Results 41 to 50 of about 339,780 (261)
Segmentation and genome annotation algorithms
CoRR, 2021 Segmentation and genome annotation (SAGA) algorithms are widely used to understand genome activity and gene regulation. These algorithms take as input epigenomic datasets, such as chromatin immunoprecipitation-sequencing (ChIP-seq) measurements of histone modifications or transcription factor binding.
Maxwell W. Libbrecht +2 more
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FEBS Letters, EarlyView.Embryo‐like structures (stembryos) are an innovative tool, but they are hindered by experimental variability and limited developmental potential. DNA methylation is crucial for mammalian development, but its status in stembryo models is poorly characterized.
Sara Canil +4 more
wiley +1 more source
Annotating microbial functions with ProkFunFind
mSystemsAnalyzing microbial genomes has become an essential part of microbiology research, giving valuable insights into the functions and evolution of microbial species.
Keith Dufault-Thompson, Xiaofang Jiang
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Molecular Oncology, EarlyView.In this explorative study, the abundance of circular RNA molecules in bone marrow stem cells was found to be elevated in patients with high‐risk myelodysplastic neoplasms, and to be associated with an increased risk of progression to acute myeloid leukemia.
Eileen Wedge +17 more
wiley +1 more source
BMC Genomics, 2019 Background The location and modular structure of eukaryotic protein-coding genes in genomic sequences can be automatically predicted by gene annotation algorithms.
Jeanne Wilbrandt +3 more
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Subtype‐specific enhancer RNAs define transcriptional regulators and prognosis in breast cancers
Molecular Oncology, EarlyView.This study employed machine learning methodologies to perform the subtype‐specific classification of RNA‐seq data sets, which are mapped on enhancers from TCGA‐derived breast cancer patients. Their integration with gene expression (referred to as ProxCReAM eRNAs) and chromatin accessibility profiles has the potential to identify lineage‐specific and ...
Aamena Y. Patel +6 more
wiley +1 more source
Whole genome sequence of Oscheius sp. TEL-2014 entomopathogenic nematodes isolated from South Africa
Genomics Data, 2016 We present the annotation of the draft genome sequence of Oscheius sp. TEL-2014 (Genbank accession number KM492926). This entomopathogenic nematode was isolated from grassland in Suikerbosrand Nature Reserve near Johannesburg in South Africa. Oscheius sp.
Tiisetso E. Lephoto +3 more
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Molecular Oncology, EarlyView.Tumors contain diverse cellular states whose behavior is shaped by context‐dependent gene coordination. By comparing gene–gene relationships across biological contexts, we identify adaptive transcriptional modules that reorganize into distinct vulnerability axes.
Brian Nelson +9 more
wiley +1 more source
Genome (re‐)annotation and open‐source annotation pipelines [PDF]
Microbial Biotechnology, 2010 These days, more and more scientists are diving into genome sequencing projects, urged by fast and cheap next‐generation sequencing technologies. Only to discover that they are quickly drowning in an unfathomable sea of sequence data and gasping for help from experts to make biological sense of this ensuing disaster.
Siezen, R.J., Hijum, S.A.F.T. van
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Molecular Oncology, EarlyView.Glioma cells mainly express the endothelin receptor EDNRB, while EDNRA is restricted to a perivascular tumor subpopulation. Endothelin signaling reduces glioma cell proliferation while promoting migration and a proneural‐to‐mesenchymal transition associated with poor prognosis. This pathway activates Ca2+, K+, ERK, and STAT3 signalings and is regulated
Donovan Pineau +36 more
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