scholarly journals Understanding human fetal pancreas development using subpopulation sorting, RNA sequencing and single-cell profiling

Development ◽  
2018 ◽  
Vol 145 (16) ◽  
pp. dev165480 ◽  
Author(s):  
Cyrille Ramond ◽  
Belin Selcen Beydag-Tasöz ◽  
Ajuna Azad ◽  
Martijn van de Bunt ◽  
Maja Borup Kjær Petersen ◽  
...  
Diabetes ◽  
1985 ◽  
Vol 34 (11) ◽  
pp. 1113-1119 ◽  
Author(s):  
S. Sandler ◽  
A. Andersson ◽  
A. Schnell ◽  
A. Mellgren ◽  
J. Tollemar ◽  
...  

2012 ◽  
Vol 44 (1) ◽  
pp. 72-83 ◽  
Author(s):  
Erin McDonald ◽  
Jinming Li ◽  
Mansa Krishnamurthy ◽  
George F. Fellows ◽  
Cynthia G. Goodyer ◽  
...  

2017 ◽  
Author(s):  
Mo Huang ◽  
Jingshu Wang ◽  
Eduardo Torre ◽  
Hannah Dueck ◽  
Sydney Shaffer ◽  
...  

AbstractRapid advances in massively parallel single cell RNA sequencing (scRNA-seq) is paving the way for high-resolution single cell profiling of biological samples. In most scRNA-seq studies, only a small fraction of the transcripts present in each cell are sequenced. The efficiency, that is, the proportion of transcripts in the cell that are sequenced, can be especially low in highly parallelized experiments where the number of reads allocated for each cell is small. This leads to unreliable quantification of lowly and moderately expressed genes, resulting in extremely sparse data and hindering downstream analysis. To address this challenge, we introduce SAVER (Single-cell Analysis Via Expression Recovery), an expression recovery method for scRNA-seq that borrows information across genes and cells to impute the zeros as well as to improve the expression estimates for all genes. We show, by comparison to RNA fluorescence in situ hybridization (FISH) and by data down-sampling experiments, that SAVER reliably recovers cell-specific gene expression concentrations, cross-cell gene expression distributions, and gene-to-gene and cell-to-cell correlations. This improves the power and accuracy of any downstream analysis involving genes with low to moderate expression.


Diabetes ◽  
1985 ◽  
Vol 34 (11) ◽  
pp. 1113-1119 ◽  
Author(s):  
S. Sandler ◽  
A. Andersson ◽  
A. Schnell ◽  
A. Mellgren ◽  
J. Tollemar ◽  
...  

Vascular Cell ◽  
2014 ◽  
Vol 6 (1) ◽  
pp. 22 ◽  
Author(s):  
Matthias S Roost ◽  
Liesbeth van Iperen ◽  
Ana de Melo Bernardo ◽  
Christine L Mummery ◽  
Françoise Carlotti ◽  
...  

Author(s):  
Wojciech J. Szlachcic ◽  
Natalia Ziojla ◽  
Dorota K. Kizewska ◽  
Marcelina Kempa ◽  
Malgorzata Borowiak

A chronic inability to maintain blood glucose homeostasis leads to diabetes, which can damage multiple organs. The pancreatic islets regulate blood glucose levels through the coordinated action of islet cell-secreted hormones, with the insulin released by β-cells playing a crucial role in this process. Diabetes is caused by insufficient insulin secretion due to β-cell loss, or a pancreatic dysfunction. The restoration of a functional β-cell mass might, therefore, offer a cure. To this end, major efforts are underway to generate human β-cells de novo, in vitro, or in vivo. The efficient generation of functional β-cells requires a comprehensive knowledge of pancreas development, including the mechanisms driving cell fate decisions or endocrine cell maturation. Rapid progress in single-cell RNA sequencing (scRNA-Seq) technologies has brought a new dimension to pancreas development research. These methods can capture the transcriptomes of thousands of individual cells, including rare cell types, subtypes, and transient states. With such massive datasets, it is possible to infer the developmental trajectories of cell transitions and gene regulatory pathways. Here, we summarize recent advances in our understanding of endocrine pancreas development and function from scRNA-Seq studies on developing and adult pancreas and human endocrine differentiation models. We also discuss recent scRNA-Seq findings for the pathological pancreas in diabetes, and their implications for better treatment.


2007 ◽  
Vol 18 (1) ◽  
pp. 31-36 ◽  
Author(s):  
Esther Korpershoek ◽  
Aart M. Verwest ◽  
Ynske IJzendoorn ◽  
Robbert Rottier ◽  
Hemmo A. Drexhage ◽  
...  

Diabetes ◽  
2020 ◽  
Vol 69 (Supplement 1) ◽  
pp. 41-OR
Author(s):  
FARNAZ SHAMSI ◽  
MARY PIPER ◽  
LI-LUN HO ◽  
TIAN LIAN HUANG ◽  
YU-HUA TSENG

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