Sample Set Annotation Tool: Molecular Characterization of Acute Cellular Rejection Occurring during Intentional Immunosuppression Withdrawal in Liver Transplantation-GSE70305

Study Design
Assay
Sample Info
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Info
Samples
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Analysis

Purpose

Acute cellular rejection occurs frequently during the first few weeks following liver transplantation. During this period its molecular phenotype is confounded by pro-inflammatory events elicited by surgery, ischemia-reperfusion injury and early post-transplant complications. To unambiguously define the molecular profile associated with rejection we collected sequential biological specimens from liver transplant patients at least 3 years after transplantation who developed rejection while enrolled in trials of intentional immunosuppression withdrawal

Hypothesis

Experimental Design

Transcriptomic RISET 2.0 chips were employed using portal blood vein from 37 liver trasplant patients.Two timepoints were selected: before immunosupressive weaning and rejection time point.

Experimental Variables

Controls

Methods

Chips were processed using LIMMA package using normexp method for background substraction and quantile normalisation.

Additional Information

https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE70305

Expected Samples:

74 Samples Loaded: 74

Species

Human (Homo sapiens)

Sample Source

Peripheral Vein Blood

Disease

Liver Transplant

Treatment Protocol

N/A

Growth Protocol

N/A

Extraction Protocol

Storage Conditions

Sample Set Spreadsheet

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Samples Preview

Sample ID	!Sample Title	!Sample_title	tissue	Grouping	patient
GSM1723439	W21_NON-TOL	W21_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W21
GSM1723440	W38_NON-TOL	W38_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W38
GSM1723441	W40_NON-TOL	W40_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W40
GSM1723442	W41_NON-TOL	W41_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W41
GSM1723443	W42_NON-TOL	W42_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W42

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File
sampleset4000151_sampleannotations.csv Sample Set Spreadsheet

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Sample ID	!Sample Title	!Sample Title	Tissue	Grouping	Patient
GSM1723439	W21_NON-TOL	W21_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W21
GSM1723440	W38_NON-TOL	W38_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W38
GSM1723441	W40_NON-TOL	W40_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W40
GSM1723442	W41_NON-TOL	W41_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W41
GSM1723443	W42_NON-TOL	W42_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W42
GSM1723444	W49_NON-TOL	W49_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W49
GSM1723445	W51_NON-TOL	W51_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W51
GSM1723446	W52_NON-TOL	W52_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W52
GSM1723447	W55_NON-TOL	W55_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W55
GSM1723448	W56_NON-TOL	W56_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W56
GSM1723449	W60_NON-TOL	W60_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W60
GSM1723450	W65_NON-TOL	W65_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W65
GSM1723451	W66_NON-TOL	W66_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W66
GSM1723452	W75_NON-TOL	W75_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W75
GSM1723453	W78_NON-TOL	W78_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W78
GSM1723454	W83_NON-TOL	W83_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W83
GSM1723455	W88_NON-TOL	W88_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W88
GSM1723456	W89_NON-TOL	W89_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W89
GSM1723457	W92_NON-TOL	W92_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W92
GSM1723458	W96_NON-TOL	W96_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W96
GSM1723459	W99_NON-TOL	W99_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W99
GSM1723460	W103_NON-TOL	W103_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W103
GSM1723461	W104_NON-TOL	W104_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W104
GSM1723462	W108_NON-TOL	W108_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W108
GSM1723463	W109_NON-TOL	W109_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W109
GSM1723464	W112_NON-TOL	W112_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W112
GSM1723465	W115_NON-TOL	W115_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W115
GSM1723466	W122_NON-TOL	W122_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W122
GSM1723467	W123_NON-TOL	W123_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W123
GSM1723468	W125_NON-TOL	W125_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W125
GSM1723469	W126_NON-TOL	W126_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W126
GSM1723470	W131_NON-TOL	W131_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W131
GSM1723471	W132_NON-TOL	W132_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W132
GSM1723472	W134_NON-TOL	W134_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W134
GSM1723473	W138_NON-TOL	W138_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W138
GSM1723474	W139_NON-TOL	W139_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W139
GSM1723475	W144_NON-TOL	W144_NON-TOL	peripheral vein blood	Before Immunosupressive Weaning	W144
GSM1723476	W21_REJECTION	W21_REJECTION	peripheral vein blood	Rejection	W21
GSM1723477	W38_REJECTION	W38_REJECTION	peripheral vein blood	Rejection	W38
GSM1723478	W40_REJECTION	W40_REJECTION	peripheral vein blood	Rejection	W40
GSM1723479	W41_REJECTION	W41_REJECTION	peripheral vein blood	Rejection	W41
GSM1723480	W42_REJECTION	W42_REJECTION	peripheral vein blood	Rejection	W42
GSM1723481	W49_REJECTION	W49_REJECTION	peripheral vein blood	Rejection	W49
GSM1723482	W51_REJECTION	W51_REJECTION	peripheral vein blood	Rejection	W51
GSM1723483	W52_REJECTION	W52_REJECTION	peripheral vein blood	Rejection	W52
GSM1723484	W55_REJECTION	W55_REJECTION	peripheral vein blood	Rejection	W55
GSM1723485	W56_REJECTION	W56_REJECTION	peripheral vein blood	Rejection	W56
GSM1723486	W60_REJECTION	W60_REJECTION	peripheral vein blood	Rejection	W60
GSM1723487	W65_REJECTION	W65_REJECTION	peripheral vein blood	Rejection	W65
GSM1723488	W66_REJECTION	W66_REJECTION	peripheral vein blood	Rejection	W66
GSM1723489	W75_REJECTION	W75_REJECTION	peripheral vein blood	Rejection	W75
GSM1723490	W78_REJECTION	W78_REJECTION	peripheral vein blood	Rejection	W78
GSM1723491	W83_REJECTION	W83_REJECTION	peripheral vein blood	Rejection	W83
GSM1723492	W88_REJECTION	W88_REJECTION	peripheral vein blood	Rejection	W88
GSM1723493	W89_REJECTION	W89_REJECTION	peripheral vein blood	Rejection	W89
GSM1723494	W92_REJECTION	W92_REJECTION	peripheral vein blood	Rejection	W92
GSM1723495	W96_REJECTION	W96_REJECTION	peripheral vein blood	Rejection	W96
GSM1723496	W99_REJECTION	W99_REJECTION	peripheral vein blood	Rejection	W99
GSM1723497	W103_REJECTION	W103_REJECTION	peripheral vein blood	Rejection	W103
GSM1723498	W104_REJECTION	W104_REJECTION	peripheral vein blood	Rejection	W104
GSM1723499	W108_REJECTION	W108_REJECTION	peripheral vein blood	Rejection	W108
GSM1723500	W109_REJECTION	W109_REJECTION	peripheral vein blood	Rejection	W109
GSM1723501	W112_REJECTION	W112_REJECTION	peripheral vein blood	Rejection	W112
GSM1723502	W115_REJECTION	W115_REJECTION	peripheral vein blood	Rejection	W115
GSM1723503	W122_REJECTION	W122_REJECTION	peripheral vein blood	Rejection	W122
GSM1723504	W123_REJECTION	W123_REJECTION	peripheral vein blood	Rejection	W123
GSM1723505	W125_REJECTION	W125_REJECTION	peripheral vein blood	Rejection	W125
GSM1723506	W126_REJECTION	W126_REJECTION	peripheral vein blood	Rejection	W126
GSM1723507	W131_REJECTION	W131_REJECTION	peripheral vein blood	Rejection	W131
GSM1723508	W132_REJECTION	W132_REJECTION	peripheral vein blood	Rejection	W132
GSM1723509	W134_REJECTION	W134_REJECTION	peripheral vein blood	Rejection	W134
GSM1723510	W138_REJECTION	W138_REJECTION	peripheral vein blood	Rejection	W138
GSM1723511	W139_REJECTION	W139_REJECTION	peripheral vein blood	Rejection	W139
GSM1723512	W144_REJECTION	W144_REJECTION	peripheral vein blood	Rejection	W144

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