TY - JOUR
T1 - Predictive approaches for acute dialysis requirement and death in COVID-19
AU - Vaid, Akhil
AU - Chan, Lili
AU - Chaudhary, Kumardeep
AU - Jaladanki, Suraj K.
AU - Paranjpe, Ishan
AU - Russak, Adam
AU - Kia, Arash
AU - Timsina, Prem
AU - Levin, Matthew A.
AU - He, John Cijiang
AU - Böttinger, Erwin P.
AU - Charney, Alexander W.
AU - Fayad, Zahi A.
AU - Coca, Steven G.
AU - Glicksberg, Benjamin S.
AU - Nadkarni, Girish N.
AU - Charney, Alex
AU - Just, Allan C.
AU - Glicksberg, Benjamin
AU - Nadkarni, Girish
AU - Huckins, Laura
AU - O’Reilly, Paul
AU - Miotto, Riccardo
AU - Fayad, Zahi
AU - Russak, Adam J.
AU - Rahman, Adeeb
AU - Vaid, Akhil
AU - Dobbyn, Amanda Le
AU - Leader, Andrew
AU - Moscati, Arden
AU - Kapoor, Arjun
AU - Chang, Christie
AU - Bellaire, Christopher
AU - Carrion, Daniel
AU - Chaudhry, Fayzan
AU - Richter, Felix
AU - Soultanidis, Georgios
AU - Paranjpe, Ishan
AU - Nabeel, Ismail
AU - De Freitas, Jessica
AU - Xu, Jiayi
AU - Rush, Johnathan
AU - Johnson, Kipp
AU - Vemuri, Krishna
AU - Chaudhary, Kumardeep
AU - Lepow, Lauren
AU - Cotter, Liam
AU - Liharska, Lora
AU - Pereanez, Marco
AU - Bicak, Mesude
AU - Defelice, Nicholas
AU - Naik, Nidhi
AU - Beckmann, Noam
AU - Nadukuru, Rajiv
AU - O’Hagan, Ross
AU - Zhao, Shan
AU - Somani, Sulaiman
AU - Van Vleck, Tielman T.
AU - Mutetwa, Tinaye
AU - Wanyan, Tingyi
AU - Fauveau, Valentin
AU - Yang, Yang
AU - Lavin, Yonit
AU - Lanksy, Alona
AU - Atreja, Ashish
AU - Del Valle, Diane
AU - Meyer, Dara
AU - Golden, Eddye
AU - Fasihuddin, Farah
AU - Wen, Huei Hsun
AU - Rogers, Jason
AU - Gutierrez, Jennifer Lilly
AU - Walker, Laura
AU - Singh, Manbir
AU - Danieletto, Matteo
AU - Nieves, Melissa A.
AU - Zweig, Micol
AU - Pyzik, Renata
AU - Fayad, Rima
AU - Glowe, Patricia
AU - Calorossi, Sharlene
AU - Kaur, Sparshdeep
AU - Ascolillo, Steven
AU - Roa, Yovanna
AU - Lala-Trindade, Anuradha
AU - Coca, Steven G.
AU - Percha, Bethany
AU - Sigel, Keith
AU - Polak, Paz
AU - Hirten, Robert
AU - Swartz, Talia
AU - Do, Ron
AU - Loos, Ruth J.F.
AU - Charney, Dennis
AU - Nestler, Eric
AU - Murphy, Barbara
AU - Reich, David
AU - Böttinger, Erwin
AU - Chatani, Kumar
AU - Martin, Glenn
AU - Kovatch, Patricia
AU - Finkelstein, Joseph
AU - Murphy, Barbara
AU - Buxbaum, Joseph
AU - Cho, Judy
AU - Kasarskis, Andrew
AU - Horowitz, Carol
AU - Cordon-Cardo, Carlos
AU - Sohn, Monica
AU - Martin, Glenn
AU - Garcia-Sastre, Adolfo
AU - Bagiella, Emilia
AU - Krammer, Florian
AU - Aberg, Judith
AU - Narula, Jagat
AU - Wright, Robert
AU - Lium, Erik
AU - Wright, Rosalind
AU - Gelijns, Annetine
AU - Fuster, Valentin
AU - Merad, Miriam
N1 - Funding Information:
G.N. Nadkarni is supported by the NIH career development award grant K23DK107908 and is also supported by NIH grant R56DK126930. L. Chan is supported by the National Institute of Diabetes and Digestive and Kidney Diseases career development grant K23DK124645.
Funding Information:
E.P. Bo€ttinger reports receiving honoraria from Bayer, Bosch Health Campus, Sanofi, and Siemens; having consultancy agreements with Deloitte and Roland Berger; ownership interest in Digital Medicine E. Bo€ttinger GmbH, EBCW GmbH, and Ontomics, Inc.; and serving as a scientific advisor for, or member of, Bosch Health Campus and Seer Biosciences Inc. L. Chan reports receiving honoraria from Fresenius Medical Care, being employed by Icahn School of Medicine at Mount Sinai, receiving research funding from the National Institutes of Health (NIH), and receiving financial compensation as a consultant for Vifor Pharma Inc. K. Chaudhary reports serving as a statistical advisor at BMC Cancer and as an associate editor of BMC Medical Genomics, and being employed by Icahn School of Medicine at Mount Sinai. S.G. Coca reports having consultancy agreements with Akebia, Bayer, Boehringer Ingelheim, CHF Solutions, Relypsa, RenalytixAI, Quark, and Takeda Pharmaceuticals; being supported by NIH grants U01DK106962, R01DK115562, R01HL085757, U01OH011326, R01DK112258, and KRTI UG 2019; serving on the editorial boards of CJASN, JASN, and Kidney International and as an associate editor of Kidney360; receiving consulting fees from Goldfinch Bio and inRegen; being employed by Icahn School of Medicine at Mount Sinai (Mount Sinai owns part of RenalytixAI); receiving research funding from inRegen and RenalytixAI; having ownership interest in pulseData and RenalytixAI; having patents and inventions with RenalytixAI; and serving as a scientific advisor or member of RenalytixAI. Z.A. Fayad reports receiving honoraria from Alexion and GlaxoSmithKline; receiving research funding from Amgen, Bristol Myers Squibb, Daiichi Sankyo, NIH, and Siemens Healthi-neers; being employed by Mount Sinai Medical Center; having ownership interest in, consultancy agreements with, and serving as a scientific advisor for, or member of, Trained Therapeutix Discovery; and having patents and inventions with Trained Thera-peutix Discovery. B.S. Glicksberg, S.K. Jaladanki, A. Kia, M.A. Levin, A. Russak, and P. Timsina report being employed by Icahn School of Medicine at Mount Sinai. J.C. He reports serving on the editorial boards for American Journal of Physiology, Diabetes, JASN, and Kidney International; receiving honoraria ($3400) from AstraZe-neca; serving as a board member of the Chinese American Society of Nephrology and International Chinese Society of Nephrology; being employed by Icahn School of Medicine at Mount Sinai; serving as an associate editor for Kidney Disease and section editor for Nephron; having consultancy agreements with, and owning equity in, Renalytix AI; and receiving research funding from Shang-pharma Innovation. G.N. Nadkarni reports receiving consulting fees from AstraZeneca, BioVie, GLG Consulting, and Reata; receiving research funding from Goldfinch Bio; being supported by National Institutes of Health (NIH) grants R01DK108803, U01HG007278, U01HG009610, and U01DK116100; and having ownership interest in, being employed by, having consultancy agreements with, and serving as a scientific advisor for, or member of, Pensieve Health and RenalytixAI. All remaining authors have nothing to disclose.
Publisher Copyright:
© 2021 by the American Society of Nephrology.
PY - 2021/8/1
Y1 - 2021/8/1
N2 - Background and objectives AKI treated with dialysis initiation is a common complication of coronavirus disease 2019 (COVID-19) among hospitalized patients. However, dialysis supplies and personnel are often limited. Design, setting, participants, & measurements Using data from adult patients hospitalized with COVID-19 from five hospitals from theMount Sinai Health System who were admitted between March 10 and December 26, 2020, we developed and validated several models (logistic regression, Least Absolute Shrinkage and Selection Operator (LASSO), random forest, and eXtreme GradientBoosting [XGBoost; with and without imputation]) for predicting treatment with dialysis or death at various time horizons (1, 3, 5, and 7 days) after hospital admission. Patients admitted to theMount Sinai Hospital were used for internal validation, whereas the other hospitals formed part of the external validation cohort. Features included demographics, comorbidities, and laboratory and vital signs within 12 hours of hospital admission. Results A total of 6093 patients (2442 in training and 3651 in external validation) were included in the final cohort. Of the different modeling approaches used, XGBoost without imputation had the highest area under the receiver operating characteristic (AUROC) curve on internal validation (range of 0.93–0.98) and area under the precisionrecall curve (AUPRC; range of 0.78–0.82) for all time points. XGBoost without imputation also had the highest test parameters on external validation (AUROC range of 0.85–0.87, and AUPRC range of 0.27–0.54) across all time windows. XGBoost without imputation outperformed all models with higher precision and recall (mean difference in AUROC of 0.04; mean difference in AUPRC of 0.15). Features of creatinine, BUN, and red cell distribution width were major drivers of the model’s prediction. Conclusions An XGBoost model without imputation for prediction of a composite outcome of either death or dialysis in patients positive for COVID-19 had the best performance, as compared with standard and +other machine learning models.
AB - Background and objectives AKI treated with dialysis initiation is a common complication of coronavirus disease 2019 (COVID-19) among hospitalized patients. However, dialysis supplies and personnel are often limited. Design, setting, participants, & measurements Using data from adult patients hospitalized with COVID-19 from five hospitals from theMount Sinai Health System who were admitted between March 10 and December 26, 2020, we developed and validated several models (logistic regression, Least Absolute Shrinkage and Selection Operator (LASSO), random forest, and eXtreme GradientBoosting [XGBoost; with and without imputation]) for predicting treatment with dialysis or death at various time horizons (1, 3, 5, and 7 days) after hospital admission. Patients admitted to theMount Sinai Hospital were used for internal validation, whereas the other hospitals formed part of the external validation cohort. Features included demographics, comorbidities, and laboratory and vital signs within 12 hours of hospital admission. Results A total of 6093 patients (2442 in training and 3651 in external validation) were included in the final cohort. Of the different modeling approaches used, XGBoost without imputation had the highest area under the receiver operating characteristic (AUROC) curve on internal validation (range of 0.93–0.98) and area under the precisionrecall curve (AUPRC; range of 0.78–0.82) for all time points. XGBoost without imputation also had the highest test parameters on external validation (AUROC range of 0.85–0.87, and AUPRC range of 0.27–0.54) across all time windows. XGBoost without imputation outperformed all models with higher precision and recall (mean difference in AUROC of 0.04; mean difference in AUPRC of 0.15). Features of creatinine, BUN, and red cell distribution width were major drivers of the model’s prediction. Conclusions An XGBoost model without imputation for prediction of a composite outcome of either death or dialysis in patients positive for COVID-19 had the best performance, as compared with standard and +other machine learning models.
UR - http://www.scopus.com/inward/record.url?scp=85113233848&partnerID=8YFLogxK
U2 - 10.2215/CJN.17311120
DO - 10.2215/CJN.17311120
M3 - Article
C2 - 34031183
AN - SCOPUS:85113233848
SN - 1555-9041
VL - 16
SP - 1158
EP - 1168
JO - Clinical Journal of the American Society of Nephrology
JF - Clinical Journal of the American Society of Nephrology
IS - 8
ER -