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TranscriptomicsCombinatorial role of two paralogous splicing factors, hnRNP L and L-like, in multiple-exon regulation of CD45 alternative splicing
The goal of this study was to investigate the role of hnRNP L-like in alternative pre-mRNA splicing in human B-cells through an RNA-Seq approach. RNA-Seq was performed in DG75 cell line with over expression of hnRNP L-like or GFP as control.
ORGANISM(S): Homo sapiens 
2012-03-28 | E-GEOD-33013 | biostudies-arrayexpress
GenomicsAuthentication and characterisation of a new oesophageal adenocarcinoma cell line: MFD-1
Whole genome sequencing (WGS) from snap-frozen oesophageal tumour tissue and germline nucleic acids isolated from peripheral blood mononuclear cells (PBMC) was performed as part of the International Cancer Genome Consortium project and OCCAMS consortium (1,2). Filtered read sequences were mapped to ...
ORGANISM(S): Homo sapiens 
2016-09-09 | E-MTAB-4600 | biostudies-arrayexpress
MetabolomicsRANCM: a new ranking scheme for assigning confidence levels to metabolite assignments in NMR-based metabolomics studies

INTRODUCTION: The Metabolomics Standards Initiative has recommended four categories for metabolite assignments in NMR-based metabolic profiling studies. The putatively annotated compound category is most commonly reported by metabolomics investigators. However, there is significa...

2019-09-27 | MTBLS781 | MetaboLights
TranscriptomicsDynamic liver transcriptome response of Xenopus tropicalis to benzo[a]pyrene
Chronological RNA-seq of comparison of liver from xenopus tropicalis exposed or not to benzo[a]pyrene (10ﾵg/L)
ORGANISM(S): Xenopus tropicalis 
2014-08-18 | E-MTAB-2444 | biostudies-arrayexpress
TranscriptomicsSigma B in Listeria monocytogenes strains from different lineages
Listeria monocytogenes strains classify into at least three distinct phylogenetic lineages. Correlations exist between lineage classification and source of bacterial isolation, e.g., human clinical and food isolates usually classify into either lineage I or II, however, human clinical isolates are ...
ORGANISM(S): Listeria monocytogenes 
2010-06-01 | E-GEOD-21427 | biostudies-arrayexpress
ProteomicsThe Leishmania mexicana promastigote flagellar proteome
Leishmania are protists (class: Kinetoplastida) with a single multifunctional flagellum used for motility, attachment to the sand fly vector and sensory functions. To discover the protein composition of the L. mexicana promastigote flagellum, we fractionated L. mexicana promastigotes by mechanical s...
ORGANISM(S): Leishmania mexicana MHOM/GT/2001/U1103 
2018-12-14 | PXD011057 | Pride
Flagellum Leishmania 
TranscriptomicsThe dsRBP and inactive editor, ADR-1, utilizes dsRNA binding to regulate A-to-I RNA editing across the C. elegans transcriptome
Purpose: The purpose of this experiment is to expand the repertoire of C. elegans edited transcripts and identify the roles of ADR-1 as indirect regulator of editing and ADR-2 as the only active deaminase in vivo. Methods: Strand-specific RNA sequencing of wild-type and adr mutant worms, followed by...
ORGANISM(S): Caenorhabditis elegans 
2014-01-20 | E-GEOD-51556 | biostudies-arrayexpress
TranscriptomicsTracing pluripotency of human early embryos and embryonic stem cells by single cell RNA-seq
Find the casual relationship between gene expression network and cellular phenotype at single cell resolution. We collected donated human pre-implatation embryos, and the embryonic stem cells derived from them, isolate individual cells, prepared single cell cDNAs, and sequenced them by HiSeq2000. Th...
ORGANISM(S): Homo sapiens 
2013-08-10 | E-GEOD-36552 | biostudies-arrayexpress
TranscriptomicsRegulation of HB-EGF by miR-212 and acquired cetuximab-resistance in head and neck cancer
To determine the mechanism of cetuximab-resistance in head and neck cancer, a cetuximab-sensitive cell line (SCC1) and its cetuximab-resistant derivative (1Cc8) were analyzed for differentially expressed genes using DNA microarrays. 900 differentially expressed genes were found using the statistical...
ORGANISM(S): Homo sapiens 
2011-01-14 | E-GEOD-21483 | biostudies-arrayexpress
TranscriptomicsNuclear pore complex evolution: A trypanosome Mlp analog functions in chromosomal segregation but lacks transcriptional barrier activity
The nuclear pore complex (NPC) has dual roles in nucleocytoplasmic transport and chromatin organisation. In many eukaryotes the coiled coil Mlp/Tpr proteins of the NPC nuclear basket have specific roles in interactions with chromatin and defining specialised regions of active transcription, while Ml...
ORGANISM(S): Trypanosoma brucei 
2014-04-03 | E-GEOD-56436 | biostudies-arrayexpress
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