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

Study Design
Assay
Sample Info
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Info
Samples
Group Sets
Analysis

Purpose

Hypothesis

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

Controls

Methods

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

Expected Samples:

179 Samples Loaded: 179

Species

Human (Homo sapiens)

Sample Source

B cells , Monocytes , CD4 T cells , CD8 T cells , Whole Blood

Disease

Kidney Transplantation

Treatment Protocol

Growth Protocol

Extraction Protocol

Storage Conditions

Sample Set Spreadsheet

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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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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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