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      Multi-Scalar Data Integration Links Glomerular Angiopoietin-Tie Signaling Pathway Activation With Progression of Diabetic Kidney Disease

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          Abstract

          Diabetic kidney disease (DKD) is the leading cause of end-stage kidney disease (ESKD). Prognostic biomarkers reflective of underlying molecular mechanisms are critically needed for effective management of DKD. A three-marker panel was derived from a proteomics analysis of plasma samples by an unbiased machine learning approach from participants ( N = 58) in the Clinical Phenotyping and Resource Biobank study. In combination with standard clinical parameters, this panel improved prediction of the composite outcome of ESKD or a 40% decline in glomerular filtration rate. The panel was validated in an independent group ( N = 68), who also had kidney transcriptomic profiles. One marker, plasma angiopoietin 2 (ANGPT2), was significantly associated with outcomes in cohorts from the Cardiovascular Health Study ( N = 3,183) and the Chinese Cohort Study of Chronic Kidney Disease ( N = 210). Glomerular transcriptional angiopoietin/Tie (ANG-TIE) pathway scores, derived from the expression of 154 ANG-TIE signaling mediators, correlated positively with plasma ANGPT2 levels and kidney outcomes. Higher receptor expression in glomeruli and higher ANG-TIE pathway scores in endothelial cells corroborated potential functional effects in the kidney from elevated plasma ANGPT2 levels. Our work suggests that ANGPT2 is a promising prognostic endothelial biomarker with likely functional impact on glomerular pathogenesis in DKD.

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          Most cited references61

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          A new equation to estimate glomerular filtration rate.

          Equations to estimate glomerular filtration rate (GFR) are routinely used to assess kidney function. Current equations have limited precision and systematically underestimate measured GFR at higher values. To develop a new estimating equation for GFR: the Chronic Kidney Disease Epidemiology Collaboration (CKD-EPI) equation. Cross-sectional analysis with separate pooled data sets for equation development and validation and a representative sample of the U.S. population for prevalence estimates. Research studies and clinical populations ("studies") with measured GFR and NHANES (National Health and Nutrition Examination Survey), 1999 to 2006. 8254 participants in 10 studies (equation development data set) and 3896 participants in 16 studies (validation data set). Prevalence estimates were based on 16,032 participants in NHANES. GFR, measured as the clearance of exogenous filtration markers (iothalamate in the development data set; iothalamate and other markers in the validation data set), and linear regression to estimate the logarithm of measured GFR from standardized creatinine levels, sex, race, and age. In the validation data set, the CKD-EPI equation performed better than the Modification of Diet in Renal Disease Study equation, especially at higher GFR (P < 0.001 for all subsequent comparisons), with less bias (median difference between measured and estimated GFR, 2.5 vs. 5.5 mL/min per 1.73 m(2)), improved precision (interquartile range [IQR] of the differences, 16.6 vs. 18.3 mL/min per 1.73 m(2)), and greater accuracy (percentage of estimated GFR within 30% of measured GFR, 84.1% vs. 80.6%). In NHANES, the median estimated GFR was 94.5 mL/min per 1.73 m(2) (IQR, 79.7 to 108.1) vs. 85.0 (IQR, 72.9 to 98.5) mL/min per 1.73 m(2), and the prevalence of chronic kidney disease was 11.5% (95% CI, 10.6% to 12.4%) versus 13.1% (CI, 12.1% to 14.0%). The sample contained a limited number of elderly people and racial and ethnic minorities with measured GFR. The CKD-EPI creatinine equation is more accurate than the Modification of Diet in Renal Disease Study equation and could replace it for routine clinical use. National Institute of Diabetes and Digestive and Kidney Diseases.
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            Regularization Paths for Generalized Linear Models via Coordinate Descent

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              I propose a new method for variable selection and shrinkage in Cox's proportional hazards model. My proposal minimizes the log partial likelihood subject to the sum of the absolute values of the parameters being bounded by a constant. Because of the nature of this constraint, it shrinks coefficients and produces some coefficients that are exactly zero. As a result it reduces the estimation variance while providing an interpretable final model. The method is a variation of the 'lasso' proposal of Tibshirani, designed for the linear regression context. Simulations indicate that the lasso can be more accurate than stepwise selection in this setting.
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                Author and article information

                Journal
                Diabetes
                Diabetes
                diabetes
                Diabetes
                American Diabetes Association
                0012-1797
                1939-327X
                December 2022
                04 November 2022
                04 November 2022
                : 71
                : 12
                : 2664-2676
                Affiliations
                [1 ]Division of Nephrology, Department of Internal Medicine, University of Michigan, Ann Arbor, MI
                [2 ]Department of Nephrology, The Second Xiangya Hospital, Central South University, Changsha, China
                [3 ]Renal Division, Department of Medicine, Peking University First Hospital, Beijing, China
                [4 ]Division of Nephrology, University of Washington, Seattle, WA
                [5 ]Nephrology, Ascension St. John Hospital, Detroit, MI
                [6 ]Division of Cardiovascular Medicine, Department of Internal Medicine, University of Michigan, Ann Arbor, MI
                [7 ]Department of Nephrology and Hypertension, Department of Medicine, Wayne State University, Detroit, MI
                [8 ]Kidney and Hypertension Unit, Joslin Diabetes Center and Harvard Medical School, Boston, MA
                [9 ]Department of Medicine, Cleveland Clinic, Cleveland, OH
                [10 ]Department of Internal Medicine, UT Southwestern Medical Center, Dallas, TX
                [11 ]Section of Nephrology, Department of Medicine, Boston University School of Medicine and Boston Medical Center, Brookline, MA
                [12 ]Division of Nephrology, Department of Medicine, University of Arizona, Tucson, AZ
                [13 ]Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI
                Author notes
                Corresponding authors: Matthias Kretzler, kretzler@ 123456umich.edu , and Wenjun Ju, wenjunj@ 123456med.umich.edu
                Author information
                https://orcid.org/0000-0002-9136-8454
                Article
                220169
                10.2337/db22-0169
                9750948
                36331122
                5c7d440c-9536-450f-9571-428057160095
                © 2022 by the American Diabetes Association

                Readers may use this article as long as the work is properly cited, the use is educational and not for profit, and the work is not altered. More information is available at https://www.diabetesjournals.org/journals/pages/license.

                History
                : 17 February 2022
                : 17 August 2022
                Funding
                Funded by: National Heart, Lung, and Blood Institute (NHLBI);
                Award ID: 75N92021D00006
                Award ID: HHSN268200800007C
                Award ID: HHSN268201200036C
                Award ID: HHSN268201800001C
                Award ID: N01HC55222
                Award ID: N01HC85079
                Award ID: N01HC85080
                Award ID: N01HC85081
                Award ID: N01HC85082
                Award ID: N01HC85083
                Award ID: N01HC85086
                Award ID: U01HL080295
                Award ID: U01HL130114
                Funded by: National Institute of Neurological Disorders and Stroke (NINDS);
                Funded by: National Institute on Aging (NIA);
                Award ID: R01AG023629
                Funded by: JDRF Center for Excellence;
                Award ID: 5-COE-2019-861-S-B
                Funded by: National Institute of Diabetes and Digestive and Kidney Diseases, DOI 10.13039/100000062;
                Award ID: 2P30-DK-081943
                Award ID: P30DK89503
                Award ID: R24DK082841
                Award ID: UH3-DK-114907
                Funded by: China International Medical Foundation-Renal Anemia Fund;
                Funded by: China Scholarship Council, DOI 10.13039/501100004543;
                Award ID: 201906370288
                Funded by: National Natural Science Foundation of China, DOI 10.13039/501100001809;
                Award ID: 82070748
                Award ID: 82090020
                Award ID: 82090021
                Funded by: University of Michigan, DOI 10.13039/100007270;
                Funded by: University of Michigan Health System and Peking University Health Sciences Center Joint Institute for Translational and Clinical Research;
                Award ID: BMU2017JI001
                Funded by: National Institutes of Health, DOI 10.13039/100000002;
                Award ID: 5UH3DK114870-05
                Categories
                Pathophysiology

                Endocrinology & Diabetes
                Endocrinology & Diabetes

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