Results 101 to 110 of about 1,421,598 (316)
Supervised Detection of Regulatory Motifs in DNA Sequences
Statistical Applications in Genetics and Molecular Biology, 2003 Identification of transcription factor binding sites (regulatory motifs) is a major interest in contemporary biology. We propose a new likelihood based method, COMODE, for identifying structural motifs in DNA sequences. Commonly used methods (e.g. MEME, Gibbs motif sampler) model binding sites as families of sequences described by a position weight ...
Michael B. Eisen +4 more
openaire +4 more sources
Localized motif discovery in gene regulatory sequences [PDF]
Bioinformatics, 2010 Abstract Motivation: Discovery of nucleotide motifs that are localized with respect to a certain biological landmark is important in several appli-cations, such as in regulatory sequences flanking the transcription start site, in the neighborhood of known transcription factor binding sites, and in transcription factor binding regions ...
Narang, V., Mittal, A., Sung, W.-K.
openaire +3 more sources
Flexible RNA design under structure and sequence constraints using formal languages [PDF]
, 2013 The problem of RNA secondary structure design (also called inverse folding) is the following: given a target secondary structure, one aims to create a sequence that folds into, or is compatible with, a given structure.
Denise, Alain +5 more
core +5 more sources
FEBS Letters, EarlyView.In the adult T‐cell leukemia/lymphoma (ATL) cell line ED, the human T‐cell leukemia virus type 1 (HTLV‐1) provirus was integrated into the intron of the ift81 gene in the antisense orientation. Despite this integration, both the intact ift81 and the viral oncogene hbz were simultaneously expressed, likely due to the functional insufficiency of viral ...
Mayuko Yagi +5 more
wiley +1 more source
29 mammalian genomes reveal novel exaptations of mobile elements for likely regulatory functions in the human genome. [PDF]
PLoS ONE, 2012 Recent research supports the view that changes in gene regulation, as opposed to changes in the genes themselves, play a significant role in morphological evolution. Gene regulation is largely dependent on transcription factor binding sites.
Craig B Lowe, David Haussler
doaj +1 more source
TRAF2 binds to TIFA via a novel motif and contributes to its autophagic degradation
FEBS Letters, EarlyView.TRAF family members couple receptor signalling complexes to downstream outputs, but how they interact with these complexes is not always clear. Here, we show that during ADP‐heptose signalling, TRAF2 binding to TIFA requires two short sequence motifs in the C‐terminal tail of TIFA, which are distinct from the TRAF6 binding motif.
Tom Snelling +4 more
wiley +1 more source
An alignment-free model for comparison of regulatory sequences [PDF]
Bioinformatics, 2010 AbstractMotivation: Some recent comparative studies have revealed that regulatory regions can retain function over large evolutionary distances, even though the DNA sequences are divergent and difficult to align. It is also known that such enhancers can drive very similar expression patterns.
Hashem Koohy +4 more
openaire +2 more sources
FEBS Letters, EarlyView.Three‐dimensional (3D) biological systems have become key tools in lymphoma research, offering reliable in vitro and ex vivo platforms to explore pathogenesis and support precision medicine. This review highlights current 3D non‐Hodgkin lymphoma models, detailing their features, advantages, and limitations, and provides a broad perspective on future ...
Carla Faria +3 more
wiley +1 more source
mSphere, 2018 Extensive 5′ untranslated regions (UTR) are a hallmark of transcripts determining hyphal morphogenesis in Candida albicans. The major transcripts of the EFG1 gene, which are responsible for cellular morphogenesis and metabolism, contain a 5′ UTR of up to
Prashant R. Desai +6 more
doaj +1 more source
From omics to AI—mapping the pathogenic pathways in type 2 diabetes
FEBS Letters, EarlyView.Integrating multi‐omics data with AI‐based modelling (unsupervised and supervised machine learning) identify optimal patient clusters, informing AI‐driven accurate risk stratification. Digital twins simulate individual trajectories in real time, guiding precision medicine by matching patients to targeted therapies.
Siobhán O'Sullivan +2 more
wiley +1 more source