FASTQ files of total RNA-Seq data of POPS control samples

Placental biopsies (n = 64 female placentas, n = 67 male placentas) were selected from healthy pregnancies from the POPs cohort. These patients had no evidence of hypertension at booking and during pregnancy, did not experience pre-eclampsia, Hemolysis, Elevated Liver enzymes, and Low Platelets (HELLP) syndrome, gestational diabetes, or diabetes mellitus type I or type II and other obstetric complications. They delivered live babies with a birth weight percentile in the normal range (20-80th percentile), with no evidence of slowing in fetal growth trajectory. Chorionic villi from the corresponding placentas (free from decidua, visible infarction, calcification, hematoma, or damage) were collected and processed within 30 minutes of separation from the uterus. After repeated washes in chilled phosphate buffered saline, the samples were placed in RNA later (Applied Biosystems) and stored at -80°C. Total placental RNA was extracted using mirVana Isolation Kit (Ambion). For each placenta, approximately 5 mg of tissue were homogenized in the Lysis/Binding solution for 20 sec at 6 m/s using a bead beater (FastPrep24) and Lysing Matrix D Tubes (MP Biomedicals). The samples were then spun at 13,000 rpm for 5 min at 4°C and the supernatants recovered. Afterwards, the manufacturer's instructions were followed. Immediately after the RNA extraction, placental RNA samples were DNase-treated using DNA-free DNA Removal Kit (Ambion), aliquoted, and stored in -80°C. Quantity and quality of the RNA samples were assessed using the Agilent 2100 Bioanalyzer, the Agilent RNA 6000 Nano Kit (Agilent Technologies), and Qubit fluorometer. Libraries were prepared starting with 300-500 ng of good quality total RNA (RIN ≥7.5) using the TruSeq Stranded Total RNA Library Prep Kit with Ribo-Zero Human/Mouse/Rat (Illumina), according to the manufacturer's instructions. The kit contains 96 uniquely indexed adapter combinations in order to allow pooling of multiple samples prior to sequencing. After determining their size (with the Agilent 2100 Bioanalyzer and the Agilent High Sensitivity DNA Kit by Agilent Technologies) and concentration (by qPCR with the KAPA Illumina ABI Prism Library Quantification Kit, Kapa Biosystems), libraries have been pooled and sequenced (single-end, 125 bp) using a Single End V4 Cluster Kit and an Illumina HiSeq2500 or HiSeq4000 instrument.

147 samples
DAC: EGAC00001000582
Technology: Illumina HiSeq 4000

Access Policy1 Study Files

Metadata

Request Access

POPS data access policy

You are not authroised to access POPS data unless you have a written permission from the data access committee which you can contact below: D. Stephen Charnock-Jones. Professor of Reproductive Biology. Department of Obstetrics and Gynaecology. University of Cambridge. The Rosie Hospital, Cambridge. CB2 0SW UK email dscj1@cam.ac.uk Tel +44 1223 336875 Fax +44 1223 215327

Studies are experimental investigations of a particular phenomenon, e.g., case-control studies on a particular trait or cancer research projects reporting matching cancer normal genomes from patients.

Study ID	Study Title	Study Type
	Genomic data from analysis of the human placenta, part of the Pregnancy Outcome Prediction study (POPs)	Other

This table displays only public information pertaining to the files in the dataset. If you wish to access this dataset, please submit a request. If you already have access to these data files, please consult the download documentation.

ID	File Type	Size
EGAF00001704053	fq.gz	1.0 GB
EGAF00001704054	fq.gz	737.3 MB
EGAF00001704055	fq.gz	1.1 GB
EGAF00001704056	fq.gz	1.1 GB
EGAF00001704057	fq.gz	1.0 GB
EGAF00001704058	fq.gz	1.2 GB
EGAF00001704059	fq.gz	1.0 GB
EGAF00001704060	fq.gz	1.0 GB
EGAF00001704061	fq.gz	1.5 GB
EGAF00001704062	fq.gz	1.1 GB
EGAF00001704063	fq.gz	1.1 GB
EGAF00001704064	fq.gz	1.1 GB
EGAF00001704065	fq.gz	741.4 MB
EGAF00001704066	fq.gz	869.2 MB
EGAF00001704067	fq.gz	849.9 MB
EGAF00001704068	fq.gz	859.0 MB
EGAF00001704069	fq.gz	902.8 MB
EGAF00001704070	fq.gz	906.2 MB
EGAF00001704071	fq.gz	869.9 MB
EGAF00001704072	fq.gz	787.1 MB
EGAF00001704073	fq.gz	775.1 MB
EGAF00001704074	fq.gz	731.3 MB
EGAF00001704075	fq.gz	777.7 MB
EGAF00001704076	fq.gz	795.6 MB
EGAF00001704077	fq.gz	631.2 MB
EGAF00001704078	fq.gz	655.2 MB
EGAF00001704079	fq.gz	627.0 MB
EGAF00001704080	fq.gz	693.0 MB
EGAF00001704081	fq.gz	826.9 MB
EGAF00001704082	fq.gz	820.2 MB
EGAF00001704083	fq.gz	809.4 MB
EGAF00001704084	fq.gz	642.8 MB
EGAF00001704085	fq.gz	691.5 MB
EGAF00001704086	fq.gz	711.1 MB
EGAF00001704087	fq.gz	552.8 MB
EGAF00001704088	fq.gz	573.3 MB
EGAF00001704089	fq.gz	552.0 MB
EGAF00001704090	fq.gz	612.8 MB
EGAF00001704091	fq.gz	424.5 MB
EGAF00001704092	fq.gz	425.5 MB
EGAF00001704093	fq.gz	421.2 MB
EGAF00001704094	fq.gz	424.0 MB
EGAF00001704095	fq.gz	424.2 MB
EGAF00001704096	fq.gz	392.9 MB
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EGAF00001704119	fq.gz	407.9 MB
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EGAF00001704121	fq.gz	403.6 MB
EGAF00001704122	fq.gz	405.1 MB
EGAF00001704123	fq.gz	376.8 MB
EGAF00001704124	fq.gz	327.7 MB
EGAF00001704125	fq.gz	327.1 MB
EGAF00001704126	fq.gz	327.2 MB
EGAF00001704127	fq.gz	326.4 MB
EGAF00001704128	fq.gz	327.0 MB
EGAF00001704129	fq.gz	444.7 MB
EGAF00001704130	fq.gz	502.2 MB
EGAF00001704131	fq.gz	489.3 MB
EGAF00001704132	fq.gz	485.3 MB
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EGAF00001704144	fq.gz	485.9 MB
EGAF00001704145	fq.gz	463.7 MB
EGAF00001704146	fq.gz	386.6 MB
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EGAF00001704156	fq.gz	337.5 MB
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EGAF00001704175	fq.gz	333.3 MB
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EGAF00001704187	fq.gz	972.6 MB
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EGAF00001704189	fq.gz	702.3 MB
EGAF00001704190	fq.gz	1.0 GB
EGAF00001704191	fq.gz	1.0 GB
EGAF00001704192	fq.gz	982.0 MB
EGAF00001704193	fq.gz	1.1 GB
EGAF00001704194	fq.gz	893.8 MB
EGAF00001704195	fq.gz	891.1 MB
EGAF00001704196	fq.gz	1.3 GB
EGAF00001704197	fq.gz	955.4 MB
EGAF00001704198	fq.gz	953.1 MB
EGAF00001704199	fq.gz	914.5 MB
EGAF00001704200	fq.gz	764.8 MB
EGAF00001704201	fq.gz	904.7 MB
EGAF00001704202	fq.gz	818.6 MB
EGAF00001704203	fq.gz	835.8 MB
EGAF00001704204	fq.gz	891.0 MB
EGAF00001704205	fq.gz	753.0 MB
EGAF00001704206	fq.gz	747.0 MB
EGAF00001704207	fq.gz	736.9 MB
EGAF00001704208	fq.gz	637.1 MB
EGAF00001704209	fq.gz	664.5 MB
EGAF00001704210	fq.gz	678.2 MB
EGAF00001704211	fq.gz	540.2 MB
EGAF00001704212	fq.gz	559.6 MB
EGAF00001704213	fq.gz	536.3 MB
EGAF00001704214	fq.gz	591.3 MB
EGAF00001704215	fq.gz	683.3 MB
EGAF00001704216	fq.gz	680.8 MB
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EGAF00001704234	fq.gz	418.9 MB
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EGAF00001704237	fq.gz	336.5 MB
EGAF00001704238	fq.gz	336.5 MB
EGAF00001704239	fq.gz	336.6 MB
EGAF00001704240	fq.gz	335.8 MB
EGAF00001704241	fq.gz	336.9 MB
EGAF00001704242	fq.gz	313.7 MB
EGAF00001704243	fq.gz	388.3 MB
EGAF00001704244	fq.gz	388.0 MB
EGAF00001704245	fq.gz	385.9 MB
EGAF00001704246	fq.gz	388.5 MB
EGAF00001704247	fq.gz	388.2 MB
EGAF00001704248	fq.gz	362.1 MB
EGAF00001704249	fq.gz	419.9 MB
EGAF00001704250	fq.gz	412.5 MB
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EGAF00001704252	fq.gz	400.2 MB
EGAF00001704253	fq.gz	409.2 MB
EGAF00001704254	fq.gz	411.4 MB
EGAF00001704255	fq.gz	412.3 MB
EGAF00001704256	fq.gz	387.1 MB
EGAF00001704257	fq.gz	408.4 MB
EGAF00001704258	fq.gz	403.6 MB
EGAF00001704259	fq.gz	403.1 MB
EGAF00001704260	fq.gz	402.5 MB
EGAF00001704261	fq.gz	399.9 MB
EGAF00001704262	fq.gz	381.5 MB
EGAF00001704263	fq.gz	381.9 MB
EGAF00001704264	fq.gz	379.7 MB
EGAF00001704265	fq.gz	385.8 MB
EGAF00001704266	fq.gz	381.8 MB
EGAF00001704267	fq.gz	360.3 MB
EGAF00001704268	fq.gz	315.2 MB
EGAF00001704269	fq.gz	317.0 MB
EGAF00001704270	fq.gz	317.9 MB
EGAF00001704271	fq.gz	318.1 MB
EGAF00001704272	fq.gz	316.2 MB
EGAF00001704273	fq.gz	318.4 MB
EGAF00001704274	fq.gz	317.3 MB
EGAF00001704275	fq.gz	295.9 MB
EGAF00001704276	fq.gz	350.5 MB
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EGAF00001704278	fq.gz	347.4 MB
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EGAF00001704293	fq.gz	345.3 MB
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EGAF00001704297	fq.gz	325.1 MB
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EGAF00001704299	fq.gz	323.0 MB
EGAF00001704300	fq.gz	891.1 MB
EGAF00001704301	fq.gz	889.8 MB
EGAF00001704302	fq.gz	879.7 MB
EGAF00001704303	fq.gz	901.4 MB
EGAF00001704304	fq.gz	527.4 MB
EGAF00001704305	fq.gz	880.2 MB
EGAF00001704306	fq.gz	781.4 MB
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EGAF00001704311	fq.gz	855.5 MB
EGAF00001704312	fq.gz	865.6 MB
EGAF00001704313	fq.gz	576.9 MB
EGAF00001704314	fq.gz	1.1 GB
EGAF00001704315	fq.gz	1.0 GB
EGAF00001704316	fq.gz	640.3 MB
EGAF00001704317	fq.gz	1.1 GB
EGAF00001704318	fq.gz	1.1 GB
EGAF00001704319	fq.gz	673.0 MB
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EGAF00001704321	fq.gz	780.4 MB
EGAF00001704322	fq.gz	769.4 MB
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EGAF00001704324	fq.gz	672.1 MB
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EGAF00001704424	fq.gz	1.1 GB
EGAF00001704425	fq.gz	1.1 GB
EGAF00001704426	fq.gz	1.4 GB
EGAF00001704427	fq.gz	652.9 MB
EGAF00001704428	fq.gz	587.4 MB
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EGAF00001704437	fq.gz	729.5 MB
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EGAF00001706189	fq.gz	425.1 MB
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EGAF00001706237	fq.gz	372.1 MB
EGAF00001706238	fq.gz	371.8 MB
2186 Files (1.2 TB)