Replication Data for: Emergence and predominance of novel influenza A (H3N2) subclade (3C.2a1b.2a.2a.3a.1) in Kenya and globally in 2023 (doi:10.7910/DVN/5US8MM)

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Part 1: Document Description
Part 2: Study Description
Part 3: Data Files Description
Part 4: Variable Description
Part 5: Other Study-Related Materials
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Replication Data for: Emergence and predominance of novel influenza A (H3N2) subclade (3C.2a1b.2a.2a.3a.1) in Kenya and globally in 2023

doi:10.7910/DVN/5US8MM

Harvard Dataverse

2023-12-15

1

Morobe, John M.; Moraa, Edidah; Lambisia, Anorld W.; Mutunga, Martin; Kiage, Brenda; Katama, Esther N.; Makori, Timothy; Nyiro, Joyce U.; Ndwiga, Leonard; Nyagwange, James; Sande, Charles; Ochola-Oyier, Isabella; Holmes, Edward C.; Nokes, D. James; Githinji, George; Agoti, Charles N., 2023, "Replication Data for: Emergence and predominance of novel influenza A (H3N2) subclade (3C.2a1b.2a.2a.3a.1) in Kenya and globally in 2023", https://doi.org/10.7910/DVN/5US8MM, Harvard Dataverse, V1, UNF:6:TC88PD6abRiegX7HC538JA== [fileUNF]

Replication Data for: Emergence and predominance of novel influenza A (H3N2) subclade (3C.2a1b.2a.2a.3a.1) in Kenya and globally in 2023

doi:10.7910/DVN/5US8MM

Morobe, John M. (KEMRI-Wellcome Trust Research Programme, Kilifi, Kenya)

Moraa, Edidah (KEMRI-Wellcome Trust Research Programme, Kilifi, Kenya)

Lambisia, Anorld W. (KEMRI-Wellcome Trust Research Programme, Kilifi, Kenya)

Mutunga, Martin (KEMRI-Wellcome Trust Research Programme, Kilifi, Kenya)

Kiage, Brenda (KEMRI-Wellcome Trust Research Programme, Kilifi, Kenya)

Katama, Esther N. (KEMRI-Wellcome Trust Research Programme, Kilifi, Kenya)

Makori, Timothy (KEMRI-Wellcome Trust Research Programme, Kilifi, Kenya)

Nyiro, Joyce U. (KEMRI-Wellcome Trust Research Programme, Kilifi, Kenya)

Ndwiga, Leonard (KEMRI-Wellcome Trust Programme, Kilifi, Kenya)

Nyagwange, James (KEMRI-Wellcome Trust Programme, Kilifi, Kenya)

Sande, Charles (KEMRI-Wellcome Trust Programme, Kilifi, Kenya)

Ochola-Oyier, Isabella (KEMRI-Wellcome Trust Programme, Kilifi, Kenya)

Holmes, Edward C. (The University of Sydney)

Nokes, D. James (KEMRI-Wellcome Trust Programme, Kilifi, Kenya; University of Warwick, Coventry, UK)

Githinji, George (KEMRI-Wellcome Trust Programme, Kilifi, Kenya)

Agoti, Charles N. (KEMRI-Wellcome Trust Programme, Kilifi, Kenya)

Harvard Dataverse

Morobe, John M.

The Data Governance Committee

Morobe, John M.

2023-12-15

https://doi.org/10.7910/DVN/5US8MM

Medicine, Health and Life Sciences, Kenya, Influenza, H3N2, 3C.2a1b.2a.2a.3a.1

<p>This is a replication dataset for the manuscript titled: "<a href="">Emergence and predominance of novel influenza A (H3N2) subclade (3C.2a1b.2a.2a.3a.1) in Kenya and globally in 2023</a>."</p> <p>The related study is part of surveillance carried in Kilifi County in Kenya. The surveillance exist under two platforms: (a) pediatric inpatient surveillance of severe and very severe pneumonia in <5-year-olds at Kilifi County Hospital (KCH) and (b) all age groups outpatient acute respiratory infection (ARI) surveillance at five Kilifi County health facilities (HF). Specifically, the research study describes the occurrence of a new Influenza A (H3N2) subclade 3C.2a1b.2a.2a.3a.1 in Kenya and globally in 2023.</p>

Open Access

• Number of cases: 16124

• No. of variables per record: 3

• Type of File: text/tab-separated-values

UNF:6:fnSGCy6IJlV8LcvA1i+bfg==

• Number of cases: 388

• No. of variables per record: 5

• Type of File: text/tab-separated-values

UNF:6:ejkcQcSoAXI45R+BI1mGUw==

• Number of cases: 478

• No. of variables per record: 5

• Type of File: text/tab-separated-values

UNF:6:XX/U1XDD8+g5gNQaF/JuYw==

• Number of cases: 28

• No. of variables per record: 5

• Type of File: text/tab-separated-values

UNF:6:w3m2nv6T9qtBzmwki7v4Xg==

• Number of cases: 28

• No. of variables per record: 5

• Type of File: text/tab-separated-values

UNF:6:qIcr0aA7qogBAZgyRm6new==

• Number of cases: 1170

• No. of variables per record: 5

• Type of File: text/tab-separated-values

UNF:6:XQ9XmW5pJsiAuCxcJ3QP/A==

• Number of cases: 52

• No. of variables per record: 3

• Type of File: text/tab-separated-values

UNF:6:G0k1Wh69EiNre0/bBl5pEw==

• Number of cases: 197

• No. of variables per record: 3

• Type of File: text/tab-separated-values

UNF:6:7ksdSmn+Rid86NCKn3p1mw==

• Number of cases: 197

• No. of variables per record: 3

• Type of File: text/tab-separated-values

UNF:6:rYSo0pWh3iw2QQONRIBP4A==

• Number of cases: 112

• No. of variables per record: 3

• Type of File: text/tab-separated-values

UNF:6:I8svg2+uJipJ4QsBSBzclA==

• Number of cases: 156

• No. of variables per record: 3

• Type of File: text/tab-separated-values

UNF:6:QmtChMtfMucFkXIPunKqAQ==

• Isolate_Id - Isolate_Id
• Clade - Clade
• Collection_Date - Collection_Date
• seqname - seqname
• clade - clade
• domain - domain
• aa_substitution - aa_substitution
• positions - positions
• seqname - seqname
• clade - clade
• domain - domain
• aa_substitution - aa_substitution
• positions - positions
• seqname - seqname
• clade - clade
• domain - domain
• aa_substitution - aa_substitution
• position - position
• seqname - seqname
• clade - clade
• domain - domain
• aa_substitution - aa_substitution
• position - position
• study_no_anon - study_no_anon
• flua - flua
• flub - flub
• fluc - fluc
• date_collection - date_collection
• study_no_anon - study_no_anon
• clade_nextclade - clade_nextclade
• date_collection - date_collection
• seqname - seqname
• aa_substitution - aa_substitution
• position - position
• seqname - seqname
• aa_substitution - aa_substitution
• position - position
• seqname - seqname
• aa_substitution - aa_substitution
• position - position
• seqname - seqname
• aa_substitution - aa_substitution
• position - position

f7675613 Location:

Variable Format: character

Notes: UNF:6:c0+KTM4IdXhLkstGXhPp2w==

f7675613 Location:

Variable Format: character

Notes: UNF:6:QK4EZQjYonmrRUhoYoYrIw==

f7675613 Location:

Variable Format: character

Notes: UNF:6:+xUjylp+5yDv4imY4Ed/zQ==

f7675610 Location:

Variable Format: character

Notes: UNF:6:JwVQ/dWOrhwHaOl7HuzH7A==

f7675610 Location:

Variable Format: character

Notes: UNF:6:2HMkQV5spCtKX/89YiHRPw==

f7675610 Location:

Variable Format: character

Notes: UNF:6:1i/W1pzz7QRoKtx/5LHQCA==

f7675610 Location:

Variable Format: character

Notes: UNF:6:oQraDoBf7sSx/KY/JcqvgQ==

f7675610 Location:

Summary Statistics: Mean 153.58505154639178; Valid 388.0; Min. 3.0; Max. 542.0; StDev 129.1667011082623

Variable Format: numeric

Notes: UNF:6:3Lx64klBgNga25TGYrXPgg==

f7675612 Location:

Variable Format: character

Notes: UNF:6:cc7SE7ZuAkQVMH0rK7ff+Q==

f7675612 Location:

Variable Format: character

Notes: UNF:6:itu+FMTZn0ZGn4NLYsPqlA==

f7675612 Location:

Variable Format: character

Notes: UNF:6:AfQi9vrVTncrrTZjETeWxw==

f7675612 Location:

Variable Format: character

Notes: UNF:6:4MigXkMjhUGD1iGD6y9TBA==

f7675612 Location:

Summary Statistics: Mean 163.35983263598325; Max. 542.0; Min. 3.0; Valid 478.0; StDev 118.40871997454273;

Variable Format: numeric

Notes: UNF:6:70w/YCjriwdVAj+Rb8deBA==

f7675607 Location:

Variable Format: character

Notes: UNF:6:yqVBZPU3uI5NzC70voI6nA==

f7675607 Location:

Variable Format: character

Notes: UNF:6:RLkVDLfC04gRtbYfypaaGQ==

f7675607 Location:

Variable Format: character

Notes: UNF:6:0byh/2npB7e5T6/6TcGL+w==

f7675607 Location:

Variable Format: character

Notes: UNF:6:bJexKFAMKctcOkONdWVV+g==

f7675607 Location:

Summary Statistics: Mean 105.92857142857143; Min. 4.0; StDev 82.7311256628311; Valid 28.0; Max. 309.0;

Variable Format: numeric

Notes: UNF:6:9ZWEwze0yFSlqHe5UtJ0TA==

f7675611 Location:

Variable Format: character

Notes: UNF:6:yqVBZPU3uI5NzC70voI6nA==

f7675611 Location:

Variable Format: character

Notes: UNF:6:39RfW7YQJbxw6y8kDmBOsQ==

f7675611 Location:

Variable Format: character

Notes: UNF:6:0byh/2npB7e5T6/6TcGL+w==

f7675611 Location:

Variable Format: character

Notes: UNF:6:bJexKFAMKctcOkONdWVV+g==

f7675611 Location:

Summary Statistics: Max. 309.0; Mean 105.92857142857143; StDev 82.7311256628311; Valid 28.0; Min. 4.0

Variable Format: numeric

Notes: UNF:6:9ZWEwze0yFSlqHe5UtJ0TA==

f7675621 Location:

Summary Statistics: Mean 585.5; StDev 337.89421421504096; Min. 1.0; Max. 1170.0; Valid 1170.0

Variable Format: numeric

Notes: UNF:6:aky+2ZZMCk1DpDEHX2o5SA==

f7675621 Location:

Summary Statistics: Valid 1170.0; Mean 0.0495726495726497; Max. 1.0; StDev 0.21715318518995275; Min. 0.0

Variable Format: numeric

Notes: UNF:6:xIR41VZbL/g3LnNNuq8yTQ==

f7675621 Location:

Summary Statistics: Max. 1.0; StDev 0.071458176400846; Valid 1170.0; Mean 0.005128205128205145; Min. 0.0

Variable Format: numeric

Notes: UNF:6:w8D5XbQbo/juls2vFHV6Bw==

f7675621 Location:

Summary Statistics: Min. 0.0; Mean 0.0034188034188034288; Valid 1170.0; Max. 1.0; StDev 0.05839546007469418;

Variable Format: numeric

Notes: UNF:6:ua4X276zT5zskhud7y7mwQ==

f7675621 Location:

Variable Format: character

Notes: UNF:6:4hbCWuh0xFdWpeHOaQ9UTw==

f7675620 Location:

Summary Statistics: Valid 52.0; StDev 313.49238686356927; Mean 612.1153846153846; Min. 1.0; Max. 1169.0;

Variable Format: numeric

Notes: UNF:6:RlD9f22TXUvEhGaNnnLi1g==

f7675620 Location:

Variable Format: character

Notes: UNF:6:w5DZDiunZ8alp3PMaPeJRw==

f7675620 Location:

Variable Format: character

Notes: UNF:6:HNH3jTFcjQTZ/afBYYpjQA==

f7675605 Location:

Summary Statistics: Max. 251740.0; Mean 220810.73096446705; Valid 197.0; StDev 18852.577127563225; Min. 182577.0

Variable Format: numeric

Notes: UNF:6:XUHgTqbpXKCwb3xEHKR0ag==

f7675605 Location:

Variable Format: character

Notes: UNF:6:+NQ+M3+RmaK11VBATKfMdA==

f7675605 Location:

Summary Statistics: StDev 123.11470548021536; Min. 42.0; Max. 469.0; Valid 197.0; Mean 310.51269035532994

Variable Format: numeric

Notes: UNF:6:tcXH3PuYEQPAQmkCRunM8w==

f7675609 Location:

Summary Statistics: Max. 251740.0; Mean 220810.730964467; Min. 182577.0; StDev 18852.57712756321; Valid 197.0

Variable Format: numeric

Notes: UNF:6:Ex+tbdBciR3+5kDOhcvdlg==

f7675609 Location:

Variable Format: character

Notes: UNF:6:kKAUiR7QurXDeodhAXcPlw==

f7675609 Location:

Summary Statistics: Max. 469.0; Mean 310.5126903553299; Valid 197.0; Min. 42.0; StDev 123.11470548021538

Variable Format: numeric

Notes: UNF:6:UUf8+CRS9UU545IH1QSoJw==

f7675608 Location:

Summary Statistics: StDev 18941.247064415067; Mean 221574.57142857148; Max. 251740.0; Valid 112.0; Min. 182577.0

Variable Format: numeric

Notes: UNF:6:8dj0thZFZ94xiXjvyEBzog==

f7675608 Location:

Variable Format: character

Notes: UNF:6:k0Z9vgZIKMq0pXH988w8CA==

f7675608 Location:

Summary Statistics: StDev 92.81780599322043; Valid 112.0; Mean 303.91071428571433; Max. 434.0; Min. 19.0;

Variable Format: numeric

Notes: UNF:6:ecpcBLUrhZT1zIXVR1q9bg==

f7675606 Location:

Summary Statistics: Min. 182577.0; Max. 251740.0; Mean 220998.39102564106; StDev 18732.86916369665; Valid 156.0;

Variable Format: numeric

Notes: UNF:6:rBE6GS55KbuhAXW59fMPBA==

f7675606 Location:

Variable Format: character

Notes: UNF:6:EMUfayayZ9aHmS/anX2Gvg==

f7675606 Location:

Summary Statistics: StDev 89.25780265605688; Valid 156.0; Mean 277.4230769230769; Max. 434.0; Min. 19.0

Variable Format: numeric

Notes: UNF:6:+bJyKZdt/XTowgMf3u5Pqw==

Label:

JMwita_FluA_dataset_Readme.txt

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