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E-GEOD-56899 - Microarray Data of cell-free RNA across pregnancy time course

Status
Released on 18 April 2014, last updated on 28 April 2014
Organism
Homo sapiens
Samples (48)
Array (1)
Protocols (5)
Description
Circulating cell-free RNA in the blood provides a potential window into the health, phenotype, and developmental programs of a variety of human organs. We employed high throughput methods of RNA analysis such as microarrays and next-generation sequencing to characterize the global landscape circulating RNA in a cohort of human subjects. By focusing on genes whose expression is highly specific to certain tissues, we were able to identify the relative contributions of these tissues to circulating RNA, and to monitor changes in tissue development and health. As one such application of this approach, we performed a longitudinal study on pregnant women and analyzed their combined cell-free RNA transcriptomes across all three trimesters of pregnancy and after delivery. In addition to the presence of messenger RNA, we observed and characterized non-coding species such as long non-coding RNA and circular RNA transcripts whose presence had not been previously observed in human plasma. We demonstrate that it is possible to track specific longitudinal phenotypic changes in both the mother and the fetus, and that it is possible to directly measure transcripts from a variety of fetal tissues in the maternal blood sample. We also studied the role of neuron specific transcripts in the blood of healthy adults and those suffering from the neurodegenerative disorder Alzheimer’s disease, and showed that disease specific neural transcripts are present at increased levels in the blood of affected patients. Characterization of the cell-free transcriptome in its entirety may thus provide broad insights into human health and development without the need for invasive tissue sampling. Cell-free RNA are extracted from pregnant women on the first, second and third trimester and immediately post-partum. Temporal trends are extracted from individual patients.
Experiment type
transcription profiling by array 
Contacts
Stephen Quake <geo@ncbi.nlm.nih.gov>, Charles Gawad, Geoffrey A Kerchner, H C Fan, Stephen R Quake, Tony Wyss-Coray, Wenying Pan, Winston Koh, Yair J Blumenfeld, Yasser Y El-Sayed
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-56899.idf.txt
Sample and data relationshipE-GEOD-56899.sdrf.txt
Raw data (1)E-GEOD-56899.raw.1.zip
Processed data (1)E-GEOD-56899.processed.1.zip
Array designA-AFFY-141.adf.txt
Links