COVID-19 phenotype definition (extended)

	A	B	C	D	E	F	G	H	I
1	The freeze 1 data dictionary includes two uses (for the course of hospitalization, and for longitudinal studies) and three levels (mandatory or optional or absent)
2	COMMENTS should be addressed to the tab "data_dictionary_v2" for inclusion in future freeze releases.
3	Attribute Group	Attribute Name	Question in questionnaire	Values	Type of anwer (single/multiple)	Course of Hospitalization	Longitudinal studies	Contributor	Time of collection (One-Time/Visit-Time)

4	Identification	host_hospital	Host hospital	pair: country-code, city-code	single	mandatory	mandatory	admin	One-Time
5	Identification	anonymized_patient_id	Anonymized patient ID	alpha-numerical	single	mandatory	mandatory	admin	One-Time
6	Demographics	age_at_diagnosis	Age at diagnosis		single	mandatory		any	One-Time
7		sex	Sex	0 Male 1 Female 2 Intersex -3 Prefer not to answer	single	mandatory		any	One-Time
8		ancestry	Self-reported ancestry	0 White 1 Black 2 Hispanic 3 East Asian / Pacific Islander 4 South Asian 5 Middle Eastern or Central Asian 6 More than one race 7 American Indian or Alaska Native? 8 Native Hawaiian or Other Pacific Islander? -1 Don't know -3 Prefer not to answer	single	mandatory		any	One-Time
9		height	Height (cm)	value (in cm) -1 Don't know -3 Prefer not to answer	single	mandatory		any	One-Time
10		weight	Weight (Kg)	value (in Kg) -1 Don't know -3 Prefer not to answer	single	mandatory		any	One-Time
11		pregnancy	Are you currently pregnant? If so, enter gestational age	Gestational age (months) -1 Male or not currently pregnant	single	optional		any	One-Time
12		education	Highest educational level	0 Elementary/primary school 1 High school 2 Vocational school/2 year college 3 Bachelor's degree/4 year college 4 Master's degree or higher -1 Don't know -3 Prefer not to answer	single	optional		any	One-Time
13		job	How physically taxing is your job? Choose the best option	0 I am not employed and homeless 1 I am not employed or my job involves sitting and not much walking 2 my job involves walking but no lifting or carrying heavy objects 3 I have to walk a lot and lift objects and go up stairs or uphill 4 my job involves heavy physical labor, where I have to lift or carry heavy objects, dig, shovel, or use a hammer -1 Do not know -3 Prefer not to answer	single	optional		any	One-Time
14		num_minors	Exposed to individuals <18 years old	numerical	single	optional		any	One-Time
15	Exposure	exposed_carrier	Exposed to known COVID19 carrier Iin the last 20 days)	0 No 1 Yes -1 Don't know	single			any	One-Time
16		travel	Travel (in the last 20 days)	0 Domestic 1 International 2 Domestic and International 3 None -1 Don't know	single			any	One-Time
17		job_medical	Are you working as medical professional?	0 No 1 Yes -3 Prefer not to answer -1 Don't know	single			any	One-Time
18	Risk Factors	smoke_100	Have you smoked at least 100 cigarettes in your entire life? (There are 20 cigarettes in a pack.)?	0 No 1 Yes -1 Don't know -3 Prefer not to answer	single	optional		any	One-Time
19		smoke_habit	When you smoke/have smoked, how many cigarettes do/did you usually smoke daily?	0 I don't smoke 1 1-10 2 11-20 3 21-30 4 31 or more -1 Do not know -3 Prefer not to answer	single	optional		any	One-Time
20		alcohol_habit	How often do you consume alcoholic beverages?	0 Never 1 Once a month or less 2 2-4 times a month 3 2-3 times per week 4 4 times or more per week	single	optional		any	One-Time
21		substance_habit_meth	How often do you make use of drugs such as meth	0 Never 1 Once a month or less 2 2-4 times a month 3 2-3 times per week 4 4 times or more per week	single	optional		any	One-Time
22		substances_habit_marijuana	How often do you make use of drugs such as marijuana	0 Never 1 Once a month or less 2 2-4 times a month 3 2-3 times per week 4 4 times or more per week	single	optional		any	One-Time
23		substances_habit_crack	How often do you make use of drugs such as crack	0 Never 1 Once a month or less 2 2-4 times a month 3 2-3 times per week 4 4 times or more per week	single	optional		any	One-Time
24		substances_habit_cocaine	How often do you make use of drugs such as cocaine	0 Never 1 Once a month or less 2 2-4 times a month 3 2-3 times per week 4 4 times or more per week	single	optional		any	One-Time
25	Comorbidities: Immune system	com_hiv	HIV	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
26		com_cd4_count	CD4+ T cell count	numerical	single	mandatory		MD	One-Time
27		com_hiv_load	HIV viral load	numerical	single	mandatory		MD	One-Time
28		com_immunocomp	Immunocompromised status	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
29		come_immunocomp_time	Days from the onset of covid-19 symptoms to immuno-compromisation	numerical	single	mandatory		MD	One-Time
30		com_transplant	Organ transplant	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
31		com_transplat_type	Organ type of transplant	1 Heart 2 Kidney 3 Liver 4 Pancreas 5 Intestine 6 Lung 7 Eye (Cornea) 8 Blood/bone marrow 9 Blood vessel 10 Other	multiple	mandatory		MD	One-Time
32		com_bm_transplant	Bone marrow transplant	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
33		com_autoimm_rheum	Autoimmune or rheumatologic disease (e.g., rheumatoid arthritis, systemic lupus erythematosus, multiple sclerosis, inflammaory bowel disease)	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
34		com_type_i_diabetes	Type I diabetes	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
35		com_type_ii_diabetes	Type II diabetes	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
36	Comorbidities: Respiratory system	com_asthma	Asthma, level of severity	1 intermittent 2 mild 3 moderate 4 severe -1 Don't know	single	mandatory		MD	One-Time
37		com_chronic_pulm	Chronic obstructive pulmonary disease (COPD), severity score: GOLD	1 GOLD 1 2 GOLD 2 3 GOLD 3 4 GOLD 4 -1 Don't know	single	mandatory		MD	One-Time
38		com_cystic_fibrosis	Cystic Fibrosis	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
39		com_sleep_apnea	Sleep Apnea	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
40		com_sleep_cpap	Do you use a home CPAP (continuous positive airway pressure) device at home at night?	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
41	Comorbidities: Accessory digestive organs	com_liver	Liver cirrhosis, severity score: Child-pugh	0 Child-Pugh A 1 Child-Pugh B 2 Child-Pugh C -1 Don't know	single	mandatory		MD	One-Time
42		com_gallbl	Gallbladder	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
43		com_pancreas	Pancreas	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
44	Comorbidities: Renal	com_chronic_kidney	Chronic kidney disease	1 stage CKD 1 2 stage CKD 2 3 stage CKD 3 4 stage CKD 4 5 stage CKD 5 -1 Don't know	single	mandatory		MD	One-Time
45	Comorbidities: Cardiovascular system	com_angio	Balloon angioplasty or percutanuous coronary intervention	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
46		com_bypass	Coronary artery bypass	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
47		com_heart_failure	Congestive heart failure, severity score New York Heart Association (NYHA) Classification	1 Class I 2 Class II 3 Class III 4 Class IV -1 Don't know	single	mandatory		MD	One-Time
48		com_hypertension	Hypertension	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
49		com_infarction_type1	Myocardial infarction Type I	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
50		com_infarction_type2	Myocardial infarction Type II	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
51		com_vascular	Peripheral vascular disease	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
52		com_stroke	Stroke	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
53		com_arrythmias	Arrythmias	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
54	Comorbidities: Neurological	com_dementia	Dementia	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
55	Comorbidities: Neurological	com_neurological	Neurological or neuropsychiatric disease	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
56	Comorbidities: Cancer	com_leukemia	Leukemia	0 No 1 Yes (current) 2 Yes (past) -1 Don't know	single	mandatory		MD	One-Time
57		com_lymphoma	Lymphoma	0 No 1 Yes (current) 2 Yes (past) -1 Don't know	single	mandatory		MD	One-Time
58		com_malignant_solid	Malignant solid tumor	0 No 1 Yes (current) 2 Yes (past) -1 Don't know	single	mandatory		MD	One-Time
59		com_tumor_site	Cancer by site (according to NCCN guidelines)	text field (value from https://www.nccn.org/professionals/physician_gls/default.aspx#site)	single	mandatory		MD	One-Time
60		com_ecog_performance_status	Cancer performance status, overall disease severity score: ECOG	1 ECOG 1 2 ECOG 2 3 ECOG 3 4 ECOG 4 5 ECOG 5 -1 Don't know	single	mandatory		MD	One-Time
61	Comorbidities: Rare disorder	com_rare disorder	Rare disorder	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
62	Comorbidities: Rare disorder	com_rare_disorder_type	Rare disorder ICD-10 code	text field (code from https://icd.who.int/browse10/2019/en)	single	mandatory		MD	One-Time
63	Hospitalization information (to be input at discharge; when a value, insert worst value of whole course of hospitalization)	hospitalization	Hospitalization	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
64		hospitalization_start	Date at the start of hospitalization	DD-MM-YYYY -1 Don't know 0 Not hospitalized	single	mandatory		MD	One-Time
65		hospitalization_end	Date at the end of hospitalization	DD-MM-YYYY -1 Don't know 0 Not hospitalized	single	mandatory		MD	One-Time
66		hospitalization_end_cause	Reason for ending hospitalization	0 Discharge (recovered) 1 Death related to or as complication of COVID-19 2 Death unrelated to COVID-19 -1 Other/Unknown	single	mandatory		MD	One-Time
67		general_symptoms_onset_date	Date of the onset of general covid-19 symptoms	DD-MM-YYYY -1 Don't know	single	mandatory		MD	One-Time
68		dyspnea	Dyspnea	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
69		respiratory_rate	Respiratory rate at admission	0 not elevated 1 slightly elevated 2 moderately elevated 3 severely elevated -1 Don’t know	single	mandatory		MD	One-Time
70		respiratory_frequency	Respiratory frequency (breaths per minute)	value (per minute) -1 Don't know	single	mandatory		MD	One-Time
71		blood_o2_saturation	Blood oxygen saturation-min value (SpO2 %)	value (%) -1 Don't know	single	mandatory		MD	One-Time
72		pao2_min	PaO2 (min value, measured from arterial blood gas)	value (in mm Hg) -1 Don't know	single	mandatory		MD	One-Time
73		fio1_max	FiO2 (max value, setting on ventilator)	value (%) -1 Don't know	single	mandatory		MD	One-Time
74		respiratory_failure	Respiratory failure	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
75		highest_respiratory_support	Highest level of respiratory support	0 oxygen (mask, nasal cannula) 1 non-invasive ventilation (CPAP, BIPAP) 2 intubation -1 Don't know -7 None of the above	single	mandatory		MD	One-Time
76		days_ventilator	If ventilator was used, for how many days?	value (days) -1 Don't know	single	mandatory		MD	One-Time
77		icu_admit	ICU admit	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
78		icu_duration	Number of days in ICU	numerical	single	mandatory		MD	One-Time
79		pneumonia	Pneumonia	0 Absent 1 Monolateral 2 Bilateral 3 Bilateral diffused -1 Unknown	single	mandatory		MD	One-Time
80		pneumonia_time	Days from the onset of covid-19 symptoms	numerical	single	mandatory		MD	One-Time
81		lung_infiltrates	Radiographic lung infiltrates (e.g., CXR, CT) within 24 to 48 hours	0 <=50% 1 > 50% -1 Don't known	single	mandatory		MD	One-Time
82		lung_infiltrates_grading	Lung infilatrates grading (from 0 to 28 - worst)	numerical (0-28) (worst)
83		pleural_effusion	Pleural effusion	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
84		ecg	Electrocardiogram	0 Normal 1 Abnormal	single	mandatory		MD	One-Time
85		ef_echo	Ejection fraction % in echocardiogram (e.g., a left ventricular EF of about >55% is normal)	numerical	single	mandatory		MD	One-Time
86		organ_failure	Multiple organ dysfunction/failure	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
87		septic_shock	Septic shock	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
88		septic_shock_time	Days from the onset of covid-19 symptoms	numerical	single	optional		MD	One-Time
89		hepatitis	Hepatitis	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
90		pancreatitis	Pancreatitis	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
91		acute_kidney_failure	Acute kidney failure	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
92		acute_kidney_chronic	Acute on Chronic Kidney Insufficiency	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
93		ascites	Ascites	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
94		hosp_dvt	Deep vein thrombois (DVT)	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
95		hosp_thrombo	Thrombembolism (PE)	0 No 1 Yes -1 Don't know	single	mandatory		MD	One-Time
96	Symptoms at admission / longitudinal	visit_date	Visit date	DD-MM-YYYY	single	mandatory	mandatory	any	One-Time/Visit-Time
97		covid19_test	COVID19 test result	0 Negative 1 Positive -1 Don't know	single	mandatory		any	One-Time/Visit-Time
98		covid19_test_date	COVID19 test date (days before admission)	numerical	single	mandatory		any	One-Time/Visit-Time
99		covid19_test_type	COVID19 type of test used	0 Molecular (Swab) Test 1 Antibody (Serology) Test -1 Don't know	single	mandatory		any	One-Time/Visit-Time
100		covid19_first_symptoms_date	COVID19 date of first symptoms	DD-MM-YYYY