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A peripheral blood gene expression signature diagnoses subclinical acute rejection [discovery]

ABSTRACT: A peripheral blood gene expression signature diagnoses subclinical acute rejection [discovery]

PROVIDER: PRJNA492956 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR7896980.fastq.gz	Fastqsanger.gz
	SRR7896990.fastq.gz	Fastqsanger.gz
	SRR7897000.fastq.gz	Fastqsanger.gz
	SRR7897010.fastq.gz	Fastqsanger.gz
	SRR7897020.fastq.gz	Fastqsanger.gz

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A peripheral blood gene expression signature diagnoses subclinical acute rejection [discovery]

Project description:Histological features of acute rejection can be detected in surveillance biopsies despite stable graft function and can negatively impact graft outcomes. However, routine surveillance biopsies for detection of subclinical rejection are not generally performed due to potential risks and costs associated with repeated biopsies. Noninvasive biomarkers are required to facilitate early detection of acute rejection and borderline changes. We examined the impact of histological abnormalities at 3-month in surveillance biopsies on graft outcomes in kidney transplant recipients from the prospective Genomics of Chronic Allograft Rejection (GoCAR) study. We then performed RNA sequencing on whole blood collected at the time of biopsy in 88 patients (22 vs. 66) to identify transcripts associated with histological abnormalities. Subjects with subclinical ACR or borderline ACR at 3 month (ACR-3) had higher risk of subsequent clinical acute rejection at 12 and 24 month (P < 0.05), more rapid functional decline (P < 0.05) and a decreased graft survival in adjusted cox analysis (P < 0.01) than patients with no abnormalities on 3-month biopsy. We then identified a 17-gene signature in peripheral blood that accurately diagnosed ACR-3.

2019-09-11 | GSE120396 | GEO

A peripheral blood gene expression signature diagnoses subclinical acute rejection

Project description:A peripheral blood gene expression signature diagnoses subclinical acute rejection

| PRJNA492955 | ENA

A peripheral blood gene expression signature diagnoses subclinical acute rejection [validation]

2019-09-11 | GSE120397 | GEO

A peripheral blood gene expression signature diagnoses subclinical acute rejection [validation]

Project description:A peripheral blood gene expression signature diagnoses subclinical acute rejection [validation]

| PRJNA492957 | ENA

A peripheral blood gene expression signature diagnoses subclinical acute rejection

Project description:This SuperSeries is composed of the SubSeries listed below.

2019-09-11 | GSE120398 | GEO

Gene expression profiling of subclinical acute kidney rejection

Project description:Gene expression profiling of subclinical acute kidney rejection

| PRJNA420383 | ENA

Gene expression profiling of subclinical acute kidney rejection I

Project description:Gene expression profiling of subclinical acute kidney rejection I

| PRJNA420420 | ENA

Gene expression profiling of subclinical acute kidney rejection II

Project description:Gene expression profiling of subclinical acute kidney rejection II

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The effect of cortex/medulla proportions on molecular diagnoses in kidney transplant biopsies: rejection and injury can be assessed in medulla

Project description: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 biopsies and examine its effect on molecular diagnoses. Microarrays from 26 kidney transplant biopsies divided into cortex and medulla components and processed separately showed that many of the most significant differences were in glomerular genes e.g. NPHS2, NPHS1, CLIC5, PTPRO, PLA2R1, PLCE1, PODXL and REN. Using NPHS2 (podocin) to estimate proportion cortex, we examined whether proportion cortex influenced molecular assessment in the Molecular Microscope Diagnostic System. In 1190 unselected kidney transplant indication biopsies (Clinicaltrials.govNCT01299168), only 11% had <50% cortex. Molecular scores for ABMR, TCMR, and injury were independent of proportion cortex. Rejection was diagnosed in many biopsies that were mostly or all medulla. Agreement in molecular diagnoses in paired cortex/medulla samples (23/26) was similar to biological replicates (32/37). We conclude that NPHS2 expression can estimate proportion cortex; that proportion cortex has little influence on molecular diagnosis of rejection, and that, although histology cannot assess medulla, rejection does occur in medulla as well as cortex.

2017-04-27 | GSE95611 | GEO

The effect of cortex/medulla proportions on molecular diagnoses in kidney transplant biopsies: rejection and injury can be assessed in medulla

2017-04-27 | E-GEOD-95611 | biostudies-arrayexpress