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Human Kidney and Urine Proteome Project

Overview of Project

The Kidney maintains homeostasis of the body as the life-support system by excretion of unnecessary substances in the urine and by reabsorption of necessary molecules from the urine. This organ is often impaired insidiously by unknown causes to loose the function. Therefore, the Kidney and Urine Proteome Project (HKUPP) Initiative was established by kidney researchers and nephrologists with missions as follows:

  • To facilitate kidney and urine proteomics and to analyze proteomes of the kidney and urine in both health and disease conditions
  • To understand kidney functions and pathophysiology of kidney diseases by proteomics and bioinformatics
  • To construct databases of the kidney and urine proteomes in normal and diseased states and to open those for public to spread the proteome data in nephrology society through the HKUPP website (http://www.hkupp.org)
  • To collaborate with other HUPO initiatives for disclosure of uniqueness of kidney proteome and of kidney disease-related proteins
  • To propose novel urinary biomarkers for kidney diseases and new drug targets for kidney diseases

Current lines of work:

  • Definition of proteomes of kidney nephron and other parts by proteomics of them micro-dissected from the kidney sections
  • Definition of priority protein lists relevant in liver physiology and participating in the molecular pathogenesis of liver disorders
  • To develop standardized methods applicable for proteomic analysis of clinical kidney biopsy specimens
  • To identify urine biomarkers for early detection of kidney diseases and liquid biopsy

Papers:

1. Severity and Frequency of Proximal Tubule Injury Determines Renal Prognosis.

Takaori K, Nakamura J, Yamamoto S, Nakata H, Sato Y, Takase M, Nameta M, Yamamoto T, Economides AN, Kohno K, Haga H, Sharma K, Yanagita M.

J Am Soc Nephrol. 2015 Dec 23. pii: ASN.2015060647. [Epub ahead of print] PMID: 26701981

2. The Urinary Bladder Transcriptome and Proteome Defined by Transcriptomics and Antibody-Based Profiling.

Habuka M, Fagerberg L, Hallström BM, Pontén F, Yamamoto T, Uhlen M.

PLoS One. 2015 Dec 22;10(12):e0145301. doi: 10.1371/journal.pone.0145301. eCollection 2015.

PMID: 26694548 Free PMC Article

3. Leptin deficiency down-regulates IL-23 production in glomerular podocytes resulting in an attenuated immune response in nephrotoxic serum nephritis.

Goto K, Kaneko Y, Sato Y, Otsuka T, Yamamoto S, Goto S, Yamamoto K, Yamamoto T, Kawachi H, Madaio MP, Narita I.

Int Immunol. 2015 Nov 13. pii: dxv067. [Epub ahead of print] PMID: 26567290

4. A proteomic glimpse into human ureter proteome.

Magdeldin S, Hirao Y, Elguoshy A, Xu1 B, Zhang Y, Fujinaka H, Yamamoto K, Yates JR 3rd, Yamamoto T.

Proteomics. 2015 Oct 7. doi: 10.1002/pmic.201500214. [Epub ahead of print] PMID: 26442468

5. Datasets from label-free quantitative proteomic analysis of human glomeruli with sclerotic lesions. 

Zhang Y, Xu B, Kinoshita N, Yoshida Y, Tasaki M, Fujinaka H, Magdeldin S, Yaoita E, Yamamoto T.  Data Brief. 2015 May 27;4:180-5. doi: 10.1016/j.dib.2015.05.013. eCollection 2015 Sep. PMID:26217785  Free PMC Article

6. Complementary Protein and Peptide OFFGEL Fractionation for High-Throughput Proteomic Analysis. 

Magdeldin S, Elguoshy A, Yoshida Y, Hirao Y, Xu B, Zhang Y, Yamamoto K, Takimoto H, Fujinaka H, Kinoshita N, Yamamoto T. Anal Chem. 2015 Aug 18;87(16):8481-8. doi: 10.1021/acs.analchem.5b01911. Epub 2015 Jul 28.

7. Label-free quantitative proteomic analysis reveals strong involvement of complement alternative and terminal pathways in human glomerular sclerotic lesions.

Zhang Y, Xu B, Kinoshita N, Yoshida Y, Tasaki M, Fujinaka H, Magdeldin S, Yaoita E, Yamamoto T.

J Proteomics. 2015 Jun 18;123:89-100. doi: 10.1016/j.jprot.2015.03.024. Epub 2015 Mar 30.  PMID: 25835966 Select item 25825003

8. Unrestricted modification search reveals lysine methylation as major modification induced by tissue formalin fixation and paraffin-embedding.Zhang Y, Muller M, Xu B, Yoshida Y, Horlacher O, Nikitin F, Garessus S, Magdeldin S, Kinoshita N, Fujinaka H, Yaoita E, Hasegawa M, Lisacek F, Yamamoto T.

Proteomics. 2015 Aug;15(15):2568-79. doi: 10.1002/pmic.201400454. Epub 2015 May 3.

9. Identification of ageing-associated naturally occurring peptides in human urine.

Nkuipou-Kenfack E, Bhat A, Klein J, Jankowski V, Mullen W, Vlahou A, Dakna M, Koeck T, Schanstra JP, Zürbig P, Rudolph KL, Schumacher B, Pich A, Mischak H.

Oncotarget. 2015 Oct 27;6(33):34106-17. doi: 10.18632/oncotarget.5896.

Links to other HPP groups:

Participating chromosomes: X

Leadership:

Tadashi Yamamoto, Chair
John Arthur, Co-Chair

For more information or participation opportunities please contact office(at)hupo.org.



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