Human Gene Set: FLECHNER_BIOPSY_KIDNEY_TRANSPLANT_OK_VS_DONOR_UP


Standard name FLECHNER_BIOPSY_KIDNEY_TRANSPLANT_OK_VS_DONOR_UP
Systematic name M4023
Brief description Genes up-regulated in kidney biopsies from patients with well functioning kidneys more than 1-year post transplant compared to the biopsies from normal living kidney donors.
Full description or abstract A major challenge for kidney transplantation is balancing the need for immunosuppression to prevent rejection, while minimizing drug-induced toxicities. We used DNA microarrays (HG-U95Av2 GeneChips, Affymetrix) to determine gene expression profiles for kidney biopsies and peripheral blood lymphocytes (PBLs) in transplant patients including normal donor kidneys, well-functioning transplants without rejection, kidneys undergoing acute rejection, and transplants with renal dysfunction without rejection. We developed a data analysis schema based on expression signal determination, class comparison and prediction, hierarchical clustering, statistical power analysis and real-time quantitative PCR validation. We identified distinct gene expression signatures for both biopsies and PBLs that correlated significantly with each of the different classes of transplant patients. This is the most complete report to date using commercial arrays to identify unique expression signatures in transplant biopsies distinguishing acute rejection, acute dysfunction without rejection and well-functioning transplants with no rejection history. We demonstrate for the first time the successful application of high density DNA chip analysis of PBL as a diagnostic tool for transplantation. The significance of these results, if validated in a multicenter prospective trial, would be the establishment of a metric based on gene expression signatures for monitoring the immune status and immunosuppression of transplanted patients.
Collection C2: Curated
      CGP: Chemical and Genetic Perturbations
Source publication Pubmed 15307835   Authors: Flechner SM,Kurian SM,Head SR,Sharp SM,Whisenant TC,Zhang J,Chismar JD,Horvath S,Mondala T,Gilmartin T,Cook DJ,Kay SA,Walker JR,Salomon DR
Exact source Final annotated Gene list BX C vs Tx up in Tx
Related gene sets (show 7 additional gene sets from the source publication)

(show 123 gene sets from the same authors)
External links
Filtered by similarity ?
Source species Homo sapiens
Contributed by Jean Junior (MSigDB Team)
Source platform or
identifier namespace		 AFFY_HG_U95
Dataset references (show 1 datasets)
Download gene set format: grp | gmt | xml | json | TSV metadata
Compute overlaps ? (show collections to investigate for overlap with this gene set)
Compendia expression profiles ? NG-CHM interactive heatmaps
(Please note that clustering takes a few seconds)
GTEx compendium
Human tissue compendium (Novartis)
Global Cancer Map (Broad Institute)
NCI-60 cell lines (National Cancer Institute)

Legacy heatmaps (PNG)
GTEx compendium
Human tissue compendium (Novartis)
Global Cancer Map (Broad Institute)
NCI-60 cell lines (National Cancer Institute)
Advanced query Further investigate these 568 genes
Gene families ? Categorize these 568 genes by gene family
Show members (show 612 source identifiers mapped to 568 genes)
Version history 3.0: Renamed from FLECHNER_KIDNEY_TRANSPLANT_WELL_UP

See MSigDB license terms here. Please note that certain gene sets have special access terms.