Datasets:

HHS-Official
/

an-aggregated-dataset-of-serially-collected-influe

Ferret stringlengths 2 4	Virus stringclasses 126 values	inoc_dose float64 5 7	units stringclasses 2 values	expt stringclasses 3 values	lethal bool 2 classes	lethal_day int64 0 13	NW_typical bool 2 classes	RD_trans nullclasses 2 values	HPAI bool 2 classes	HPAI_MBAA bool 2 classes	HA stringclasses 6 values	NA stringclasses 7 values	Origin stringclasses 5 values	wt_loss float64 0 27.5	wt_loss_day int64 0 14	temp float64 0 4	temp_day int64 0 14	temp_5 float64 0 4	temp_5_day int64 0 5	d1_inoc float64 1 9.25 ⌀	d2_inoc null 3.5 8.75 ⌀	d3_inoc float64 1.98 8.75 ⌀	d4_inoc null 1.98 7.5 ⌀	d5_inoc float64 1.5 9.5 ⌀	d6_inoc null 1.3 6.75 ⌀	d7_inoc float64 1 7 ⌀	d8_inoc null 1 3.5 ⌀	d9_inoc float64 1 4.75 ⌀
F1	A/Turkey/VA/4529/2002	7	EID	path	false	0	true	null	false	false	H7	N2	avian	6.7	7	0.5	4	0.5	4	6.5	null	4.5	null	4.75	null	1.75	null	1.5
F2	A/Turkey/VA/4529/2002	7	EID	path	false	0	true	null	false	false	H7	N2	avian	11.8	4	0.9	7	0.7	2	5.5	null	6.5	null	4.75	null	1.5	null	1.5
F3	A/Turkey/VA/4529/2002	7	EID	path	false	0	true	null	false	false	H7	N2	avian	15.4	6	2	8	1.8	2	6.25	null	5.5	null	5.75	null	1.5	null	1.5
F4	A/Turkey/VA/4529/2002	7	EID	DC	false	0	true	null	false	false	H7	N2	avian	5.9	11	1	9	0.3	3	6.75	null	6.75	null	5.75	null	3.25	null	1.5
F5	A/Turkey/VA/4529/2002	7	EID	DC	false	0	true	null	false	false	H7	N2	avian	7.9	5	1	3	1	3	6.25	null	6.5	null	4.75	null	1.5	null	1.5
F6	A/Turkey/VA/4529/2002	7	EID	DC	false	0	true	null	false	false	H7	N2	avian	6.1	9	0.5	3	0.5	3	7.25	null	6.75	null	4.5	null	1.5	null	1.5
F7	A/Turkey/VA/4529/2002	7	EID	RD	false	0	true	null	false	false	H7	N2	avian	3.5	11	0.5	7	0.3	1	5.75	null	5.75	null	5.75	null	1.5	null	1.5
F8	A/Turkey/VA/4529/2002	7	EID	RD	false	0	true	null	false	false	H7	N2	avian	22.5	7	1.1	7	0.1	3	5.75	null	5.5	null	5.5	null	2.25	null	1.5
F9	A/Turkey/VA/4529/2002	7	EID	RD	false	0	true	null	false	false	H7	N2	avian	15	7	1.1	7	0.6	3	4.75	null	3.75	null	5.25	null	1.5	null	1.5
F10	A/Netherlands/219/2003	7	EID	path	false	0	true	null	true	true	H7	N7	avian	14.9	8	1	1	1	1	6.5	null	5.25	null	6.5	null	3.25	null	1.5
F11	A/Netherlands/219/2003	7	EID	path	true	12	true	null	true	true	H7	N7	avian	25.6	12	1	1	1	1	6.5	null	5.75	null	6.5	null	4.75	null	1.5
F12	A/Netherlands/219/2003	7	EID	path	true	8	true	null	true	true	H7	N7	avian	23.6	8	1	1	1	1	6.75	null	6.5	null	5.5	null	4.75	null	null
F13	A/Netherlands/219/2003	7	EID	DC	true	7	true	null	true	true	H7	N7	avian	19.6	7	0.8	1	0.8	1	7.5	null	6.25	null	5.75	null	null	null	null
F14	A/Netherlands/219/2003	7	EID	DC	true	7	true	null	true	true	H7	N7	avian	18.4	7	1.7	1	1.7	1	5.25	null	6.5	null	6.5	null	4.75	null	null
F15	A/Netherlands/219/2003	7	EID	DC	false	0	true	null	true	true	H7	N7	avian	16.6	7	0.8	1	0.8	1	6.25	null	6.25	null	5.5	null	3.5	null	1.5
F16	A/Netherlands/219/2003	7	EID	RD	true	7	true	null	true	true	H7	N7	avian	17.4	7	0.8	1	0.8	1	6.5	null	5.25	null	5.5	null	4.75	null	null
F17	A/Netherlands/219/2003	7	EID	RD	true	5	true	null	true	true	H7	N7	avian	21.7	5	0.8	1	0.8	1	6.25	null	6.75	null	5.75	null	null	null	null
F18	A/Netherlands/219/2003	7	EID	RD	false	0	true	null	true	true	H7	N7	avian	7.4	5	1.6	1	1.6	1	5.25	null	5.5	null	5.75	null	1.98	null	1.5
F19	A/Netherlands/230/2003	7	EID	path	false	0	true	null	true	true	H7	N7	avian	3.5	2	1	2	1	2	7.25	null	5.75	null	6.5	null	1.5	null	1.5
F20	A/Netherlands/230/2003	7	EID	path	false	0	true	null	true	true	H7	N7	avian	4.4	3	1.2	2	1.2	2	6.75	null	6.5	null	6.5	null	2.5	null	1.5
F21	A/Netherlands/230/2003	7	EID	path	true	7	true	null	true	true	H7	N7	avian	16	7	2.3	1	2.3	1	7.25	null	7.25	null	5.5	null	null	null	null
F22	A/Netherlands/230/2003	7	EID	DC	false	0	true	null	true	true	H7	N7	avian	15.3	7	2.8	7	2.7	5	6.25	null	7.25	null	6.75	null	1.75	null	1.5
F23	A/Netherlands/230/2003	7	EID	DC	false	0	true	null	true	true	H7	N7	avian	5.8	5	2.3	9	2.1	3	6.5	null	4.75	null	6.75	null	3.5	null	1.5
F24	A/Netherlands/230/2003	7	EID	DC	false	0	true	null	true	true	H7	N7	avian	16.6	11	3.4	7	2	5	6.75	null	7.25	null	6.75	null	4.5	null	1.5
F25	A/Netherlands/230/2003	7	EID	DC	false	0	true	null	true	true	H7	N7	avian	9.6	5	1.2	5	1.2	5	4.75	null	6.25	null	6.5	null	2.75	null	1.5
F26	A/Netherlands/230/2003	7	EID	DC	false	0	true	null	true	true	H7	N7	avian	5.3	3	1.3	9	1.2	5	5.75	null	5.75	null	6.25	null	2.25	null	1.5
F27	A/Netherlands/230/2003	7	EID	DC	false	0	true	null	true	true	H7	N7	avian	10	9	2	7	0.9	1	6.5	null	7.5	null	6.75	null	1.98	null	1.5
F28	A/Netherlands/230/2003	7	EID	RD	false	0	true	null	true	true	H7	N7	avian	15.7	11	2.9	7	1.5	5	6.5	null	6.25	null	6.25	null	4.75	null	1.5
F29	A/Netherlands/230/2003	7	EID	RD	false	0	true	null	true	true	H7	N7	avian	10	11	1.8	7	1.3	3	6.5	null	7.25	null	5.5	null	4.75	null	1.5
F30	A/Netherlands/230/2003	7	EID	RD	false	0	true	null	true	true	H7	N7	avian	10	5	2.5	7	2	5	6.5	null	6.75	null	6.5	null	1.98	null	1.5
F31	A/New York/107/2003	7	EID	path	false	0	true	null	false	false	H7	N2	avian	9.3	13	1	2	1	2	4.5	null	6.25	null	5.5	null	1.5	null	1.5
F32	A/New York/107/2003	7	EID	path	false	0	true	null	false	false	H7	N2	avian	10	3	0.5	2	0.5	2	5.25	null	6.25	null	4.75	null	2.25	null	1.5
F33	A/New York/107/2003	7	EID	path	false	0	true	null	false	false	H7	N2	avian	10.3	3	1	2	1	2	4.75	null	7.5	null	4.75	null	1.5	null	1.5
F34	A/New York/107/2003	7	EID	DC	false	0	true	null	false	false	H7	N2	avian	13.4	11	1.5	5	1.5	5	6.5	null	6.5	null	4.75	null	1.98	null	1.5
F35	A/New York/107/2003	7	EID	DC	false	0	true	null	false	false	H7	N2	avian	3.2	7	1.5	5	1.5	5	5.75	null	6.25	null	5.5	null	1.5	null	1.5
F36	A/New York/107/2003	7	EID	DC	false	0	true	null	false	false	H7	N2	avian	2	11	1.2	3	1.2	3	6.75	null	5.75	null	4.75	null	1.5	null	1.5
F37	A/New York/107/2003	7	EID	RD	false	0	true	null	false	false	H7	N2	avian	6.4	7	1.1	7	0.8	1	6.5	null	6.25	null	4.75	null	2.25	null	1.5
F38	A/New York/107/2003	7	EID	RD	false	0	true	null	false	false	H7	N2	avian	5.9	7	1.5	7	1	1	6.25	null	6.75	null	5.5	null	1.5	null	1.5
F39	A/New York/107/2003	7	EID	RD	false	0	true	null	false	false	H7	N2	avian	3	1	1.5	1	1.5	1	5.5	null	5.75	null	5.75	null	1.5	null	1.5
F40	A/New York/107/2003	6	EID	path	false	0	true	null	false	false	H7	N2	avian	17.3	11	1	9	0.2	1	5.5	null	5.5	null	5.75	null	1.5	null	1.5
F41	A/New York/107/2003	6	EID	path	false	0	true	null	false	false	H7	N2	avian	0.4	1	1	1	1	1	4.25	null	5.75	null	4.75	null	1.5	null	1.5
F42	A/New York/107/2003	6	EID	path	false	0	true	null	false	false	H7	N2	avian	0.4	7	1	3	1	3	4.5	null	5.75	null	4.5	null	1.5	null	1.5
F43	A/New York/107/2003	6	EID	path	false	0	false	null	false	false	H7	N2	avian	5.8	6	0.8	1	0.8	1	null	null	null	null	null	null	null	null	null
F44	A/New York/107/2003	6	EID	path	false	0	false	null	false	false	H7	N2	avian	8	3	0.4	1	0.4	1	null	null	null	null	null	null	null	null	null
F45	A/New York/107/2003	6	EID	path	false	0	false	null	false	false	H7	N2	avian	5.4	4	0.9	1	0.9	1	null	null	null	null	null	null	null	null	null
F46	A/New York/107/2003	6	EID	path	false	0	false	null	false	false	H7	N2	avian	0.9	1	1	1	1	1	null	null	null	null	null	null	null	null	null
F47	A/New York/107/2003	6	EID	path	false	0	false	null	false	false	H7	N2	avian	8.5	7	1.5	1	1.5	1	null	null	null	null	null	null	null	null	null
F48	A/New York/107/2003	6	EID	path	false	0	false	null	false	false	H7	N2	avian	1.3	1	1.3	1	1.3	1	null	null	null	null	null	null	null	null	null
F49	A/New York/107/2003	6	EID	path	false	0	false	null	false	false	H7	N2	avian	4.2	6	0.8	7	0.5	1	null	null	null	null	null	null	null	null	null
F50	A/Mexico/4482/2009	6	PFU	DC	true	10	true	null	false	false	H1	N1	human	27.2	10	1.5	1	1.5	1	7.54	null	5.95	null	5.93	null	1	null	1
F51	A/Mexico/4482/2009	6	PFU	DC	false	0	true	null	false	false	H1	N1	human	16.3	7	1.2	4	1.2	4	7.9	null	5.11	null	5.41	null	1	null	1
F52	A/Mexico/4482/2009	6	PFU	DC	false	0	true	null	false	false	H1	N1	human	10.9	7	1.6	1	1.6	1	7.7	null	4.15	null	5.2	null	1	null	1
F53	A/Mexico/4482/2009	6	PFU	RD	false	0	true	null	false	false	H1	N1	human	5.9	7	2.3	1	2.3	1	7.88	null	5.59	null	4.98	null	1	null	1
F54	A/Mexico/4482/2009	6	PFU	RD	true	5	true	null	false	false	H1	N1	human	21.2	5	2	1	2	1	7.4	null	4.43	null	5.4	null	null	null	null
F55	A/Mexico/4482/2009	6	PFU	RD	true	10	true	null	false	false	H1	N1	human	27.5	10	1.5	7	1.3	1	8	null	6	null	5.28	null	2.3	null	1
F56	A/Mexico/4482/2009	6	PFU	path	false	0	true	null	false	false	H1	N1	human	16.8	8	3	1	3	1	7.88	null	5.2	null	5.08	null	1	null	1
F57	A/Mexico/4482/2009	6	PFU	path	false	0	true	null	false	false	H1	N1	human	13.2	7	3.2	1	3.2	1	7.34	null	5.08	null	5.41	null	1	null	1
F58	A/Mexico/4482/2009	6	PFU	path	true	6	true	null	false	false	H1	N1	human	23.5	6	2.9	2	2.9	2	6.76	null	4.85	null	4.9	null	null	null	null
F59	A/Mexico/4482/2009	6	PFU	path	false	0	true	null	false	false	H1	N1	human	21.5	10	1.4	1	1.4	1	6.88	null	5	null	5.06	null	1	null	1
F60	A/Mexico/4482/2009	5	PFU	path	false	0	true	null	false	false	H1	N1	human	16.8	8	3	1	3	1	7.88	null	5.2	null	5.08	null	1	null	1
F61	A/Mexico/4482/2009	5	PFU	path	false	0	true	null	false	false	H1	N1	human	14.2	7	3.2	1	3.2	1	7.34	null	5.08	null	5.41	null	1	null	1
F62	A/Mexico/4482/2009	5	PFU	path	true	6	true	null	false	false	H1	N1	human	13.5	6	2.9	2	2.9	2	6.76	null	4.85	null	4.9	null	null	null	null
F63	A/Mexico/4482/2009	5	PFU	path	false	0	true	null	false	false	H1	N1	human	11.5	10	1.4	1	1.4	1	6.88	null	5	null	5.06	null	1	null	1
F64	A/Mexico/4482/2009	6	EID	path	false	0	false	null	false	false	H1	N1	human	13.2	7	1.8	1	1.8	1	null	null	null	null	null	null	null	null	null
F65	A/Mexico/4482/2009	6	EID	path	false	0	false	null	false	false	H1	N1	human	14.5	6	1.5	1	1.5	1	null	null	null	null	null	null	null	null	null
F66	A/Mexico/4482/2009	6	EID	path	false	0	false	null	false	false	H1	N1	human	7	6	1.7	1	1.7	1	null	null	null	null	null	null	null	null	null
F67	A/Mexico/4482/2009	6	EID	path	false	0	false	null	false	false	H1	N1	human	18.1	8	1.5	1	1.5	1	null	null	null	null	null	null	null	null	null
F68	A/Mexico/4482/2009	6	EID	path	false	0	false	null	false	false	H1	N1	human	14.9	7	2.5	3	2.5	3	null	null	null	null	null	null	null	null	null
F69	A/Mexico/4482/2009	6	EID	path	false	0	false	null	false	false	H1	N1	human	15	7	2.3	1	2.3	1	null	null	null	null	null	null	null	null	null
F70	A/Mexico/4482/2009	6	EID	path	false	0	false	null	false	false	H1	N1	human	12.8	6	2	1	2	1	null	null	null	null	null	null	null	null	null
F71	A/Mexico/4482/2009	6	EID	path	false	0	false	null	false	false	H1	N1	human	11.1	7	2.6	1	2.6	1	null	null	null	null	null	null	null	null	null
F72	A/Mexico/4482/2009	6	EID	path	false	0	false	null	false	false	H1	N1	human	16.5	14	3.4	1	3.4	1	null	null	null	null	null	null	null	null	null
F73	A/Mexico/4482/2009	6	EID	path	false	0	false	null	false	false	H1	N1	human	16.5	6	2.8	1	2.8	1	null	null	null	null	null	null	null	null	null
F74	A/Mexico/4482/2009	6	EID	path	false	0	false	null	false	false	H1	N1	human	10.5	14	1.7	1	1.7	1	null	null	null	null	null	null	null	null	null
F75	A/Mexico/4482/2009	6	EID	path	false	0	false	null	false	false	H1	N1	human	9.1	14	1.8	1	1.8	1	null	null	null	null	null	null	null	null	null
F76	A/Mexico/4482/2009	6	EID	path	false	0	false	null	false	false	H1	N1	human	14.9	7	3.1	1	3.1	1	null	null	null	null	null	null	null	null	null
F77	A/Mexico/4482/2009	6	EID	path	false	0	false	null	false	false	H1	N1	human	4.2	2	1.6	3	1.6	3	null	null	null	null	null	null	null	null	null
F78	A/Mexico/4482/2009	6	EID	path	false	0	false	null	false	false	H1	N1	human	2.8	2	1.7	1	1.7	1	null	null	null	null	null	null	null	null	null
F79	A/Mexico/4482/2009	6	EID	path	false	0	false	null	false	false	H1	N1	human	14.1	7	1.2	2	1.2	2	null	null	null	null	null	null	null	null	null
F80	A/Mexico/4482/2009	6	EID	path	false	0	false	null	false	false	H1	N1	human	13.3	7	2.6	1	2.6	1	null	null	null	null	null	null	null	null	null
F81	A/Mexico/4482/2009	6	EID	path	false	0	false	null	false	false	H1	N1	human	17.1	9	1.5	1	1.5	1	null	null	null	null	null	null	null	null	null
F82	A/Mexico/4482/2009	6	EID	path	false	0	false	null	false	false	H1	N1	human	16.9	4	1.7	1	1.7	1	null	null	null	null	null	null	null	null	null
F83	A/Mexico/4482/2009	6	EID	path	false	0	false	null	false	false	H1	N1	human	18.7	7	1.7	1	1.7	1	null	null	null	null	null	null	null	null	null
F84	A/South Dakota/6/2007	6	EID	path	false	0	false	null	false	false	H1	N1	human	5.3	3	1.3	1	1.3	1	null	null	null	null	null	null	null	null	null
F85	A/South Dakota/6/2007	6	EID	path	false	0	false	null	false	false	H1	N1	human	10	4	0.5	3	0.5	3	null	null	null	null	null	null	null	null	null
F86	A/South Dakota/6/2007	6	EID	path	false	0	false	null	false	false	H1	N1	human	5.1	7	1.7	5	1.7	5	null	null	null	null	null	null	null	null	null
F87	A/South Dakota/6/2007	6	EID	path	false	0	false	null	false	false	H1	N1	human	5.1	7	1.9	12	1.7	1	null	null	null	null	null	null	null	null	null
F88	A/South Dakota/6/2007	6	EID	path	false	0	false	null	false	false	H1	N1	human	5.7	2	1.9	11	1.5	3	null	null	null	null	null	null	null	null	null
F89	A/South Dakota/6/2007	6	EID	path	false	0	false	null	false	false	H1	N1	human	8.1	7	0.8	5	0.8	5	null	null	null	null	null	null	null	null	null
F90	A/South Dakota/6/2007	6	EID	path	false	0	false	null	false	false	H1	N1	human	7.5	13	0	0	0	0	null	null	null	null	null	null	null	null	null
F91	A/South Dakota/6/2007	6	EID	path	false	0	false	null	false	false	H1	N1	human	24.2	14	2.1	11	1	5	null	null	null	null	null	null	null	null	null
F92	A/South Dakota/6/2007	6	EID	path	false	0	false	null	false	false	H1	N1	human	8.2	3	1.8	10	1.6	5	null	null	null	null	null	null	null	null	null
F93	A/South Dakota/6/2007	6	EID	path	false	0	false	null	false	false	H1	N1	human	5	2	2.5	5	2.5	5	null	null	null	null	null	null	null	null	null
F94	A/South Dakota/6/2007	6	EID	path	false	0	false	null	false	false	H1	N1	human	1.2	2	2.5	11	2.3	5	null	null	null	null	null	null	null	null	null
F95	A/South Dakota/6/2007	6	EID	path	false	0	false	null	false	false	H1	N1	human	5.7	12	2.2	5	2.2	5	null	null	null	null	null	null	null	null	null
F96	A/South Dakota/6/2007	6	EID	path	false	0	false	null	false	false	H1	N1	human	14.5	13	2.9	12	2.5	5	null	null	null	null	null	null	null	null	null
F97	A/South Dakota/6/2007	6	EID	RD	false	0	true	null	false	false	H1	N1	human	6.5	6	3.1	2	3.1	2	7.75	null	4.5	null	5.5	null	1.98	null	1.5
F98	A/South Dakota/6/2007	6	EID	RD	false	0	true	null	false	false	H1	N1	human	9.2	6	3.4	8	3.2	2	7.25	null	5.25	null	5.25	null	1.98	null	1.5
F99	A/South Dakota/6/2007	6	EID	RD	false	0	true	null	false	false	H1	N1	human	17.5	9	2.2	8	1.7	4	8.25	null	5.25	null	5.75	null	1.98	null	1.5
F100	A/Shoveler/Egypt/00215-NAMRU3/2007	6	PFU	RD	false	0	true	null	false	false	H7	N9	avian	0.9	2	1.7	2	1.7	2	4.64	null	4.36	null	4.45	null	1	null	1

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An aggregated dataset of serially collected influenza A virus morbidity and titer measurements from virus-infected ferrets.

Description

Data from influenza A virus (IAV) infected ferrets (Mustela putorius furo) provides invaluable information towards the study of novel and emerging viruses that pose a threat to human health. This gold standard animal model can recapitulate many clinical signs of infection present in IAV-infected humans, support virus replication of human and zoonotic strains without prior adaptation, and permit evaluation of virus transmissibility by multiple modes. While ferrets have been employed in risk assessment settings for >20 years, results from this work are typically reported in discrete stand-alone publications, making aggregation of raw data from this work over time nearly impossible. Here, we describe a dataset of 728 ferrets inoculated with 126 unique IAV, conducted by a single research group (NCIRD/ID/IPB/Pathogenesis Laboratory Team) under a uniform experimental protocol. This collection of morbidity, mortality, and viral titer data represents the largest publicly available dataset to date of in vivo-generated IAV infection outcomes on a per-individual ferret level.

Published Data Descriptor for more information: Kieran TJ, Sun X, Creager HM, Tumpey TM, Maine TR, Belser JA. 2024. An aggregated dataset of serial morbidity and titer measurements from influenza A virus-infected ferrets. Sci Data 11, 510. https://doi.org/10.1038/s41597-024-03256-6

Additional publications using and describing data: Kieran TJ, Sun X, Maines TR, Beauchemin CAA, Belser JA. 2024. Exploring associations between viral titer measurements and disease outcomes in ferrets inoculated with 125 contemporary influenza A viruses. J Virol98:e01661-23.https://doi.org/10.1128/jvi.01661-23

Belser JA, Kieran TJ, Mitchell ZA, Sun X, Mayfield K, Tumpey TM, Spengler JR, Maines TR. 2024. Key considerations to improve the normalization, interpretation and reproducibility of morbidity data in mammalian models of viral disease. Dis Model Mech; 17 (3): dmm050511. doi: https://doi.org/10.1242/dmm.050511

Kieran TJ, Sun X, Maines TR, Belser JA. 2024. Machine learning approaches for influenza A virus risk assessment identifies predictive correlates using ferret model in vivo data. Communications Biology 7, 927. https://doi.org/10.1038/s42003-024-06629-0

Dataset Details

Publisher: Centers for Disease Control and Prevention
Last Modified: 2024-11-07
Contact: Jessica Belser ([email protected])

Source

Original data can be found at: https://data.cdc.gov/d/cr56-k9wj

Usage

You can load this dataset using:

from datasets import load_dataset
 dataset = load_dataset('HHS-Official/an-aggregated-dataset-of-serially-collected-influe')

License

This dataset is licensed under https://www.usa.gov/government-works

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Number of rows:

728