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probabilistic_disease_surveillance_research_dataset_format_1.txt
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probabilistic_disease_surveillance_research_dataset_format_1.txt
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Description: This is the description of the Probabilistic Disease Surveillance Dataset Format v1.0.
Document Version: 2
Contact: isg-feedback@pitt.edu
Number of columns: 91
Column 1
Name: ENCOUNTER_ID
Data Type: Integer
Possible Values: [1 .. ∞)
Column 2
Name: DATE
Data Type: Date
Possible Values: [1/1/2010 .. 4/31/2015]
Column 3
Name: INFLUENZA_LAB
Data Type: String
Possible Values: ["NotTested", "NEG", "POS"]
Column 4
Name: RSV_LAB
Data Type: String
Possible Values: ["NotTested", "NEG", "POS"]
Column 5
Name: PARAINFLUENZA_LAB
Data Type: String
Possible Values: ["NotTested", "NEG", "POS"]
Column 6
Name: HMPV_LAB
Data Type: String
Possible Values: ["NotTested", "NEG", "POS"]
Column 7
Name: loglikelihood_flu
Description: 〖log〗_10 P (findings | disease = flu)
Data Type: Double
Possible Values: (-∞, 0]
Column 8
Name: loglikelihood_NILI
Description: 〖log〗_10 P (findings | disease = NILI)
Data Type: Double
Possible Values: (-∞, 0]
Column 9
Name: loglikelihood_other
Description: 〖log〗_10 P (findings | disease = other)
Data Type: Double
Possible Values: (-∞, 0]
Column 10
Name: highest measured temperature
Data Type: String
Possible Values: ["not mentioned", "low", "high", "inconsequential"]
Column 11
Name: abdominal pain
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 12
Name: abdominal tenderness
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 13
Name: abnormal chest radiograph findings
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 14
Name: acute onset
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 15
Name: anorexia
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 16
Name: apnea
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 17
Name: arthralgia
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 18
Name: barking cough
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 19
Name: bilateral acute conjunctivitis
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 20
Name: bronchiolitis
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 21
Name: bronchitis
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 22
Name: cervical lymphadenopathy
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 23
Name: chest pain
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 24
Name: chest wall retractions
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 25
Name: chills
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 26
Name: conjunctivitis
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 27
Name: crackles
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 28
Name: croup
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 29
Name: cyanosis
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 30
Name: decreased activity
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 31
Name: diarrhea
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 32
Name: dyspnea
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 33
Name: grunting
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 34
Name: headache
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 35
Name: hemoptysis
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 36
Name: hoarseness
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 37
Name: hypoxemia (sp02 on room air < 90%)
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 38
Name: ill-appearing
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 39
Name: infiltrate
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 40
Name: influenza-like illness
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 41
Name: lab order (nasal swab)
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 42
Name: lab positive adenovirus
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 43
Name: lab positive coronavirus
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 44
Name: lab positive enterovirus
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 45
Name: lab positive hmpv
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 46
Name: lab positive influenza
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 47
Name: lab positive parainfluenza
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 48
Name: lab positive rhinovirus
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 49
Name: lab positive rsv
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 50
Name: lab positive strep a
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 51
Name: lab positive vrp - pathogen not specified
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 52
Name: lab testing ordered (influenza w/other respiratory pathogens panel)
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 53
Name: lab testing ordered (influenza)
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 54
Name: lab testing ordered (rsv)
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 55
Name: malaise
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 56
Name: metapneumovirus
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 57
Name: myalgia
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 58
Name: nasal flaring
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 59
Name: nausea
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 60
Name: nonproductive cough
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 61
Name: other abnormal breath sounds
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 62
Name: other cough
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 63
Name: other pneumonia
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 64
Name: parainfluenza
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 65
Name: paroxysmal cough
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 66
Name: pharyngitis diagnosis
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 67
Name: pharyngitis on exam
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 68
Name: poor feeding
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 69
Name: poor response of fever to antipyretics
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 70
Name: productive cough
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 71
Name: rales
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 72
Name: reported fever
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 73
Name: respiratory distress
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 74
Name: rhonchi
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 75
Name: rigor
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 76
Name: runny nose
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 77
Name: seizure
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 78
Name: sore throat
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 79
Name: staccato cough
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 80
Name: streptococcal pharyngitis
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 81
Name: stridor
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 82
Name: stuffy nose
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 83
Name: tachypnea
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 84
Name: toxic appearance
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 85
Name: uri
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 86
Name: viral pneumonia
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 87
Name: viral syndrome
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 88
Name: vomiting
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 89
Name: weakness or fatigue
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 90
Name: wheezing
Data Type: String
Possible Values: ["not mentioned", "absent", "present"]
Column 91
Name: agegroup
Data Type: String
Possible Values: ["ls6", "ge6ls65", "ge65"]
Example data:
ENCOUNTER_ID,ADMIT_DATE,INFLUENZA_LAB,RSV_LAB,PARAINFLUENZA_LAB,HMPV_LAB,loglikelihood_flu,loglikelihood_NILI,loglikelihood_other,highest measured temperature,abdominal pain,abdominal tenderness,abnormal chest radiograph findings,acute onset,anorexia,apnea,arthralgia,barking cough,bilateral acute conjunctivitis,bronchiolitis,bronchitis,cervical lymphadenopathy,chest pain,chest wall retractions,chills,conjunctivitis,crackles,croup,cyanosis,decreased activity,diarrhea,dyspnea,grunting,headache,hemoptysis,hoarseness,hypoxemia (sp02 on room air < 90%),ill-appearing,infiltrate,influenza-like illness,lab order (nasal swab),lab positive adenovirus,lab positive coronavirus,lab positive enterovirus,lab positive hmpv,lab positive influenza,lab positive parainfluenza,lab positive rhinovirus,lab positive rsv,lab positive strep a,lab positive vrp - pathogen not specified,lab testing ordered (influenza w/other respiratory pathogens panel),lab testing ordered (influenza),lab testing ordered (rsv),malaise,metapneumovirus,myalgia,nasal flaring,nausea,nonproductive cough,other abnormal breath sounds,other cough,other pneumonia,parainfluenza,paroxysmal cough,pharyngitis diagnosis,pharyngitis on exam,poor feeding,poor response of fever to antipyretics,productive cough,rales,reported fever,respiratory distress,rhonchi,rigor,runny nose,seizure,sore throat,staccato cough,streptococcal pharyngitis,stridor,stuffy nose,tachypnea,toxic appearance,uri,viral pneumonia,viral syndrome,vomiting,weakness or fatigue,wheezing,agegroup
1,1/1/08,NotTested,NotTested,NotTested,NotTested,-4.028565786,-3.550438008,-1.84447177,inconsequential,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,absent,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,not mentioned,ge6ls65
2,7/1/10,NotTested,NotTested,NotTested,NotTested,-4.53390846,-5.321911556,-5.600928335,low,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,absent,absent,absent,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,present,absent,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,absent,absent,absent,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,not mentioned,absent,absent,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,absent,not mentioned,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,absent,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,ge6ls65
3,6/1/09,NEG,POS,NEG,NEG,-4.028565786,-3.550438008,-1.84447177,not mentioned,absent,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,absent,absent,absent,present,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,present,not mentioned,absent,present,present,not mentioned,absent,present,not mentioned,not mentioned,absent,not mentioned,absent,present,absent,present,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,present,absent,present,not mentioned,absent,absent,not mentioned,present,not mentioned,not mentioned,present,not mentioned,not mentioned,absent,absent,not mentioned,not mentioned,present,present,not mentioned,ls6
4,8/19/12,NotTested,NotTested,NotTested,NotTested,-4.761377229,-4.942380134,-3.150313913,high,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,present,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,present,not mentioned,not mentioned,absent,not mentioned,not mentioned,absent,not mentioned,present,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,absent,not mentioned,not mentioned,not mentioned,absent,absent,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,absent,absent,absent,not mentioned,present,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,absent,present,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,absent,present,ge6ls65
5,1/1/08,NotTested,NotTested,NotTested,NotTested,-7.499094237,-8.405075167,-10.98048762,inconsequential,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,present,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,present,not mentioned,not mentioned,present,not mentioned,not mentioned,present,present,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,present,not mentioned,not mentioned,absent,present,absent,not mentioned,not mentioned,not mentioned,not mentioned,present,absent,ge65
6,1/1/08,NotTested,NotTested,NotTested,NotTested,-4.002202462,-3.444545737,-1.84447177,low,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,absent,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,present,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,present,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,not mentioned,absent,not mentioned,present,absent,not mentioned,not mentioned,not mentioned,absent,absent,present,not mentioned,not mentioned,not mentioned,absent,not mentioned,ge6ls65
7,11/12/11,NotTested,NotTested,NotTested,NotTested,-1.937375303,-2.318656888,-1.726998728,not mentioned,present,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,absent,absent,not mentioned,not mentioned,not mentioned,present,not mentioned,not mentioned,present,not mentioned,not mentioned,present,absent,present,not mentioned,not mentioned,not mentioned,present,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,present,not mentioned,not mentioned,not mentioned,not mentioned,present,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,not mentioned,present,present,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,ls6
8,1/1/08,NotTested,NotTested,NotTested,NotTested,-4.002202462,-3.444545737,-1.84447177,high,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,absent,not mentioned,present,absent,not mentioned,not mentioned,absent,not mentioned,not mentioned,present,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,absent,absent,absent,not mentioned,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,not mentioned,absent,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,absent,not mentioned,not mentioned,absent,not mentioned,present,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,absent,not mentioned,absent,absent,not mentioned,not mentioned,not mentioned,ge6ls65
9,5/1/10,NotTested,NotTested,NotTested,NotTested,-5.516010594,-4.812085056,-3.367034895,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,present,absent,not mentioned,absent,absent,absent,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,absent,not mentioned,present,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,present,not mentioned,absent,absent,not mentioned,present,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,absent,absent,not mentioned,absent,absent,present,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,present,not mentioned,absent,absent,absent,not mentioned,not mentioned,ge6ls65
10,3/21/15,NotTested,NotTested,NotTested,NotTested,-3.265535186,-3.213234326,-3.174132748,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,absent,absent,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,absent,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,absent,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,absent,absent,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,not mentioned,ge65