Results 101 to 110 of about 4,988,216 (324)
GASAL2: a GPU accelerated sequence alignment library for high-throughput NGS data
BMC Bioinformatics, 2019 Due the computational complexity of sequence alignment algorithms, various accelerated solutions have been proposed to speedup this analysis. NVBIO is the only available GPU library that accelerates sequence alignment of high-throughput NGS data, but has
Nauman Ahmed +5 more
semanticscholar +1 more source
Inverse parametric sequence alignment
Journal of Algorithms, 2002 Summary: We consider the inverse parametric sequence alignment problem, where a sequence alignment, called a reference alignment, is given and the task is to determine parameter values such that the reference alignment is optimal for those parameter values.
Sun, Fangting +2 more
openaire +3 more sources
Aggressive prostate cancer is associated with pericyte dysfunction
Molecular Oncology, EarlyView.Tumor‐produced TGF‐β drives pericyte dysfunction in prostate cancer. This dysfunction is characterized by downregulation of some canonical pericyte markers (i.e., DES, CSPG4, and ACTA2) while maintaining the expression of others (i.e., PDGFRB, NOTCH3, and RGS5).
Anabel Martinez‐Romero +11 more
wiley +1 more source
Geometric combinatorics and computational molecular biology: branching polytopes for RNA sequences
, 2016 Questions in computational molecular biology generate various discrete optimization problems, such as DNA sequence alignment and RNA secondary structure prediction.
Drellich, Elizabeth +5 more
core +1 more source
A Structurally-Validated Multiple Sequence Alignment of 497 Human Protein Kinase Domains
Scientific Reports, 2019 Studies on the structures and functions of individual kinases have been used to understand the biological properties of other kinases that do not yet have experimental structures.
Vivek Modi, Roland L. Dunbrack
semanticscholar +1 more source
Molecular Oncology, EarlyView.Detection of extrachromosomal circular DNA (eccDNA) in plasma samples from EGFR‐mutated non‐small cell lung cancer patients. Plasma was collected before and during treatment with the EGFR‐tyrosine kinase inhibitor osimertinib. Plasma eccDNA was detected in all cancer samples, and the presence of the EGFR gene on eccDNA serves as a potential biomarker ...
Simone Stensgaard +5 more
wiley +1 more source
A Neural Multi-sequence Alignment TeCHnique (NeuMATCH)
, 2018 The alignment of heterogeneous sequential data (video to text) is an important and challenging problem. Standard techniques for this task, including Dynamic Time Warping (DTW) and Conditional Random Fields (CRFs), suffer from inherent drawbacks.
Dogan, Pelin +3 more
core +1 more source
Dual targeting of RET and SRC synergizes in RET fusion‐positive cancer cells
Molecular Oncology, EarlyView.Despite the strong activity of selective RET tyrosine kinase inhibitors (TKIs), resistance of RET fusion‐positive (RET+) lung cancer and thyroid cancer frequently occurs and is mainly driven by RET‐independent bypass mechanisms. Son et al. show that SRC TKIs significantly inhibit PAK and AKT survival signaling and enhance the efficacy of RET TKIs in ...
Juhyeon Son +13 more
wiley +1 more source
MAFFT-DASH: integrated protein sequence and structural alignment
Nucleic Acids Res., 2019 Here, we describe a web server that integrates structural alignments with the MAFFT multiple sequence alignment (MSA) tool. For this purpose, we have prepared a web-based Database of Aligned Structural Homologs (DASH), which provides structural ...
John Rozewicki +4 more
semanticscholar +1 more source
Molecular Oncology, EarlyView.We developed a cost‐effective methylation‐specific droplet digital PCR multiplex assay containing tissue‐conserved and tumor‐specific methylation markers. The assay can detect circulating tumor DNA with high accuracy in patients with localized and metastatic colorectal cancer.
Luisa Matos do Canto +8 more
wiley +1 more source