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On-the-fly selection of cell-specific enhancers, genes, miRNAs and proteins across the human body using SlideBase

Hans Ienasescu, Kang Li, Robin Andersson, Morana Vitezic, Sarah Rennie, Yun Chen, Kristoffer Vitting-Seerup, Emil Lagoni, Mette Boyd, Jette Bornholdt, Michiel J. L. de Hoon, Hideya Kawaji (+5 others)
2016 Database: The Journal of Biological Databases and Curation  
On-the-fly selection of cell-specific enhancers, genes, miRNAs and proteins across the human body using SlideBase.  ...  Abstract Genomics consortia have produced large datasets profiling the expression of genes, micro-RNAs, enhancers and more across human tissues or cells.  ...  Acknowledgements This work is part of the FANTOM5 project. Data  ... 
doi:10.1093/database/baw144 pmid:28025337 pmcid:PMC5199134 fatcat:hd3sl5a3obdixlkii3hlikjxtm

Cellular and genetic drivers of RNA editing variation in the human brain [article]

Ryn Cuddleston, Junhao Li, Xuanjia Fan, Alexey Kozenkov, Matthew Lalli, Shahrukh Khalique, Stella Dracheva, Eran A. Mukamel, Michael S Breen
2021 bioRxiv   pre-print
We found more selective editing and RNA hyper-editing in neurons relative to oligodendrocytes. The pattern of RNA editing was highly cell type-specific, with 189,229 cell type-associated sites.  ...  We quantified base-specific RNA editing across three major cell populations from the human prefrontal cortex: glutamatergic neurons, medial ganglionic eminence GABAergic neurons, and oligodendrocytes.  ...  "On-the-fly selection of cell-specific enhancers, genes, miRNAs and proteins across the human body using SlideBase." Database 2016 (2016).  ... 
doi:10.1101/2021.07.16.452690 fatcat:m3u5odiuarae5d5ie53qcixvdm

Intronic enhancer region governs transcript-specific Bdnf expression in rodent neurons

Jürgen Tuvikene, Eli-Eelika Esvald, Annika Rähni, Kaie Uustalu, Anna Zhuravskaya, Annela Avarlaid, Eugene V Makeyev, Tõnis Timmusk
2021 eLife  
Collectively, our results shed new light on the cell-type- and stimulus-specific regulation of the important neurotrophic factor BDNF.  ...  Here, we identify an evolutionarily conserved intronic enhancer region inside the Bdnf gene that regulates both basal and stimulus-dependent expression of the Bdnf transcripts starting from the first cluster  ...  On-the-fly selection of cell-specific enhancers, 736 genes, miRNAs and proteins across the human body using SlideBase.  ... 
doi:10.7554/elife.65161 pmid:33560226 pmcid:PMC7891933 fatcat:gc74bu4omzd2dnu2r5nkc3voly