Results 51 to 60 of about 86,859 (350)

Deep generative modeling for single-cell transcriptomics. [PDF]

, 2018
Single-cell transcriptome measurements can reveal unexplored biological diversity, but they suffer from technical noise and bias that must be modeled to account for the resulting uncertainty in downstream analyses.
A Regev, A Tanay, A Wagner, A Zeisel, AP Patel, B Wang, BK Tusi, CA Vallejos, CA Vallejos, D DeTomaso, D Grün, D Risso, DM Blei, E Pierson, FA Wolf, G Finak, G Görgün, GXY Zheng, HI Nakaya, J Ding, J Fan, Jeffrey Regier, JT Gaublomme, K Shekhar, L Haghverdi, L Held, M Stoeckius, MD Robinson, MI Love, Michael B. Cole, Michael I. Jordan, Nir Yosef, PV Kharchenko, Q Li, RE Kass, Romain Lopez, S Prabhakaran, S Semrau, U Shaham, WE Johnson   +39 more
core   +1 more source

Droplet scRNA-seq is not zero-inflated [PDF]

Nature Biotechnology, 2019
Potential users of single cell RNA-sequencing often encounter a choice between high-throughput droplet based methods and high sensitivity plate based methods. In particular there is a widespread belief that single-cell RNA-sequencing will often fail to generate measurements for particular gene, cell pairs due to molecular inefficiencies, causing data ...
openaire   +3 more sources

Single-cell RNA sequencing of bronchoscopy specimens: development of a rapid minimal handling protocol

BioTechniques, 2023
Single-cell RNA sequencing (scRNA-seq) is an important tool for understanding disease pathophysiology, including airway diseases. Currently, the majority of scRNA-seq studies in airway diseases have used invasive methods (airway biopsy, surgical ...
Firoozeh V Gerayeli, Stephen Milne, Chen Xi Yang, Xuan Li, Elizabeth Guinto, Julia Shun-Wei Yang, Chung Yan Cheung, Tara R Stach, Tawimas Shaipanich, Janice M Leung, Don D Sin   +10 more
doaj   +1 more source

Commercial automated scRNA-seq workflow v1 [PDF]

, 2020
This SOP describes the procedure for plate based scRNA-seq performed with a commercial available kit from New England BioLabs. Following library construction, samples are pooled in equivolume and quantified, prior to sequencing on the Illumina HiSeq 4000 platform.
DNA Pipelines R&D, Peter Ellis, Lesley Shirley   +2 more
openaire   +1 more source

Single-Cell Sequencing on Marine Life: Application and Future Development

Frontiers in Marine Science, 2022
Single-cell RNA-sequencing (scRNA-seq) is the genomic approach that directly examines gene expression information from individual cells and provides a higher resolution of cellular differences than bulk RNA-seq.
Jing Li, Jing Li, Hao Wang, Chaolun Li, Chaolun Li, Chaolun Li   +5 more
doaj   +1 more source

Defective Tmprss3-Associated Hair Cell Degeneration in Inner Ear Organoids [PDF]

, 2019
Mutations in the gene encoding the type II transmembrane protease 3 (TMPRSS3) cause human hearing loss, although the underlying mechanisms that result in TMPRSS3-related hearing loss are still unclear.
Alex, Alpha L., Booth, Kevin T., Hashino, Eri, Koehler, Karl R., Lee, Jiyoon, Nelson, Rick F., Nie, Jing, Roth, Adam A., Tang, Pei-Ciao   +8 more
core   +1 more source

Clonal kinetics and single-cell transcriptional profiling of CAR-T cells in patients undergoing CD19 CAR-T immunotherapy [PDF]

, 2020
Chimeric antigen receptor (CAR) T-cell therapy has produced remarkable anti-tumor responses in patients with B-cell malignancies. However, clonal kinetics and transcriptional programs that regulate the fate of CAR-T cells after infusion remain poorly ...
Adair, Jennifer E., DeBerg, Hannah A., Enstrom, Mark R., Gersuk, Vivian, Gottardo, Raphaël, Hanafi, Laïla-Aïcha, Hawkins, Reed, Kiem, Hans-Peter, Linsley, Peter S., Maloney, David G., Pande, Dnyanada, Riddell, Stanley R., Sheih, Alyssa, Turtle, Cameron J., Voillet, Valentin, Wohlfahrt, Martin E., Yajima, Masanao   +16 more
core   +1 more source

Benchmarking scRNA-seq copy number variation callers. [PDF]

Nat Commun
AbstractCopy number variations (CNVs), the gain or loss of genomic regions, are associated with different diseases and cancer types, where they are related to tumor progression and treatment outcome. Single cell technologies offer new possibilities to measure CNVs in individual cells, allowing to assess population heterogeneity and to delineate ...
Schmid KT, Symeonidi A, Hlushchenko D, Richter ML, Tijhuis AE, Foijer F, Colomé-Tatché M.   +6 more
europepmc   +2 more sources

miRSCAPE - inferring miRNA expression from scRNA-seq data

iScience, 2022
Our understanding of miRNA activity at cellular resolution is thwarted by the inability of standard scRNA-seq protocols to capture miRNAs. We introduce a novel tool, miRSCAPE, to infer miRNA expression in a sample from its RNA-seq profile. We establish miRSCAPE's accuracy in 10 tumor and normal cohorts demonstrating its superiority over alternatives ...
Gulden Olgun, Vishaka Gopalan, Sridhar Hannenhalli   +2 more
openaire   +3 more sources

Biological and Medical Importance of Cellular Heterogeneity Deciphered by Single-Cell RNA Sequencing

Cells, 2020
The present review discusses recent progress in single-cell RNA sequencing (scRNA-seq), which can describe cellular heterogeneity in various organs, bodily fluids, and pathologies (e.g., cancer and Alzheimer’s disease).
Rishikesh Kumar Gupta, Jacek Kuznicki
doaj   +1 more source