A pilot study of rapid benchtop sequencing of Staphylococcus aureus and Clostridium difficile for outbreak detection and surveillance

David W Eyre; Tanya Golubchik; N Claire Gordon; Rory Bowden; Paolo Piazza; Elizabeth M Batty; Camilla L C Ip; Daniel J Wilson; Xavier Didelot; Lily O'Connor; Rochelle Lay; David Buck; Angela M Kearns; Angela Shaw; John Paul; Mark H Wilcox; Peter J Donnelly; Tim E A Peto; A Sarah Walker; Derrick W Crook

doi:10.1136/bmjopen-2012-001124

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Genetics and genomics

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A pilot study of rapid benchtop sequencing of Staphylococcus aureus and Clostridium difficile for outbreak detection and surveillance

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Jun 2012	784	626	333
Jul 2012	157	250	87
Aug 2012	140	509	152
Sep 2012	145	306	114
Oct 2012	108	413	125
Nov 2012	152	321	122
Dec 2012	101	337	74
Jan 2013	108	369	86
Feb 2013	104	285	67
Mar 2013	72	243	44
Apr 2013	114	210	47
May 2013	181	241	92
Jun 2013	109	166	59
Jul 2013	82	240	61
Aug 2013	62	202	61
Sep 2013	64	199	70
Oct 2013	66	145	61
Nov 2013	72	146	50
Dec 2013	77	137	44
Jan 2014	67	114	35
Feb 2014	67	136	48
Mar 2014	103	156	58
Apr 2014	75	129	55
May 2014	56	130	46
Jun 2014	78	76	33
Jul 2014	113	113	47
Aug 2014	108	119	34
Sep 2014	89	123	42
Oct 2014	102	121	49
Nov 2014	150	156	58
Dec 2014	143	80	33
Jan 2015	169	116	30
Feb 2015	153	90	92
Mar 2015	168	143	53
Apr 2015	189	148	31
May 2015	170	100	34
Jun 2015	148	91	15
Jul 2015	202	91	23
Aug 2015	193	197	34
Sep 2015	203	119	21
Oct 2015	155	72	16
Nov 2015	250	55	35
Dec 2015	141	70	26
Jan 2016	91	56	16
Feb 2016	88	48	21
Mar 2016	96	68	40
Apr 2016	78	32	25
May 2016	79	43	22
Jun 2016	71	68	44
Jul 2016	65	36	21
Aug 2016	70	53	23
Sep 2016	68	61	16
Oct 2016	95	55	22
Nov 2016	107	80	24
Dec 2016	87	59	24
Jan 2017	28	47	22
Feb 2017	21	23	14
Mar 2017	28	47	18
Apr 2017	12	73	9
May 2017	26	75	24
Jun 2017	29	75	26
Jul 2017	100	86	18
Aug 2017	101	78	23
Sep 2017	110	78	10
Oct 2017	112	76	14
Nov 2017	118	80	14
Dec 2017	95	65	30
Jan 2018	142	78	33
Feb 2018	100	54	13
Mar 2018	151	78	21
Apr 2018	115	91	16
May 2018	149	117	15
Jun 2018	130	92	16
Jul 2018	116	98	13
Aug 2018	87	61	4
Sep 2018	89	59	26
Oct 2018	103	82	16
Nov 2018	138	94	16
Dec 2018	105	69	20
Jan 2019	109	62	15
Feb 2019	80	56	14
Mar 2019	98	53	22
Apr 2019	114	88	23
May 2019	97	58	29
Jun 2019	110	70	20
Jul 2019	78	57	19
Aug 2019	67	55	13
Sep 2019	74	45	12
Oct 2019	138	99	16
Nov 2019	67	58	6
Dec 2019	96	72	14
Jan 2020	114	76	15
Feb 2020	62	50	14
Mar 2020	61	51	10
Apr 2020	58	36	17
May 2020	39	33	2
Jun 2020	45	45	10
Jul 2020	68	56	16
Aug 2020	74	53	17
Sep 2020	58	47	7
Total	10897	11745	3737

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