| Literature DB >> 30951672 |
Oscar D Murillo1, William Thistlethwaite1, Joel Rozowsky2, Sai Lakshmi Subramanian1, Rocco Lucero1, Neethu Shah1, Andrew R Jackson1, Srimeenakshi Srinivasan3, Allen Chung4, Clara D Laurent3, Robert R Kitchen5, Timur Galeev2, Jonathan Warrell2, James A Diao6, Joshua A Welsh7, Kristina Hanspers8, Anders Riutta8, Sebastian Burgstaller-Muehlbacher9, Ravi V Shah10, Ashish Yeri10, Lisa M Jenkins11, Mehmet E Ahsen12, Carlos Cordon-Cardo13, Navneet Dogra14, Stacey M Gifford15, Joshua T Smith15, Gustavo Stolovitzky14, Ashutosh K Tewari16, Benjamin H Wunsch15, Kamlesh K Yadav17, Kirsty M Danielson10, Justyna Filant18, Courtney Moeller3, Parham Nejad19, Anu Paul19, Bridget Simonson10, David K Wong4, Xuan Zhang5, Leonora Balaj20, Roopali Gandhi19, Anil K Sood21, Roger P Alexander22, Liang Wang23, Chunlei Wu9, David T W Wong24, David J Galas22, Kendall Van Keuren-Jensen25, Tushar Patel26, Jennifer C Jones7, Saumya Das10, Kei-Hoi Cheung27, Alexander R Pico8, Andrew I Su9, Robert L Raffai4, Louise C Laurent3, Matthew E Roth1, Mark B Gerstein28, Aleksandar Milosavljevic29.
Abstract
To develop a map of cell-cell communication mediated by extracellular RNA (exRNA), the NIH Extracellular RNA Communication Consortium created the exRNA Atlas resource (https://exrna-atlas.org). The Atlas version 4P1 hosts 5,309 exRNA-seq and exRNA qPCR profiles from 19 studies and a suite of analysis and visualization tools. To analyze variation between profiles, we apply computational deconvolution. The analysis leads to a model with six exRNA cargo types (CT1, CT2, CT3A, CT3B, CT3C, CT4), each detectable in multiple biofluids (serum, plasma, CSF, saliva, urine). Five of the cargo types associate with known vesicular and non-vesicular (lipoprotein and ribonucleoprotein) exRNA carriers. To validate utility of this model, we re-analyze an exercise response study by deconvolution to identify physiologically relevant response pathways that were not detected previously. To enable wide application of this model, as part of the exRNA Atlas resource, we provide tools for deconvolution and analysis of user-provided case-control studies.Entities:
Keywords: ERCC; deconvolution; exRNA; exosomes; extracellular RNA; extracellular vesicles; lipoproteins; ribonucleoproteins
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Year: 2019 PMID： 30951672 PMCID： PMC6616370 DOI： 10.1016/j.cell.2019.02.018
Source DB: PubMed Journal: Cell ISSN： 0092-8674 Impact factor: 41.582