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TranscriptomicsProgressive lengthening of 3' untranslated regions of mRNAs by alternative polyadenylation during mouse embryonic development
The 3' untranslated regions (3' UTRs) of mRNAs contain cis-acting elements for posttranscriptional regulation of gene expression. Here, we report that mouse genes tend to express mRNAs with longer 3' UTRs as embryonic development progresses. This global regulation is controlled by alternative polyad...
ORGANISM(S): Mus musculus 
2010-08-31 | E-GEOD-23871 | biostudies-arrayexpress
ProteomicsPhosphoproteomics reveals regulation of secondary metabolites in Mahonia bealei under ultraviolet-B radiation
Mahonia Bealei was used as a traditional Chinese medicine for its high alkaloid content. Previous research found that alkaloid and flavonoid contents in the M. bealei leaves increased under combinatory treatments of ultraviolet B and dark. In order to explore the underlying response mechanism, TiO2 ...
ORGANISM(S): Mahonia 
2022-02-16 | PXD028873 | Pride
Phosphoproteomics  mahonia bealei  ultraviolet-b radiation  abiotic stress  secondary metabolism 
Transcriptomics3’READS+, a sensitive and accurate method for 3’ end sequencing of polyadenylated RNA
Sequencing of the 3’ end of poly(A)+ RNA identifies cleavage and polyadenylation sites (pAs) and measures transcript expression. We previously developed a method, 3’ region extraction and deep sequencing (3’READS), to address mispriming issues that often plague 3’ end sequencing. Here we rep...
ORGANISM(S): Homo sapiens 
2016-08-14 | E-GEOD-84170 | biostudies-arrayexpress
TranscriptomicsPaf1C plays novel subunit-specific roles in alternative cleavage and polyadenylation
The PAF complex (Paf1C) has been shown to regulate chromatin modifications, gene transcription, and PolII elongation. Here, we provide the first genome-wide analysis of chromatin occupancy by the entire PAF complex in mammalian cells. We show that Paf1C is recruited not only to promoters and gene bo...
ORGANISM(S): Mus musculus 
2016-01-15 | E-GEOD-72574 | biostudies-arrayexpress
ProteomicsHuman colon LC-MSMS
Colorectal cancer were diagnosed by colonoscopy and pathology and collected at after surgery.The colorectal cacner proteomes were analyzed for 6 normal mucosal tissues and 6 colorectal cancer mucosal tissues by liquid-chromatography mass spectrometry
ORGANISM(S): Homo sapiens (Human) 
2024-05-21 | PXD009475 | Pride
Human，colon，tissue，lc-msms 
TranscriptomicsThe PARN deadenylase targets a discrete set of mRNAs for decay and regulates cell motility in mouse myoblasts
Almost all cellular mRNAs terminate in a 3M-bM-^@M-^Y poly(A) tail, the removal of which can induce both translational silencing and mRNA decay. Mammalian cells encode many poly(A)-specific exoribonucleases but their individual roles are poorly understood. Here, we undertook an analysis of the rol...
ORGANISM(S): Mus musculus 
2012-08-31 | E-GEOD-35944 | biostudies-arrayexpress
TranscriptomicsThreonine-4 of the budding yeast RNAP II CTD couples transcription with Htz1-mediated chromatin remodeling
The C-terminal domain (CTD) of the largest subunit of RNA polymerase II (RNAP II) consists of repeated YSPTSPS heptapeptides and connects transcription with cotranscriptional events. Threonine-4 (Thr4) of the CTD repeats has been shown to function in histone mRNA 3'-end processing in chicken cells a...
ORGANISM(S): Saccharomyces cerevisiae 
2014-08-08 | E-GEOD-60181 | biostudies-arrayexpress
UnknownMapping of Two Major QTLs Controlling Flowering Time in Brassica napus Using a High-Density Genetic Map.
Not available
S-EPMC9571212 | biostudies-literature
TranscriptomicsTranscriptional activity regulates alternative cleavage and polyadenylation
Genes containing multiple polyadenylation (polyA) sites express mRNA isoforms with variable 3’ untranslated regions (3’UTRs). We found that short and long 3’UTR isoforms were relatively more abundant when genes were highly and lowly expressed, respectively, in human and mouse cells. Consistently, up...
ORGANISM(S): Mus musculus 
2011-08-15 | E-GEOD-26512 | biostudies-arrayexpress
TranscriptomicsRBBP6 isoforms regulate the human polyadenylation machinery and modulate expression of mRNAs with AU-rich 3' UTRs
Polyadenylation of mRNA precursors is mediated by a large multisubunit protein complex. Here we show that RBBP6 (retinoblastoma-binding protein 6), identified initially as an Rb- and p53-binding protein, is a component of this complex and functions in 3' processing in vitro and in vivo. RBBP6 associ...
ORGANISM(S): Homo sapiens 
2014-11-06 | E-GEOD-63036 | biostudies-arrayexpress
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