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Clinical

Deconvoluting Early Post-Transplant Immunity Using Purified Cell Subsets Reveals Functional Networks Not Evident by Whole Blood Analysis-GSE24223

Purpose

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Hypothesis

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Experimental Design

We employed Affymetrix HG-U133 Plus 2.0 GeneChips for mRNA profiling of whole blood and purified CD4, CD8 T cells, B cells and monocytes in tandem with high-throughput flow cytometry in 10 kidney transplant patients sampled serially pre-transplant, 1, 2, 4, 8 and 12 weeks. We then mechanistically deconvoluted the early post-transplant immune response.

Experimental Variables

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Controls

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Methods

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Additional Information
  • Grigoryev YA, Kurian SM, Avnur Z, Borie D et al. Deconvoluting post-transplant immunity: cell subset-specific mapping reveals pathways for activation and expansion of memory T, monocytes and B cells. PLoS One 2010 Oct 14;5(10):e13358. PMID: 20976225
  • Microarray
    Affymetrix HG-U133_Plus_2
    179 Samples Loaded: 179
    Human (Homo sapiens)
    CD4 T cells , B cells , Monocytes , Whole Blood , CD8 T cells
    Kidney Transplantation
    Sample Set Spreadsheet
    Please log in in order to upload files.
    Samples Preview
    Sample ID !Sample_title time point cell subtype donor number
    GSM595693 00704_4 Week 4 CD4 7
    GSM595694 0101-Pax Pre-Tx Whole Blood 1
    GSM595695 0102-Pax Week 1 Whole Blood 1
    GSM595697 0103-CD14_ Week 2 CD14 1
    GSM595698 0103-CD19_ Week 2 CD19 1
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    File
    Log2 Transformed
    Raw Signal
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    Samples Viewer / Editor

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    Sample ID !Sample Title Time point Cell subtype Donor number
    GSM595693
    00704_4
    Week 4
    CD4
    7
    GSM595694
    0101-Pax
    Pre-Tx
    Whole Blood
    1
    GSM595695
    0102-Pax
    Week 1
    Whole Blood
    1
    GSM595697
    0103-CD14_
    Week 2
    CD14
    1
    GSM595698
    0103-CD19_
    Week 2
    CD19
    1
    GSM595700
    0103-CD4_
    Week 2
    CD4
    1
    GSM595701
    0103-CD8_
    Week 2
    CD8
    1
    GSM595702
    0103-Pax
    Week 2
    Whole Blood
    1
    GSM595703
    0104-Pax
    Week 4
    Whole Blood
    1
    GSM595704
    0106-Pax
    Week 12
    Whole Blood
    1
    GSM595705
    201
    Pre-Tx
    Whole Blood
    2
    GSM595706
    0202-Pax
    Week 1
    Whole Blood
    2
    GSM595707
    0203-CD14_
    Week 2
    CD14
    2
    GSM595708
    0203-CD19_
    Week 2
    CD19
    2
    GSM595709
    0203-CD4_
    Week 2
    CD4
    2
    GSM595710
    204
    Week 4
    Whole Blood
    2
    GSM595711
    0205-Pax
    Week 8
    Whole Blood
    2
    GSM595712
    0205_PBMC
    Week 12
    Whole blood
    2
    GSM595713
    0206-CD14_
    Week 12
    CD14
    2
    GSM595714
    0206-CD19_
    Week 12
    CD19
    2
    GSM595715
    0206-CD4_
    Week 12
    CD4
    2
    GSM595716
    0206-CD8_
    Week 12
    CD8
    2
    GSM595717
    206
    Week 12
    Whole Blood
    2
    GSM595718
    0301-Pax
    Pre-Tx
    Whole Blood
    3
    GSM595719
    0303-CD14_
    Week 2
    CD14
    3
    GSM595720
    0303-CD19_
    Week 2
    CD19
    3
    GSM595721
    0303-CD4_
    Week 2
    CD4
    3
    GSM595722
    0303-Pax
    Week 2
    Whole Blood
    3
    GSM595723
    304
    Week 4
    Whole Blood
    3
    GSM595724
    305
    Week 8
    Whole Blood
    3
    GSM595725
    0306-CD14_
    Week 12
    CD14
    3
    GSM595726
    0306-CD4_
    Week 12
    CD4
    3
    GSM595727
    0306-CD8_
    Week 12
    CD8
    3
    GSM595728
    0306-Pax
    Week 12
    Whole Blood
    3
    GSM595729
    402
    Week 1
    Whole Blood
    4
    GSM595730
    0403-CD14_
    Week 2
    CD14
    4
    GSM595731
    0403-CD8_
    Week 2
    CD8
    4
    GSM595732
    403
    Week 2
    Whole Blood
    4
    GSM595733
    0404-Pax
    Week 4
    Whole Blood
    4
    GSM595734
    0404_PBL
    Week 4
    Whole blood
    4
    GSM595735
    405
    Week 8
    Whole Blood
    4
    GSM595736
    0405_14
    Week 8
    CD14
    4
    GSM595737
    0405_8
    Week 8
    CD8
    4
    GSM595738
    0405_PBL
    Week 8
    Whole blood
    4
    GSM595739
    0406-CD14_
    Week 12
    CD14
    4
    GSM595740
    0406-CD4_
    Week 12
    CD4
    4
    GSM595741
    0406-CD8_
    Week 12
    CD8
    4
    GSM595742
    406
    Week 12
    Whole Blood
    4
    GSM595743
    0406_14
    Week 12
    CD14
    4
    GSM595744
    0406_4
    Week 12
    CD4
    4
    GSM595745
    0501_14
    Pre-Tx
    CD14
    5
    GSM595746
    0501_PBMC
    Pre-Tx
    Whole blood
    5
    GSM595747
    502
    Week 1
    Whole Blood
    5
    GSM595748
    0503 CD14
    Week 2
    CD14
    5
    GSM595749
    0503 CD4
    Week 2
    CD4
    5
    GSM595750
    0503 CD56
    Week 2
    CD56
    5
    GSM595751
    0503 CD8
    Week 2
    CD8
    5
    GSM595752
    0503-CD14_
    Week 2
    CD14
    5
    GSM595753
    0503-CD4_
    Week 2
    CD4
    5
    GSM595754
    0503-CD8_
    Week 2
    CD8
    5
    GSM595755
    0503-Pax
    Week 2
    Whole Blood
    5
    GSM595756
    0504-Pax
    Week 4
    Whole Blood
    5
    GSM595757
    506
    Week 12
    Whole Blood
    5
    GSM595758
    0601_14
    Pre-Tx
    CD14
    6
    GSM595759
    0601_4
    Pre-Tx
    CD4
    6
    GSM595760
    0601_PBL
    Pre-Tx
    Whole blood
    6
    GSM595761
    0602_14
    Week 1
    CD14
    6
    GSM595762
    0602_PBL
    Week 1
    Whole blood
    6
    GSM595763
    701
    Pre-Tx
    Whole Blood
    7
    GSM595764
    0701_4
    Pre-Tx
    CD4
    7
    GSM595765
    0701_8
    Pre-Tx
    CD8
    7
    GSM595766
    702
    Week 1
    Whole Blood
    7
    GSM595767
    0702_14
    Week 1
    CD14
    7
    GSM595768
    0702_4
    Week 1
    CD4
    7
    GSM595769
    0702_PBL
    Week 1
    Whole blood
    7
    GSM595770
    0703 CD14
    Week 2
    CD14
    7
    GSM595771
    0703 CD4
    Week 2
    CD4
    7
    GSM595772
    0703 CD8
    Week 2
    CD8
    7
    GSM595773
    703
    Week 2
    Whole Blood
    7
    GSM595774
    704
    Week 4
    Whole Blood
    7
    GSM595775
    705
    Week 8
    Whole Blood
    7
    GSM595776
    0705_4
    Week 8
    CD4
    7
    GSM595777
    0706 CD14
    Week 12
    CD14
    7
    GSM595778
    0706 CD19
    Week 12
    CD19
    7
    GSM595779
    0706 CD4
    Week 12
    CD4
    7
    GSM595780
    0706 CD8
    Week 12
    CD8
    7
    GSM595781
    0706-CD14_
    Week 12
    CD14
    7
    GSM595782
    0706-CD4_
    Week 12
    CD4
    7
    GSM595783
    0706-CD8_
    Week 12
    CD8
    7
    GSM595784
    706
    Week 12
    Whole Blood
    7
    GSM595785
    0901_4
    Pre-Tx
    CD4
    9
    GSM595786
    1 CD14
    Control Day 0
    CD14
    Control 1
    GSM595787
    1 CD19
    Control Day 0
    CD19
    Control 1
    GSM595788
    1 CD4
    Control Day 0
    CD4
    Control 1
    GSM595789
    1 CD56
    Control Day 0
    CD56
    Control 1
    GSM595790
    1 CD8
    Control Day 0
    CD8
    Control 1
    GSM595791
    1001
    Pre-Tx
    Whole Blood
    10
    GSM595792
    1001_8
    Pre-Tx
    CD8
    10
    GSM595793
    1001_PBL
    Pre-Tx
    Whole blood
    10
    GSM595794
    1002
    Week 1
    Whole Blood
    10
    GSM595795
    1003 CD14
    Week 2
    CD14
    10
    GSM595796
    1003 CD19
    Week 2
    CD19
    10
    GSM595797
    1003 CD56
    Week 2
    CD56
    10
    GSM595798
    1003
    Week 2
    Whole Blood
    10
    GSM595799
    1004
    Week 4
    Whole Blood
    10
    GSM595800
    1005
    Week 8
    Whole Blood
    10
    GSM595801
    1005_4
    Week 8
    CD4
    10
    GSM595802
    1006
    Week 12
    Whole Blood
    10
    GSM595803
    1101
    Pre-Tx
    Whole Blood
    11
    GSM595804
    1102
    Week 1
    Whole Blood
    11
    GSM595805
    1103 CD14
    Week 2
    CD14
    11
    GSM595806
    1103 CD8
    Week 2
    CD8
    11
    GSM595807
    1103
    Week 2
    Whole Blood
    11
    GSM595808
    1104a
    Week 4
    Whole Blood
    11
    GSM595809
    1104b
    Week 4
    Whole Blood
    11
    GSM595810
    1104_14
    Week 4
    CD14
    11
    GSM595811
    1104_PBL
    Week 4
    Whole blood
    11
    GSM595812
    1105_14
    Week 8
    CD14
    11
    GSM595813
    1106 CD14
    Week 12
    CD14
    11
    GSM595814
    1106 CD4
    Week 12
    CD4
    11
    GSM595815
    1106
    Week 12
    Whole Blood
    11
    GSM595816
    1201
    Pre-Tx
    Whole Blood
    12
    GSM595817
    1201_19
    Pre-Tx
    CD19
    12
    GSM595818
    1201_4
    Pre-Tx
    CD4
    12
    GSM595819
    1201_8
    Pre-Tx
    CD8
    12
    GSM595820
    1202
    Week 1
    Whole Blood
    12
    GSM595821
    1203 CD14
    Week 2
    CD14
    12
    GSM595822
    1203 CD19
    Week 2
    CD19
    12
    GSM595823
    1203 CD4
    Week 2
    CD4
    12
    GSM595824
    1203 CD56
    Week 2
    CD56
    12
    GSM595825
    1203 CD8
    Week 2
    CD8
    12
    GSM595826
    1203
    Week 2
    Whole Blood
    12
    GSM595827
    1204
    Week 4
    Whole Blood
    12
    GSM595828
    1204_14
    Week 4
    CD14
    12
    GSM595829
    1204_4
    Week 4
    CD4
    12
    GSM595830
    1204_PBL
    Week 4
    Whole blood
    12
    GSM595831
    1205
    Week 8
    Whole Blood
    12
    GSM595832
    1206 CD14
    Week 12
    CD14
    12
    GSM595833
    1206 CD19
    Week 12
    CD19
    12
    GSM595834
    1206 CD4
    Week 12
    CD4
    12
    GSM595835
    1206 CD56
    Week 12
    CD56
    12
    GSM595836
    1206 CD8
    Week 12
    CD8
    12
    GSM595837
    1206-CD14_
    Week 12
    CD14
    12
    GSM595838
    1206-CD19_
    Week 12
    CD19
    12
    GSM595839
    1206-CD4_
    Week 12
    CD4
    12
    GSM595840
    1206-CD8_
    Week 12
    CD8
    12
    GSM595841
    1206
    Week 12
    Whole Blood
    12
    GSM595842
    1301
    Pre-Tx
    Whole Blood
    13
    GSM595843
    1301_8
    Pre-Tx
    CD8
    13
    GSM595844
    1301_CD4
    Pre-Tx
    CD4
    13
    GSM595845
    1301_PBL
    Pre-Tx
    Whole blood
    13
    GSM595846
    1302
    Week 1
    Whole Blood
    13
    GSM595847
    1303
    Week 2
    Whole Blood
    13
    GSM595848
    1304
    Week 4
    Whole Blood
    13
    GSM595849
    1305
    Week 8
    Whole Blood
    13
    GSM595850
    1306 CD14
    Week 12
    CD14
    13
    GSM595851
    1855
    Control Day 0
    Whole Blood
    Control 1
    GSM595852
    2 CD14
    Control Day 0
    CD14
    Control 2
    GSM595853
    2 CD19
    Control Day 0
    CD19
    Control 2
    GSM595854
    2 CD4
    Control Day 0
    CD4
    Control 2
    GSM595855
    2 CD56
    Control Day 0
    CD56
    Control 2
    GSM595856
    2 CD8
    Control Day 0
    CD8
    Control 2
    GSM595857
    3 CD14
    Control Day 0
    CD14
    Control 3
    GSM595858
    3 CD19
    Control Day 0
    CD19
    Control 3
    GSM595859
    3 CD4
    Control Day 0
    CD4
    Control 3
    GSM595860
    3 CD56
    Control Day 0
    CD56
    Control 3
    GSM595861
    3 CD8
    Control Day 0
    CD8
    Control 3
    GSM595862
    4 CD14
    Control Day 0
    CD14
    Control 4
    GSM595863
    4 CD19
    Control Day 0
    CD19
    Control 4
    GSM595864
    4 CD4
    Control Day 0
    CD4
    Control 4
    GSM595865
    4 CD8
    Control Day 0
    CD8
    Control 4
    GSM595866
    4559
    Control Day 0
    Whole Blood
    Control 2
    GSM595867
    4651
    Control Day 0
    Whole Blood
    Control 3
    GSM595868
    4674
    Control Day 0
    Whole Blood
    Control 4
    GSM595869
    5 CD14
    Control Day 0
    CD14
    Control 5
    GSM595870
    5 CD19
    Control Day 0
    CD19
    Control 5
    GSM595871
    5 CD4
    Control Day 0
    CD4
    Control 5
    GSM595872
    5 CD8
    Control Day 0
    CD8
    Control 5
    GSM595873
    94
    Control Day 0
    Whole Blood
    Control 5

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