Sample Set Annotation Tool: Unique inflammatory transcriptome profiles at the maternal fetal interface and onset of human preterm and term birth-GSE73685

Study Design
Assay
Sample Info
Files
Info
Samples
Group Sets
Analysis

Purpose

Preterm birth is a main determinant of neonatal mortality and morbidity and a major contributor to the overall mortality and burden of disease. However, precise phenotyping of the preterm birth is hampered by the imprecise definition of the clinical phenotype and complexity of the molecular phenotype due to multiple pregnancy tissue types and molecular processes that may contribute to the preterm birth. The study’s aim was to comprehensively evaluate the mRNA transcriptome that characterizes preterm and term labor using precisely phenotyped samples. Expression profiles of 73 genes and non-coding RNA sequences uniquely identified the four groups of patients: delivering preterm with (PL) and without labor (PNL), term with (TL) and without labor (TNL). The largest differences in gene expression among the four groups occurred in decidua, chorion and amnion. The gene expression profiles showed suppression of chemokines expression in TNL, withdrawal of this suppression in TL, activation of multiple pathways of inflammation in PL, and an immune rejection profile in PNL. The genes constituting expression signatures showed over-representation of three putative regulatory elements in their 5’ and 3’UTR regions. The results suggest that pregnancy is maintained by downregulation of chemokines at the maternal-fetal interface. Withdrawal of this downregulation results in the term birth and its overriding by the activation of multiple pathways of the immune system in the preterm birth. Complications of the pregnancy associated with impairment of placental function, which necessitated premature delivery of the fetus in the absence of labor, show gene expression patterns associated with immune rejection.

Hypothesis

Experimental Design

183 total RNA samples from 8 tissue types collected from 35 women grouped into six categories of pregnancy outcome. One microarray replicate per sample.

Experimental Variables

Controls

Methods

Affymetrix Expression Console, Partek Genomics Suite with RMA normalization.

Additional Information

https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE73685

Expected Samples:

183 Samples Loaded: 183

Species

Human (Homo sapiens)

Sample Source

Lower Segment , Placental Samples , Cord blood , Fundus , Maternal Blood , Chorion , Decidua , Amnion

Disease

Pregnancy

Treatment Protocol

Growth Protocol

Extraction Protocol

Storage Conditions

Sample Set Spreadsheet

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Samples Preview

Sample ID	Gender	!Sample_title	subject id	tissue type	outcome
GSM1900768	Female	Amnion_2502	2502	Amnion	TNL term no labor
GSM1900769	Female	Cord Blood_2502	2502	Cord Blood	TNL term no labor
GSM1900770	Female	Chorion_2502	2502	Chorion	TNL term no labor
GSM1900771	Female	Decidua_2502	2502	Decidua	TNL term no labor
GSM1900772	Female	Maternal Blood_2502	2502	Maternal Blood	TNL term no labor

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File

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Sample ID	Gender	!Sample Title	Subject id	Tissue type	Outcome
GSM1900768	Female	Amnion_2502	2502	Amnion	TNL term no labor
GSM1900769	Female	Cord Blood_2502	2502	Cord Blood	TNL term no labor
GSM1900770	Female	Chorion_2502	2502	Chorion	TNL term no labor
GSM1900771	Female	Decidua_2502	2502	Decidua	TNL term no labor
GSM1900772	Female	Maternal Blood_2502	2502	Maternal Blood	TNL term no labor
GSM1900773	Female	Fundus_2502	2502	Fundus	TNL term no labor
GSM1900774	Female	Lower Segment_2502	2502	Lower Segment	TNL term no labor
GSM1900775	Female	Amnion_2503	2503	Amnion	PL preterm with labor
GSM1900776	Female	Chorion_2503	2503	Chorion	PL preterm with labor
GSM1900777	Female	Maternal Blood_2503	2503	Maternal Blood	PL preterm with labor
GSM1900778	Female	Amnion_2504	2504	Amnion	PNL preterm no labor
GSM1900779	Female	Chorion_2504	2504	Chorion	PNL preterm no labor
GSM1900780	Female	Decidua_2504	2504	Decidua	PNL preterm no labor
GSM1900781	Female	Maternal Blood_2504	2504	Maternal Blood	PNL preterm no labor
GSM1900782	Female	Placenta_2504	2504	Placenta	PNL preterm no labor
GSM1900783	Female	Lower Segment_2504	2504	Lower Segment	PNL preterm no labor
GSM1900784	Female	Placenta_2505	2505	Placenta	TNL term no labor
GSM1900785	Female	Amnion_2506	2506	Amnion	TL term with labor
GSM1900786	Female	Cord Blood_2506	2506	Cord Blood	TL term with labor
GSM1900787	Female	Chorion_2506	2506	Chorion	TL term with labor
GSM1900788	Female	Decidua_2506	2506	Decidua	TL term with labor
GSM1900789	Female	Maternal Blood_2506	2506	Maternal Blood	TL term with labor
GSM1900790	Female	Placenta_2506	2506	Placenta	TL term with labor
GSM1900791	Female	Fundus_2506	2506	Fundus	TL term with labor
GSM1900792	Female	Lower Segment_2506	2506	Lower Segment	TL term with labor
GSM1900793	Female	Placenta_2507	2507	Placenta	TNL term no labor
GSM1900794	Female	Amnion_2508	2508	Amnion	pPROM with labor
GSM1900795	Female	Cord Blood_2508	2508	Cord Blood	pPROM with labor
GSM1900796	Female	Chorion_2508	2508	Chorion	pPROM with labor
GSM1900797	Female	Decidua_2508	2508	Decidua	pPROM with labor
GSM1900798	Female	Maternal Blood_2508	2508	Maternal Blood	pPROM with labor
GSM1900799	Female	Fundus_2508	2508	Fundus	pPROM with labor
GSM1900800	Female	Lower Segment_2508	2508	Lower Segment	pPROM with labor
GSM1900801	Female	Placenta_2509	2509	Placenta	TNL term no labor
GSM1900802	Female	Amnion_2510	2510	Amnion	TL term with labor
GSM1900803	Female	Cord Blood_2510	2510	Cord Blood	TL term with labor
GSM1900804	Female	Chorion_2510	2510	Chorion	TL term with labor
GSM1900805	Female	Decidua_2510	2510	Decidua	TL term with labor
GSM1900806	Female	Maternal Blood_2510	2510	Maternal Blood	TL term with labor
GSM1900807	Female	Placenta_2510	2510	Placenta	TL term with labor
GSM1900808	Female	Lower Segment_2510	2510	Lower Segment	TL term with labor
GSM1900809	Female	Cord Blood_2512	2512	Cord Blood	PL preterm with labor
GSM1900810	Female	Chorion_2512	2512	Chorion	PL preterm with labor
GSM1900811	Female	Decidua_2512	2512	Decidua	PL preterm with labor
GSM1900812	Female	Placenta_2513	2513	Placenta	PNL preterm no labor
GSM1900813	Female	Cord Blood_2515	2515	Cord Blood	PNL preterm no labor
GSM1900814	Female	Amnion_2517	2517	Amnion	pPROM no labor
GSM1900815	Female	Chorion_2517	2517	Chorion	pPROM no labor
GSM1900816	Female	Decidua_2517	2517	Decidua	pPROM no labor
GSM1900817	Female	Maternal Blood_2517	2517	Maternal Blood	pPROM no labor
GSM1900818	Female	Placenta_2517	2517	Placenta	pPROM no labor
GSM1900819	Female	Fundus_2517	2517	Fundus	pPROM no labor
GSM1900820	Female	Lower Segment_2517	2517	Lower Segment	pPROM no labor
GSM1900821	Female	Lower Segment_5503	5503	Lower Segment	TL term with labor
GSM1900822	Female	Amnion_5512	5512	Amnion	TNL term no labor
GSM1900823	Female	Cord Blood_5512	5512	Cord Blood	TNL term no labor
GSM1900824	Female	Chorion_5512	5512	Chorion	TNL term no labor
GSM1900825	Female	Decidua_5512	5512	Decidua	TNL term no labor
GSM1900826	Female	Maternal Blood_5512	5512	Maternal Blood	TNL term no labor
GSM1900827	Female	Placenta_5512	5512	Placenta	TNL term no labor
GSM1900828	Female	Fundus_5512	5512	Fundus	TNL term no labor
GSM1900829	Female	Lower Segment_5512	5512	Lower Segment	TNL term no labor
GSM1900830	Female	Amnion_5517	5517	Amnion	TNL term no labor
GSM1900831	Female	Cord Blood_5517	5517	Cord Blood	TNL term no labor
GSM1900832	Female	Chorion_5517	5517	Chorion	TNL term no labor
GSM1900833	Female	Decidua_5517	5517	Decidua	TNL term no labor
GSM1900834	Female	Maternal Blood_5517	5517	Maternal Blood	TNL term no labor
GSM1900835	Female	Placenta_5517	5517	Placenta	TNL term no labor
GSM1900836	Female	Fundus_5517	5517	Fundus	TNL term no labor
GSM1900837	Female	Lower Segment_5517	5517	Lower Segment	TNL term no labor
GSM1900838	Female	Amnion_5520	5520	Amnion	PNL preterm no labor
GSM1900839	Female	Cord Blood_5520	5520	Cord Blood	PNL preterm no labor
GSM1900840	Female	Decidua_5520	5520	Decidua	PNL preterm no labor
GSM1900841	Female	Maternal Blood_5520	5520	Maternal Blood	PNL preterm no labor
GSM1900842	Female	Placenta_5520	5520	Placenta	PNL preterm no labor
GSM1900843	Female	Fundus_5520	5520	Fundus	PNL preterm no labor
GSM1900844	Female	Lower Segment_5520	5520	Lower Segment	PNL preterm no labor
GSM1900845	Female	Amnion_5523	5523	Amnion	TNL term no labor
GSM1900846	Female	Cord Blood_5523	5523	Cord Blood	TNL term no labor
GSM1900847	Female	Chorion_5523	5523	Chorion	TNL term no labor
GSM1900848	Female	Decidua_5523	5523	Decidua	TNL term no labor
GSM1900849	Female	Maternal Blood_5523	5523	Maternal Blood	TNL term no labor
GSM1900850	Female	Fundus_5523	5523	Fundus	TNL term no labor
GSM1900851	Female	Lower Segment_5523	5523	Lower Segment	TNL term no labor
GSM1900852	Female	Amnion_5524	5524	Amnion	TNL term no labor
GSM1900853	Female	Cord Blood_5524	5524	Cord Blood	TNL term no labor
GSM1900854	Female	Chorion_5524	5524	Chorion	TNL term no labor
GSM1900855	Female	Decidua_5524	5524	Decidua	TNL term no labor
GSM1900856	Female	Maternal Blood_5524	5524	Maternal Blood	TNL term no labor
GSM1900857	Female	Fundus_5524	5524	Fundus	TNL term no labor
GSM1900858	Female	Lower Segment_5524	5524	Lower Segment	TNL term no labor
GSM1900859	Female	Amnion_5531	5531	Amnion	TNL term no labor
GSM1900860	Female	Cord Blood_5531	5531	Cord Blood	TNL term no labor
GSM1900861	Female	Chorion_5531	5531	Chorion	TNL term no labor
GSM1900862	Female	Decidua_5531	5531	Decidua	TNL term no labor
GSM1900863	Female	Maternal Blood_5531	5531	Maternal Blood	TNL term no labor
GSM1900864	Female	Placenta_5531	5531	Placenta	TNL term no labor
GSM1900865	Female	Fundus_5531	5531	Fundus	TNL term no labor
GSM1900866	Female	Lower Segment_5531	5531	Lower Segment	TNL term no labor
GSM1900867	Female	Amnion_5534	5534	Amnion	TL term with labor
GSM1900868	Female	Cord Blood_5534	5534	Cord Blood	TL term with labor
GSM1900869	Female	Chorion_5534	5534	Chorion	TL term with labor
GSM1900870	Female	Decidua_5534	5534	Decidua	TL term with labor
GSM1900871	Female	Placenta_5534	5534	Placenta	TL term with labor
GSM1900872	Female	Amnion_5535	5535	Amnion	PNL preterm no labor
GSM1900873	Female	Cord Blood_5535	5535	Cord Blood	PNL preterm no labor
GSM1900874	Female	Chorion_5535	5535	Chorion	PNL preterm no labor
GSM1900875	Female	Decidua_5535	5535	Decidua	PNL preterm no labor
GSM1900876	Female	Maternal Blood_5535	5535	Maternal Blood	PNL preterm no labor
GSM1900877	Female	Placenta_5535	5535	Placenta	PNL preterm no labor
GSM1900878	Female	Fundus_5535	5535	Fundus	PNL preterm no labor
GSM1900879	Female	Lower Segment_5535	5535	Lower Segment	PNL preterm no labor
GSM1900880	Female	Amnion_5537	5537	Amnion	PNL preterm no labor
GSM1900881	Female	Cord Blood_5537	5537	Cord Blood	PNL preterm no labor
GSM1900882	Female	Chorion_5537	5537	Chorion	PNL preterm no labor
GSM1900883	Female	Decidua_5537	5537	Decidua	PNL preterm no labor
GSM1900884	Female	Maternal Blood_5537	5537	Maternal Blood	PNL preterm no labor
GSM1900885	Female	Fundus_5537	5537	Fundus	PNL preterm no labor
GSM1900886	Female	Lower Segment_5537	5537	Lower Segment	PNL preterm no labor
GSM1900887	Female	Amnion_5539	5539	Amnion	PL preterm with labor
GSM1900888	Female	Chorion_5539	5539	Chorion	PL preterm with labor
GSM1900889	Female	Decidua_5539	5539	Decidua	PL preterm with labor
GSM1900890	Female	Maternal Blood_5539	5539	Maternal Blood	PL preterm with labor
GSM1900891	Female	Lower Segment_5539	5539	Lower Segment	PL preterm with labor
GSM1900892	Female	Amnion_5544	5544	Amnion	pPROM with labor
GSM1900893	Female	Chorion_5544	5544	Chorion	pPROM with labor
GSM1900894	Female	Decidua_5544	5544	Decidua	pPROM with labor
GSM1900895	Female	Maternal Blood_5544	5544	Maternal Blood	pPROM with labor
GSM1900896	Female	Fundus_5544	5544	Fundus	pPROM with labor
GSM1900897	Female	Lower Segment_5544	5544	Lower Segment	pPROM with labor
GSM1900898	Female	Amnion_5548	5548	Amnion	PL preterm with labor
GSM1900899	Female	Cord Blood_5548	5548	Cord Blood	PL preterm with labor
GSM1900900	Female	Placenta_5548	5548	Placenta	PL preterm with labor
GSM1900901	Female	Lower Segment_5548	5548	Lower Segment	PL preterm with labor
GSM1900902	Female	Cord Blood_5549	5549	Cord Blood	pPROM no labor
GSM1900903	Female	Chorion_5549	5549	Chorion	pPROM no labor
GSM1900904	Female	Decidua_5549	5549	Decidua	pPROM no labor
GSM1900905	Female	Maternal Blood_5549	5549	Maternal Blood	pPROM no labor
GSM1900906	Female	Placenta_5549	5549	Placenta	pPROM no labor
GSM1900907	Female	Fundus_5549	5549	Fundus	pPROM no labor
GSM1900908	Female	Lower Segment_5549	5549	Lower Segment	pPROM no labor
GSM1900909	Female	Amnion_5627	5627	Amnion	TL term with labor
GSM1900910	Female	Cord Blood_5627	5627	Cord Blood	TL term with labor
GSM1900911	Female	Decidua_5627	5627	Decidua	TL term with labor
GSM1900912	Female	Maternal Blood_5627	5627	Maternal Blood	TL term with labor
GSM1900913	Female	Placenta_5627	5627	Placenta	TL term with labor
GSM1900914	Female	Fundus_5627	5627	Fundus	TL term with labor
GSM1900915	Female	Lower Segment_5627	5627	Lower Segment	TL term with labor
GSM1900916	Female	Amnion_5637	5637	Amnion	pPROM no labor
GSM1900917	Female	Chorion_5637	5637	Chorion	pPROM no labor
GSM1900918	Female	Placenta_5637	5637	Placenta	pPROM no labor
GSM1900919	Female	Fundus_5637	5637	Fundus	pPROM no labor
GSM1900920	Female	Cord Blood_5646	5646	Cord Blood	PL preterm with labor
GSM1900921	Female	Cord Blood_5647	5647	Cord Blood	PL preterm with labor
GSM1900922	Female	Maternal Blood_5647	5647	Maternal Blood	PL preterm with labor
GSM1900923	Female	Placenta_5647	5647	Placenta	PL preterm with labor
GSM1900924	Female	Fundus_5647	5647	Fundus	PL preterm with labor
GSM1900925	Female	Lower Segment_5647	5647	Lower Segment	PL preterm with labor
GSM1900926	Female	Amnion_5648	5648	Amnion	TL term with labor
GSM1900927	Female	Cord Blood_5648	5648	Cord Blood	TL term with labor
GSM1900928	Female	Chorion_5648	5648	Chorion	TL term with labor
GSM1900929	Female	Maternal Blood_5648	5648	Maternal Blood	TL term with labor
GSM1900930	Female	Placenta_5648	5648	Placenta	TL term with labor
GSM1900931	Female	Fundus_5648	5648	Fundus	TL term with labor
GSM1900932	Female	Lower Segment_5648	5648	Lower Segment	TL term with labor
GSM1900933	Female	Amnion_5650	5650	Amnion	PNL preterm no labor
GSM1900934	Female	Cord Blood_5650	5650	Cord Blood	PNL preterm no labor
GSM1900935	Female	Chorion_5650	5650	Chorion	PNL preterm no labor
GSM1900936	Female	Decidua_5650	5650	Decidua	PNL preterm no labor
GSM1900937	Female	Maternal Blood_5650	5650	Maternal Blood	PNL preterm no labor
GSM1900938	Female	Fundus_5650	5650	Fundus	PNL preterm no labor
GSM1900939	Female	Lower Segment_5650	5650	Lower Segment	PNL preterm no labor
GSM1900940	Female	Amnion_8502	8502	Amnion	TNL term no labor
GSM1900941	Female	Cord Blood_8502	8502	Cord Blood	TNL term no labor
GSM1900942	Female	Chorion_8502	8502	Chorion	TNL term no labor
GSM1900943	Female	Decidua_8502	8502	Decidua	TNL term no labor
GSM1900944	Female	Maternal Blood_8502	8502	Maternal Blood	TNL term no labor
GSM1900945	Female	Placenta_8502	8502	Placenta	TNL term no labor
GSM1900946	Female	Fundus_8502	8502	Fundus	TNL term no labor
GSM1900947	Female	Lower Segment_8502	8502	Lower Segment	TNL term no labor
GSM1900948	Female	Chorion_8503	8503	Chorion	TL term with labor
GSM1900949	Female	Decidua_8503	8503	Decidua	TL term with labor
GSM1900950	Female	Maternal Blood_8503	8503	Maternal Blood	TL term with labor

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