Literature DB >> 31992571

Systems Biology and Kidney Disease.

Jennifer A Schaub1, Habib Hamidi1, Lalita Subramanian1, Matthias Kretzler2.   

Abstract

The kidney is a complex organ responsible for maintaining multiple aspects of homeostasis in the human body. The combination of distinct, yet interrelated, molecular functions across different cell types make the delineation of factors associated with loss or decline in kidney function challenging. Consequently, there has been a paucity of new diagnostic markers and treatment options becoming available to clinicians and patients in managing kidney diseases. A systems biology approach to understanding the kidney leverages recent advances in computational technology and methods to integrate diverse sets of data. It has the potential to unravel the interplay of multiple genes, proteins, and molecular mechanisms that drive key functions in kidney health and disease. The emergence of large, detailed, multilevel biologic and clinical data from national databases, cohort studies, and trials now provide the critical pieces needed for meaningful application of systems biology approaches in nephrology. The purpose of this review is to provide an overview of the current state in the evolution of the field. Recent successes of systems biology to identify targeted therapies linked to mechanistic biomarkers in the kidney are described to emphasize the relevance to clinical care and the outlook for improving outcomes for patients with kidney diseases.
Copyright © 2020 by the American Society of Nephrology.

Entities:  

Keywords:  Genomics; Kidney Genomics Series; bioinformatics; biomarkers; cohort studies; gene expression; homeostasis; human body; humans; kidney; kidney biopsy; kidney disease; kidney diseases; nephrology; precision medicine; proteomics; systems biology; transcriptional profiling; urinary tract physiological phenomena

Year:  2020        PMID: 31992571      PMCID: PMC7269226          DOI: 10.2215/CJN.09990819

Source DB:  PubMed          Journal:  Clin J Am Soc Nephrol        ISSN: 1555-9041            Impact factor:   8.237


  65 in total

Review 1.  Defining Glomerular Disease in Mechanistic Terms: Implementing an Integrative Biology Approach in Nephrology.

Authors:  Laura H Mariani; William F Pendergraft; Matthias Kretzler
Journal:  Clin J Am Soc Nephrol       Date:  2016-09-14       Impact factor: 8.237

Review 2.  Systems biology of kidney diseases.

Authors:  John Cijiang He; Peter Y Chuang; Avi Ma'ayan; Ravi Iyengar
Journal:  Kidney Int       Date:  2011-08-31       Impact factor: 10.612

3.  Value of urinary levels of interleukin-6, epidermal growth factor, monocyte chemoattractant protein type1 and transforming growth factor β1 in predicting the extent of fibrosis lesions in kidney biopsies of patients with IgA nephropathy.

Authors:  Alfons Segarra-Medrano; Clara Carnicer-Caceres; Naiara Valtierra-Carmeno; Irene Agraz-Pamplona; Natalia Ramos-Terrades; Elías Jatem Escalante; Elena Ostos-Roldan
Journal:  Nefrologia       Date:  2017 Sep - Oct       Impact factor: 2.033

Review 4.  The landscape of clinical trials in nephrology: a systematic review of Clinicaltrials.gov.

Authors:  Jula K Inrig; Robert M Califf; Asba Tasneem; Radha K Vegunta; Christopher Molina; John W Stanifer; Karen Chiswell; Uptal D Patel
Journal:  Am J Kidney Dis       Date:  2013-12-06       Impact factor: 8.860

Review 5.  Systems biology approaches to identify disease mechanisms and facilitate targeted therapy in the management of glomerular disease.

Authors:  Habib Hamidi; Matthias Kretzler
Journal:  Curr Opin Nephrol Hypertens       Date:  2018-11       Impact factor: 2.894

6.  Integrative clustering of multiple genomic data types using a joint latent variable model with application to breast and lung cancer subtype analysis.

Authors:  Ronglai Shen; Adam B Olshen; Marc Ladanyi
Journal:  Bioinformatics       Date:  2009-09-16       Impact factor: 6.937

Review 7.  PLA2R and THSD7A: Disparate Paths to the Same Disease?

Authors:  Laurence H Beck
Journal:  J Am Soc Nephrol       Date:  2017-07-03       Impact factor: 10.121

Review 8.  Systems Medicine: The Application of Systems Biology Approaches for Modern Medical Research and Drug Development.

Authors:  Duncan Ayers; Philip J Day
Journal:  Mol Biol Int       Date:  2015-08-18

9.  Digital pathology imaging as a novel platform for standardization and globalization of quantitative nephropathology.

Authors:  Laura Barisoni; Charlotte Gimpel; Renate Kain; Arvydas Laurinavicius; Gloria Bueno; Caihong Zeng; Zhihong Liu; Franz Schaefer; Matthias Kretzler; Lawrence B Holzman; Stephen M Hewitt
Journal:  Clin Kidney J       Date:  2017-02-18

10.  Clinically applicable deep learning for diagnosis and referral in retinal disease.

Authors:  Jeffrey De Fauw; Joseph R Ledsam; Bernardino Romera-Paredes; Stanislav Nikolov; Nenad Tomasev; Sam Blackwell; Harry Askham; Xavier Glorot; Brendan O'Donoghue; Daniel Visentin; George van den Driessche; Balaji Lakshminarayanan; Clemens Meyer; Faith Mackinder; Simon Bouton; Kareem Ayoub; Reena Chopra; Dominic King; Alan Karthikesalingam; Cían O Hughes; Rosalind Raine; Julian Hughes; Dawn A Sim; Catherine Egan; Adnan Tufail; Hugh Montgomery; Demis Hassabis; Geraint Rees; Trevor Back; Peng T Khaw; Mustafa Suleyman; Julien Cornebise; Pearse A Keane; Olaf Ronneberger
Journal:  Nat Med       Date:  2018-08-13       Impact factor: 53.440

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  3 in total

Review 1.  The Michigan O'Brien Kidney Research Center: transforming translational kidney research through systems biology.

Authors:  Markus Bitzer; Wenjun Ju; Lalita Subramanian; Jonathan P Troost; Joseph Tychewicz; Becky Steck; Roger C Wiggins; Debbie S Gipson; Crystal A Gadegbeku; Frank C Brosius; Matthias Kretzler; Subramaniam Pennathur
Journal:  Am J Physiol Renal Physiol       Date:  2022-08-04

2.  Isolation of Viable Single Cells With High Yield and Purity Using a Small Amount of Human Kidney Tissue Biopsy.

Authors:  Hasnaa Yaigoub; Hasna Tirichen; Xiaohong Xin; Shuhong Shi; Changxin Wu; Rongshan Li; Yafeng Li
Journal:  Front Cell Dev Biol       Date:  2022-05-10

Review 3.  Precision medicine for the treatment of glomerulonephritis: a bold goal but not yet a transformative achievement.

Authors:  Richard J Glassock
Journal:  Clin Kidney J       Date:  2021-12-11
  3 in total

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