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TranscriptomicsAn Alternative Splicing Event Amplifies Evolutionary Differences Between Vertebrates
Alternative splicing (AS) generates extensive transcriptomic and proteomic complexity. However, the functions of species- and lineage-specific splice variants are largely unknown. Here, we show that mammalian-specific skipping of exon 9 of PTBP1 alters its splicing regulatory activities and affects ...
ORGANISM(S): Homo sapiens 
2015-09-01 | E-GEOD-69656 | biostudies-arrayexpress
TranscriptomicsMuscleblind-like proteins regulate embryonic stem cell-specific alternative splicing and reprogramming
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Mus musculus 
2013-06-26 | E-GEOD-45505 | biostudies-arrayexpress
ProteomicsOrigin and evolution of neural microexons
The mechanisms by which entire programs of gene regulation emerged during evolution are poorly understood. Neuronal microexons represent the most conserved class of alternative splicing in vertebrates and are critical for proper brain development and function. Here, we discover neural microexon prog...
ORGANISM(S): Homo sapiens (Human) 
2019-03-12 | PXD010034 | Pride
Nuclear extract Microexon Human Ribonucleoprotein complex 
TranscriptomicsEssential roles for the splicing regulator nSR100/SRRM4 during nervous system development
Alternative splicing (AS) generates vast transcriptomic complexity in the vertebrate nervous system. However, the extent to which trans-acting splicing regulators and their target AS regulatory networks contribute to nervous system development is not completely understood. To address these questions...
ORGANISM(S): Mus musculus 
2015-04-14 | E-GEOD-65818 | biostudies-arrayexpress
TranscriptomicsMuscleblind-like proteins regulate embryonic stem cell-specific alternative splicing and reprogramming II
Previous investigations of the core gene regulatory circuitry that controls embryonic stem cell (ESC) pluripotency have largely focused on the roles of transcription, chromatin and non- coding RNA regulators. Alternative splicing (AS) represents a widely acting mode of gene regulation, yet its role ...
ORGANISM(S): Homo sapiens 
2013-06-26 | E-GEOD-45504 | biostudies-arrayexpress
TranscriptomicsMuscleblind-like proteins regulate embryonic stem cell-specific alternative splicing and reprogramming I
Previous investigations of the core gene regulatory circuitry that controls embryonic stem cell (ESC) pluripotency have largely focused on the roles of transcription, chromatin and non- coding RNA regulators. Alternative splicing (AS) represents a widely acting mode of gene regulation, yet its role ...
ORGANISM(S): Mus musculus 
2013-06-26 | E-GEOD-45503 | biostudies-arrayexpress
TranscriptomicsDeep transcriptome analysis of mouse embryonic fibroblast following simultaneous overexpression of Stella, Oct4 and Nanos2 (SON)
We constructed a polycistronic lentiviral vector to overexpress 3 germ cell specific genes (Stella, Oct4 and Nanos2) in mouse embryonic fibroblast (MEFs) and evaluated the transcriptome portrait in partially reprogrammed cells.We sequenced RNA samples from bulk cell population of two biological dup...
ORGANISM(S): Mus musculus 
2016-07-30 | E-GEOD-77351 | biostudies-arrayexpress
GenomicsExtensive conservation of ancient microsynteny across metazoans
Gene order, or microsynteny, is generally thought not to be conserved across metazoan phyla. Only a handful of exceptions, typically of tandemly duplicated genes such as Hox genes, have been discovered. Here, we performed a systematic survey for microsynteny conservation in 17 genomes and identified...
ORGANISM(S): Danio rerio 
2012-06-21 | E-GEOD-35050 | biostudies-arrayexpress
Proteomics,MultiomicsRaj_nSR100_interactions_P36_V21_P105_V17
This submission includes the mass spectrometry data for the manuscript by Raj et al. (nSR100 regulation of an exon network required for neurogenesis). This submission contains files for Srrm4 (aka nSR100) interactions from mouse N2A cells acquired on a 5600 TripleTOF mass spectrometer and files for...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) Mus Musculus (ncbitaxon:10090) 
2014-04-23 | MSV000078609 | MassIVE
TranscriptomicsConserved functional antagonism between CELF and MBNL proteins regulates stem cell-specific alternative splicing and regeneration in planarians
Understanding gene regulation in stem cells is key to understanding stem cell biology.Contrary to transcriptional regulation the function of alternative splicing (AS) in stem cells is poorly understood. Here we study function and mechanisms of AS in a powerful in vivo model for stem cell biology, th...
ORGANISM(S): Schmidtea mediterranea 
2016-08-01 | E-GEOD-75296 | biostudies-arrayexpress
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