Results 51 to 60 of about 980,999 (298)

Comparative Analysis of Single-Cell RNA Sequencing Methods [PDF]

Molecular Cell, 2017
Single-cell RNA sequencing (scRNA-seq) offers new possibilities to address biological and medical questions. However, systematic comparisons of the performance of diverse scRNA-seq protocols are lacking. We generated data from 583 mouse embryonic stem cells to evaluate six prominent scRNA-seq methods: CEL-seq2, Drop-seq, MARS-seq, SCRB-seq, Smart-seq ...
Ziegenhain, Christoph, Vieth, Beate I.H., Parekh, Swati, Reinius, Björn, Guillaumet-Adkins, Amy, Smets, Martha, Leonhardt, Heinrich, Heyn, Holger, Hellmann, Ines, Enard, Wolfgang   +9 more
openaire   +3 more sources

Single-Cell RNA-Sequencing: Assessment of Differential Expression Analysis Methods

Frontiers in Genetics, 2017
The sequencing of the transcriptomes of single-cells, or single-cell RNA-sequencing, has now become the dominant technology for the identification of novel cell types and for the study of stochastic gene expression.
Alessandra Dal Molin, Giacomo Baruzzo, Barbara Di Camillo   +2 more
doaj   +1 more source

Power Analysis of Single Cell RNA-Sequencing Experiments [PDF]

Nature Methods, 2016
AbstractHigh-throughput single cell RNA sequencing (scRNA-seq) has become an established and powerful method to investigate transcriptomic cell-to-cell variation, and has revealed new cell types, and new insights into developmental process and stochasticity in gene expression.
Svensson, Valentine, Natarajan, Kedar Nath, Ly, Lam-Ha, Miragaia, Ricardo J, Labalette, Charlotte, Macaulay, Iain C, Cvejic, Ana, Teichmann, Sarah A   +7 more
openaire   +4 more sources

An intracellular transporter mitigates the CO2‐induced decline in iron content in Arabidopsis shoots

FEBS Letters, EarlyView.
This study identifies a gene encoding a transmembrane protein, MIC, which contributes to the reduction of shoot Fe content observed in plants under elevated CO2. MIC is a putative Fe transporter localized to the Golgi and endosomal compartments. Its post‐translational regulation in roots may represent a potential target for improving plant nutrition ...
Timothy Mozzanino, Meijie Li, Cécile Fizames, Mattia Adamo, Laurence Lejay, Christian Dubos, Matthieu Platre, Antoine Martin   +7 more
wiley   +1 more source

Blastic plasmacytoid dendritic cell neoplasm: Genomics mark epigenetic dysregulation as a primary therapeutic target [PDF]

, 2019
Blastic plasmacytoid dendritic cell neoplasm (BPDCN) is a rare and aggressive hematologic malignancy for which there is still no effective B therapy.
Abate F., Agostinelli C., Amente S., Berti E., Bertolini F., Brundu F., Cerroni L., Dellino G. I., Etebari M., Facchetti F., Falini B., Fuligni F., Indio V., Laginestra M. A., Melle F., Motta G., Orecchioni S., Paulli M., Piccioni R., Pileri A., Pileri S. A., Pimpinelli N., Rabadan R., Rossi M., Sabattini E., Sapienza M. R., Tabanelli V., Talarico G., Tarantino G., Tripodo C., Truni M.   +30 more
core   +2 more sources

Stably expressed genes in single-cell RNA-sequencing [PDF]

Journal of Bioinformatics and Computational Biology, 2018
AbstractMotivationIn single-cell RNA-sequencing (scRNA-seq) experiments, RNA transcripts are extracted and measured from isolated cells to understand gene expression at the cellular level. Measurements from this technology are affected by many technical artifacts, including batch effects.
Deeke, Julie M., Gagnon-Bartsch, Johann A.   +1 more
openaire   +2 more sources

Phosphatidylinositol 4‐kinase as a target of pathogens—friend or foe?

FEBS Letters, EarlyView.
This graphical summary illustrates the roles of phosphatidylinositol 4‐kinases (PI4Ks). PI4Ks regulate key cellular processes and can be hijacked by pathogens, such as viruses, bacteria and parasites, to support their intracellular replication. Their dual role as essential host enzymes and pathogen cofactors makes them promising drug targets.
Ana C. Mendes, Guilherme M. Azevedo, Amanda P. Barcellos, Diana Bahia   +3 more
wiley   +1 more source

Comparative Analysis of Single-cell and Single-nucleus RNA-sequencing in a Rabbit Model of Retinal Detachment-related Proliferative Vitreoretinopathy

Ophthalmology Science, 2023
Purpose: Proliferative vitreoretinopathy (PVR) is the most common cause of failure of retinal reattachment surgery, and the molecular changes leading to this aberrant wound healing process are currently unknown.
Clayton P. Santiago, PhD, MS, Megan Y. Gimmen, BSc, Yuchen Lu, BSc, Minda M. McNally, MS, Leighton H. Duncan, MA, BSc, Tyler J. Creamer, PhD, Linda D. Orzolek, MS, Seth Blackshaw, PhD, Mandeep S. Singh, MD, PhD   +8 more
doaj   +1 more source

Inferring spatial and signaling relationships between cells from single cell transcriptomic data. [PDF]

, 2020
Single-cell RNA sequencing (scRNA-seq) provides details for individual cells; however, crucial spatial information is often lost. We present SpaOTsc, a method relying on structured optimal transport to recover spatial properties of scRNA-seq data by ...
Cang, Zixuan, Nie, Qing
core  

Observation weights unlock bulk RNA-seq tools for zero inflation and single-cell applications [PDF]

, 2018
Dropout events in single-cell RNA sequencing (scRNA-seq) cause many transcripts to go undetected and induce an excess of zero read counts, leading to power issues in differential expression (DE) analysis.
Clement, Lieven, Dudoit, Sandrine, Love, Michael I, Perraudeau, Fanny, Risso, Davide, Robinson, Mark D, Soneson, Charlotte, Van den Berge, Koen, Vert, Jean-Philippe   +8 more
core   +7 more sources