2018) Front Microbiol 9: 2012 | Genome Sequencing Reveals a Large and Diverse Repertoire of Antimicrobial Peptides. | |
| 25101644 | 2014 | Chewapreecha C, Marttinen P, Croucher NJ, Salter SJ, Harris SR, Mather AE, Hanage WP, Goldblatt D, Nosten FH, Turner C, Turner P, Bentley SD, Parkhill J (2014) PLoS Genet 10: e1004547 | Comprehensive identification of single nucleotide polymorphisms associated with beta-lactam resistance within pneumococcal mosaic genes. | |
| 25826208 | 2015 | Croucher NJ, Kagedan L, Thompson CM, Parkhill J, Bentley SD, Finkelstein JA, Lipsitch M, Hanage WP (2015) PLoS Genet 11: e1005095 | Selective and genetic constraints on pneumococcal serotype switching. | |
| 28207813 | 2017 | Skwark MJ, Croucher NJ, Puranen S, Chewapreecha C, Pesonen M, Xu YY, Turner P, Harris SR, Beres SB, Musser JM, Parkhill J, Bentley SD, Aurell E, Corander J (2017) PLoS Genet 13: e1006508 | Interacting networks of resistance, virulence and core machinery genes identified by genome-wide epistasis analysis. | |
| 24509479 | 2014 | Chewapreecha C, Harris SR, Croucher NJ, Turner C, Marttinen P, Cheng L, Pessia A, Aanensen DM, Mather AE, Page AJ, Salter SJ, Harris D, Nosten F, Goldblatt D, Corander J, Parkhill J, Turner P, Bentley SD (2014) Nat Genet 46: 305-9 | Dense genomic sampling identifies highways of pneumococcal recombination. | |
| 25253455 | 2014 | Numminen E, Chewapreecha C, Sirén J, Turner C, Turner P, Bentley SD, Corander J (2014) Proc Biol Sci 281: 20141324 | Two-phase importance sampling for inference about transmission trees. | |
| 27633831 | 2016 | Lees JA, Vehkala M, Välimäki N, Harris SR, Chewapreecha C, Croucher NJ, Marttinen P, Davies MR, Steer AC, Tong SY, Honkela A, Parkhill J, Bentley SD, Corander J (2016) Nat Commun 7: 12797 | Sequence element enrichment analysis to determine the genetic basis of bacterial phenotypes. | |
| 25504847 | 2015 | Haubold B, Klötzl F, Pfaffelhuber P (2015) Bioinformatics 31: 1169-75 | andi: fast and accurate estimation of evolutionary distances between closely related genomes. | |
| 30605896 | 2019 | Gao CY, Cecconi F, Vulpiani A, Zhou HJ, Aurell E (2019) Phys Biol 16: 026002 | DCA for genome-wide epistasis analysis: the statistical genetics perspective. | |
| 27672516 | 2016 | Kapatai G, Sheppard CL, Al-Shahib A, Litt DJ, Underwood AP, Harrison TG, Fry NK (2016) PeerJ 4: e2477 | Whole genome sequencing of Streptococcus pneumoniae: development, evaluation and verification of targets for serogroup and serotype prediction using an automated pipeline. | |
| 28100596 | 2017 | Andam CP, Mitchell PK, Callendrello A, Chang Q, Corander J, Chaguza C, McGee L, Beall BW, Hanage WP (2017) J Clin Microbiol 55: 1104-1115 | Genomic Epidemiology of Penicillin-Nonsusceptible Pneumococci with Nonvaccine Serotypes Causing Invasive Disease in the United States. | |
| 30257906 | 2018 | Quirk SJ, Haraldsson G, Erlendsdóttir H, Hjálmarsdóttir MÁ, van Tonder AJ, Hrafnkelsson B, Sigurdsson S, Bentley SD, Haraldsson Á, Brueggemann AB, Kristinsson KG (2018) J Clin Microbiol 56: | Effect of Vaccination on Pneumococci Isolated from the Nasopharynx of Healthy Children and the Middle Ear of Children with Otitis Media in Iceland. | |
| 28007887 | 2017 | Lin M, Kussell E (2017) Genetics 205: 891-917 | Correlated Mutations and Homologous Recombination Within Bacterial Populations. | |
| 29617440 | 2018 | Azarian T, Grant LR, Arnold BJ, Hammitt LL, Reid R, Santosham M, Weatherholtz R, Goklish N, Thompson CM, Bentley SD, O'Brien KL, Hanage WP, Lipsitch M (2018) PLoS Pathog 14: e1006966 | The impact of serotype-specific vaccination on phylodynamic parameters of Streptococcus pneumoniae and the pneumococcal pan-genome. | |
| 29026652 | 2017 | Gladstone RA, Devine V, Jones J, Cleary D, Jefferies JM, Bentley SD, Faust SN, Clarke SC (2017) Microb Genom 3: e000119 | Pre-vaccine serotype composition within a lineage signposts its serotype replacement - a carriage study over 7 years following pneumococcal conjugate vaccine use in the UK. | |
| 29774245 | 2018 | Lees JA, Kendall M, Parkhill J, Colijn C, Bentley SD, Harris SR (2018) Wellcome Open Res 3: 33 | Evaluation of phylogenetic reconstruction methods using bacterial whole genomes: a simulation based study. | |
| 26528397 | 2015 | Croucher NJ, Finkelstein JA, Pelton SI, Parkhill J, Bentley SD, Lipsitch M, Hanage WP (2015) Sci Data 2: 150058 | Population genomic datasets describing the post-vaccine evolutionary epidemiology of Streptococcus pneumoniae. | |
| 25956132 | 2015 | Li Y, Croucher NJ, Thompson CM, Trzciński K, Hanage WP, Lipsitch M (2015) BMC Genomics 16: 369 | Identification of pneumococcal colonization determinants in the stringent response pathway facilitated by genomic diversity. | |
| 28199698 | 2017 | Mostowy R, Croucher NJ, Andam CP, Corander J, Hanage WP, Marttinen P (2017) Mol Biol Evol 34: 1167-1182 | Efficient Inference of Recent and Ancestral Recombination within Bacterial Populations. | |
| 25407023 | 2014 | Croucher NJ, Coupland PG, Stevenson AE, Callendrello A, Bentley SD, Hanage WP (2014) Nat Commun 5: 5471 | Diversification of bacterial genome content through distinct mechanisms over different timescales. | |
| 23644493 | 2013 | Croucher NJ, Finkelstein JA, Pelton SI, Mitchell PK, Lee GM, Parkhill J, Bentley SD, Hanage WP, Lipsitch M (2013) Nat Genet 45: 656-63 | Population genomics of post-vaccine changes in pneumococcal epidemiology. | |
| 25776920 | 2015 | Gladstone RA, Jefferies JM, Tocheva AS, Beard KR, Garley D, Chong WW, Bentley SD, Faust SN, Clarke SC (2015) Vaccine 33: 2015-21 | Five winters of pneumococcal serotype replacement in UK carriage following PCV introduction. | |
| 28218261 | 2017 | Brueggemann AB, Harrold CL, Rezaei Javan R, van Tonder AJ, McDonnell AJ, Edwards BA (2017) Sci Rep 7: 42976 | Pneumococcal prophages are diverse, but not without structure or history. | |
| 26492862 | 2015 | Cremers AJ, Mobegi FM, de Jonge MI, van Hijum SA, Meis JF, Hermans PW, Ferwerda G, Bentley SD, Zomer AL (2015) Sci Rep 5: 14952 | The post-vaccine microevolution of invasive Streptococcus pneumoniae. | |
| 26215050 | 2015 | Bogaardt C, van Tonder AJ, Brueggemann AB (2015) BMC Genomics 16: 554 | Genomic analyses of pneumococci reveal a wide diversity of bacteriocins - including pneumocyclicin, a novel circular bacteriocin. |