Results 101 to 110 of about 237,743 (266)

Automated DNA Motif Discovery [PDF]

, 2010
Ensembl's human non-coding and protein coding genes are used to automatically find DNA pattern motifs. The Backus-Naur form (BNF) grammar for regular expressions (RE) is used by genetic programming to ensure the generated strings are legal.
Graillet, Olivia Sanchez, Harrison, A. P., Langdon, W. B.   +2 more
core   +2 more sources

Global network structure of dominance hierarchy of ant workers [PDF]

, 2014
Dominance hierarchy among animals is widespread in various species and believed to serve to regulate resource allocation within an animal group. Unlike small groups, however, detection and quantification of linear hierarchy in large groups of animals are
Abe, Masato S., Masuda, Naoki, Shimoji, Hiroyuki, Tsuji, Kazuki   +3 more
core   +3 more sources

Dammarenediol II enhances etoposide‐induced apoptosis by targeting O‐GlcNAc transferase and Akt/GSK3β/mTOR signaling in liver cancer

Molecular Oncology, EarlyView.
Etoposide induces DNA damage, activating p53‐dependent apoptosis via caspase‐3/7, which cleaves PARP1. Dammarenediol II enhances this apoptotic pathway by suppressing O‐GlcNAc transferase activity, further decreasing O‐GlcNAcylation. The reduction in O‐GlcNAc levels boosts p53‐driven apoptosis and influences the Akt/GSK3β/mTOR signaling pathway ...
Jaehoon Lee, Byung‐Cheol Han, Gi‐Bang Koo, Jihye Park, Mijin Kwon, Young Bin Park, Jae‐Mun Choi, Seung‐Ho Lee, Sangho Roh   +8 more
wiley   +1 more source

High-throughput methods for identification of protein-protein interactions involving short linear motifs [PDF]

Cell Communication and Signaling, 2015
Interactions between modular domains and short linear motifs (3-10 amino acids peptide stretches) are crucial for cell signaling. The motifs typically reside in the disordered regions of the proteome and the interactions are often transient, allowing for rapid changes in response to changing stimuli.
Blikstad, Cecilia, Ivarsson, Ylva
openaire   +2 more sources

Recurrence-based time series analysis by means of complex network methods

, 2010
Complex networks are an important paradigm of modern complex systems sciences which allows quantitatively assessing the structural properties of systems composed of different interacting entities.
Csárdi G., Gao Z.-Y., Horai S., JONATHAN F. DONGES, JÜRGEN KURTHS, MICHAEL SMALL, Mudelsee M., NORBERT MARWAN, Poincaré H., REIK V. DONNER, RUOXI XIANG, Thiel M., YONG ZOU   +12 more
core   +1 more source

Proof of a Conjectured Three-Valued Family of Weil Sums of Binomials [PDF]

, 2015
We consider Weil sums of binomials of the form $W_{F,d}(a)=\sum_{x \in F} \psi(x^d-a x)$, where $F$ is a finite field, $\psi\colon F\to {\mathbb C}$ is the canonical additive character, $\gcd(d,|F^\times|)=1$, and $a \in F^\times$.
Katz, Daniel J., Langevin, Philippe
core   +1 more source

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, Peyman Zarrineh, Nathnael T. Tuffa, Jigar H. Sheth, Sumitra Mohan, Mudassar Iqbal, Sankari Nagarajan   +6 more
wiley   +1 more source

Enhancing prediction of short linear protein motifs with Wregex 3.0

Computational and Structural Biotechnology Journal
Short linear motifs (SLiMs) play an important role in protein-protein interactions. However, SLiM patterns are intrinsically permissive and result into many matches that occur just by chance, specially when targeting large datasets. To prioritize these matches as candidates for functional testing, we developed Wregex (Weighted regular expression ...
Gorka Prieto, Jose A. Rodríguez, Asier Fullaondo   +2 more
openaire   +4 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, Ponty, Yann, Vialette, Stéphane, Waldispühl, Jérôme, Zhang, Yi, Zhou, Yu   +5 more
core   +5 more sources

Genetic attenuation of ALDH1A1 increases metastatic potential and aggressiveness in colorectal cancer

Molecular Oncology, EarlyView.
Aldehyde dehydrogenase 1A1 (ALDH1A1) is a cancer stem cell marker in several malignancies. We established a novel epithelial cell line from rectal adenocarcinoma with unique overexpression of this enzyme. Genetic attenuation of ALDH1A1 led to increased invasive capacity and metastatic potential, the inhibition of proliferation activity, and ultimately ...
Martina Poturnajova, Zuzana Kozovska, Ondrej Pos, Kristina Pavlov, Sachin Gulati, Peter Makovicky, Kristina Jakic, Monika Burikova, Eva Sedlackova, Barbora Svitkova, Silvia Tyciakova, Vojtech Bystry, Nicolas Blavet, Boris Tichy, Matej Hrnciar, Jaroslav Budis, Miroslav Tomas, Peter Dubovan, Georgina Kolnikova, Veronika Repaska, Nikoleta Mojzesova, Eva Zomborska, Daniel Pindak, Michal Mego, Tomas Szemes, Miroslava Matuskova   +25 more
wiley   +1 more source