Cell types of origin of the cell-free transcriptome
-
Published:2022-02-07
Issue:6
Volume:40
Page:855-861
-
ISSN:1087-0156
-
Container-title:Nature Biotechnology
-
language:en
-
Short-container-title:Nat Biotechnol
Author:
Vorperian Sevahn K.ORCID, Moufarrej Mira N.ORCID, Jones Robert C., Karkanias Jim, Krasnow Mark, Pisco Angela Oliveira, Quake Stephen R., Salzman Julia, Yosef Nir, Bulthaup Bryan, Brown Phillip, Harper William, Hemenez Marisa, Ponnusamy Ravikumar, Salehi Ahmad, Sanagavarapu Bhavani A., Spallino Eileen, Aaron Ksenia A., Concepcion Waldo, Gardner James M., Kelly Burnett, Neidlinger Nikole, Wang Zifa, Crasta Sheela, Kolluru Saroja, Morri Maurizio, Tan Serena Y., Travaglini Kyle J., Xu Chenling, Alcántara-Hernández Marcela, Almanzar Nicole, Antony Jane, Beyersdorf Benjamin, Burhan Deviana, Calcuttawala Kruti, Carter Matthew M., Chan Charles K. F., Chang Charles A., Chang Stephen, Colville Alex, Culver Rebecca N., Cvijović Ivana, D’Amato Gaetano, Ezran Camille, Galdos Francisco X., Gillich Astrid, Goodyer William R., Hang Yan, Hayashi Alyssa, Houshdaran Sahar, Huang Xianxi, Irwin Juan C., Jang SoRi, Juanico Julia Vallve, Kershner Aaron M., Kim Soochi, Kiss Bernhard, Kong William, Kumar Maya E., Kuo Angera H., Leylek Rebecca, Li Baoxiang, Loeb Gabriel B., Lu Wan-Jin, Mantri Sruthi, Markovic Maxim, McAlpine Patrick L., de Morree Antoine, Mrouj Karim, Mukherjee Shravani, Muser Tyler, Neuhöfer Patrick, Nguyen Thi D., Perez Kimberly, Phansalkar Ragini, Puluca Nazan, Qi Zhen, Rao Poorvi, Raquer-McKay Hayley, Schaum Nicholas, Scott Bronwyn, Seddighzadeh Bobak, Segal Joe, Sen Sushmita, Sikandar Shaheen, Spencer Sean P., Steffes Lea, Subramaniam Varun R., Swarup Aditi, Swift Michael, Van Treuren Will, Trimm Emily, Veizades Stefan, Vijayakumar Sivakamasundari, Vo Kim Chi, Vorperian Sevahn K., Wang Wanxin, Weinstein Hannah N. W., Winkler Juliane, Wu Timothy T. H., Xie Jamie, Yung Andrea R., Zhang Yue, Detweiler Angela M., Mekonen Honey, Neff Norma F., Sit Rene V., Tan Michelle, Yan Jia, Bean Gregory R., Charu Vivek, Forgó Erna, Martin Brock A., Ozawa Michael G., Silva Oscar, Toland Angus, Vemuri Venkata N. P., Afik Shaked, Awayan Kyle, Bierman Rob, Botvinnik Olga Borisovna, Byrne Ashley, Chen Michelle, Dehghannasiri Roozbeh, Gayoso Adam, Granados Alejandro A., Li Qiqing, Mahmoudabadi Gita, McGeever Aaron, Olivieri Julia Eve, Park Madeline, Ravikumar Neha, Stanley Geoff, Tan Weilun, Tarashansky Alexander J., Vanheusden Rohan, Wang Peter, Wang Sheng, Xing Galen, Xu Chenling, Yosef Nir, Culver Rebecca, Dethlefsen Les, Ho Po-Yi, Liu Shixuan, Maltzman Jonathan S., Metzger Ross J., Sasagawa Koki, Sinha Rahul, Song Hanbing, Wang Bruce, Artandi Steven E., Beachy Philip A., Clarke Michael F., Giudice Linda C., Huang Franklin W., Huang Kerwyn Casey, Idoyaga Juliana, Kim Seung K., Kuo Christin S., Nguyen Patricia, Rando Thomas A., Red-Horse Kristy, Reiter Jeremy, Relman David A., Sonnenburg Justin L., Wu Albert, Wu Sean M., Wyss-Coray Tony, Quake Stephen R.ORCID, , , , , , , , , , ,
Abstract
AbstractCell-free RNA from liquid biopsies can be analyzed to determine disease tissue of origin. We extend this concept to identify cell types of origin using the Tabula Sapiens transcriptomic cell atlas as well as individual tissue transcriptomic cell atlases in combination with the Human Protein Atlas RNA consensus dataset. We define cell type signature scores, which allow the inference of cell types that contribute to cell-free RNA for a variety of diseases.
Publisher
Springer Science and Business Media LLC
Subject
Biomedical Engineering,Molecular Medicine,Applied Microbiology and Biotechnology,Bioengineering,Biotechnology
Reference54 articles.
1. Koh, W. et al. Noninvasive in vivo monitoring of tissue-specific global gene expression in humans. Proc. Natl Acad. Sci. USA 111, 7361–7366 (2014). 2. Ibarra, A. et al. Non-invasive characterization of human bone marrow stimulation and reconstitution by cell-free messenger RNA sequencing. Nat. Commun. 11, 400 (2020). 3. Larson, M. H. et al. A comprehensive characterization of the cell-free transcriptome reveals tissue- and subtype-specific biomarkers for cancer detection. Nat. Commun. 12, 2357 (2021). 4. Ngo, T. T. M., Moufarrej, M. N. & Rasmussen, M. L. H. Noninvasive blood tests for fetal development predict gestational age and preterm delivery. Science 360, 1133–1136 (2018). 5. Munchel, S. et al. Circulating transcripts in maternal blood reflect a molecular signature of early-onset preeclampsia. Sci. Transl. Med. 12, eaaz0131 (2020).
Cited by
57 articles.
订阅此论文施引文献
订阅此论文施引文献，注册后可以免费订阅5篇论文的施引文献，订阅后可以查看论文全部施引文献
|
|