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TranscriptomicsAssessing rejection-related disease in kidney transplant biopsies based on archetypal analysis of molecular phenotypes
Molecular phenotyping of biopsies affords opportunities for increased precision and improved disease classification to address the limitations of conventional histologic diagnostic systems. We applied archetypal analysis, an unsupervised method similar to cluster analysis, to microarray data from 12...
ORGANISM(S): Homo sapiens 
2017-07-10 | E-GEOD-98320 | biostudies-arrayexpress
TranscriptomicsMolecular diagnosis of T cell and/or antibody-mediated rejection in human kidney transplant biopsies
Histologic diagnosis of T cell-mediated rejection in kidney transplant biopsies has limited reproducibility because it is based on non-specific lesions using arbitrary rules that are subject to differing interpretations. We used microarray results from 403 indication biopsies previously given histol...
ORGANISM(S): Homo sapiens 
2013-02-13 | E-GEOD-36059 | biostudies-arrayexpress
TranscriptomicsKidney Transplant Rejection and Tissue Injury by Gene Profiling of Biopsies and Peripheral Blood Lymphocytes
We used DNA microarrays (HG-U95Av2 GeneChips) to determine gene expression profiles for kidney biopsies and peripheral blood lymphocytes (PBLs) in transplant patients. Sample classes include kidney biopsies and PBLs from patients with 1) healthy normal donor kidneys, 2) well-functioning transplants ...
ORGANISM(S): Homo sapiens 
2004-07-14 | E-GEOD-1563 | biostudies-arrayexpress
TranscriptomicsThe effect of cortex/medulla proportions on molecular diagnoses in kidney transplant biopsies: rejection and injury can be assessed in medulla
Histologic assessment of kidney transplant biopsies relies on cortex rather than medulla, but for microarray studies, the proportion cortex in a biopsy is typically unknown and could affect the molecular readings. The present study aimed to develop a molecular estimate of proportion cortex in biopsi...
ORGANISM(S): Homo sapiens 
2017-04-27 | E-GEOD-95611 | biostudies-arrayexpress
TranscriptomicsTranscriptome analysis in human kidney to investigate whether fibrosis with inflammation at one year post transplant predicts transplant functional decline
We previously observed reduced graft survival for kidney transplants having interstitial fibrosis with subclinical inflammation, but not fibrosis alone, on 1-year protocol biopsy. The current study aimed to determine whether fibrosis with inflammation at 1 year is associated with renal functional de...
ORGANISM(S): Homo sapiens 
2010-11-01 | E-GEOD-22459 | biostudies-arrayexpress
TranscriptomicsPeripheral blood biomarker signatures for acute kidney transplant rejection
In the present work, we have used whole genome expression profiling of peripheral blood samples from 51 patients with biopsy-proven acute kidney transplant rejection and 24 patients with excellent function and biopsy-proven normal transplant histology. The results demonstrate that there are 1738 pro...
ORGANISM(S): Homo sapiens 
2014-03-01 | E-GEOD-15296 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of molecular phenotypes of acute kidney injury in kidney transplants
Microarray analysis of human kidneys with acute kidney injury (AKI) has been limited because such kidneys are seldom biopsied. However, all kidney transplants experience AKI, and early kidney transplants without rejection are an excellent model for human AKI: they are screened to exclude chronic kid...
ORGANISM(S): Homo sapiens 
2012-02-21 | E-GEOD-30718 | biostudies-arrayexpress
TranscriptomicsThe clinical and genomic significance of donor-specific antibody (DSA) positive/C4d negative and DSA negative/C4d negative transplant glomerulopathy
We investigated the clinical, histopathologic and genomic features of donor-specific antibody (DSA) +/C4d- and DSA-/C4d- transplant glomerulopathy (TGP) using microarrays. Comparison of the gene expression profiles of DSA-/C4d- TGP biopsies with ptc+g score > 1 to normal and IFTA (Interstitial Fibr...
ORGANISM(S): Homo sapiens 
2013-02-07 | E-GEOD-44131 | biostudies-arrayexpress
TranscriptomicsMolecular characterization of chronic antibody mediated rejection in kidney transplantation (mRNA)
Chronic antibody-mediated rejection (CAMR) represents the main cause of kidney graft loss, but its pathogenesis is unclear. In order to uncover the molecular mechanisms underlying this condition, we characterized the molecular signature of circulating peripheral blood mononuclear cells and, separate...
ORGANISM(S): Homo sapiens 
2015-12-10 | E-GEOD-51675 | biostudies-arrayexpress
TranscriptomicsMolecular characterization of chronic antibody mediated rejection in kidney transplantation (microRNA)
Chronic antibody-mediated rejection (CAMR) represents the main cause of kidney graft loss, but its pathogenesis is unclear. In order to uncover the molecular mechanisms underlying this condition, we characterized the molecular signature of circulating peripheral blood mononuclear cells and, separate...
ORGANISM(S): Homo sapiens 
2015-12-10 | E-GEOD-51676 | biostudies-arrayexpress
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