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Article
Shadowable Points of Free Semigroup Actions
The shadowable points of dynamical systems have been well-studied by Morales in his recent paper (2016). This paper aims to generalize the main results obtained by Morales to free semigroup actions. To this en...
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Article
Roles of Macrophages and Their Interactions with Schwann Cells After Peripheral Nerve Injury
The adult peripheral nervous system has a significant ability for regeneration compared to the central nervous system. This is related to the unique neuroimmunomodulation after peripheral nerve injury (PNI). U...
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Article
Open AccessGNTD: reconstructing spatial transcriptomes with graph-guided neural tensor decomposition informed by spatial and functional relations
Spatially-resolved RNA profiling has now been widely used to understand cells’ structural organizations and functional roles in tissues, yet it is challenging to reconstruct the whole spatial transcriptomes du...
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Article
Open AccessA large-scale comparative study of isoform expressions measured on four platforms
Most eukaryotic genes produce different transcripts of multiple isoforms by inclusion or exclusion of particular exons. The isoforms of a gene often play diverse functional roles, and thus it is necessary to a...
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Article
Open AccessDARPP-32 and t-DARPP promote non-small cell lung cancer growth through regulation of IKKα-dependent cell migration
Lung cancer is the leading cause of cancer-related death worldwide. Here we demonstrate that elevated expression of dopamine and cyclic adenosine monophosphate-regulated phosphoprotein, Mr 32000 (DARPP-32), an...
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Article
Open AccessVasodilator-stimulated phosphoprotein promotes liver metastasis of gastrointestinal cancer by activating a β1-integrin-FAK-YAP1/TAZ signaling pathway
Extracellular matrix (ECM)-induced β1-integrin-FAK signaling promotes cell attachment, survival, and migration of cancer cells in a distant organ so as to enable cancer metastasis. However, mechanisms governin...
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Article
Open AccessNetwork-based machine learning and graph theory algorithms for precision oncology
Network-based analytics plays an increasingly important role in precision oncology. Growing evidence in recent studies suggests that cancer can be better understood through mutated or dysregulated pathways or ...
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Article
mRNA 3′-UTR shortening is a molecular signature of mTORC1 activation
Mammalian target of rapamycin (mTOR) enhances translation from a subset of messenger RNAs containing distinct 5′-untranslated region (UTR) sequence features. Here we identify 3′-UTR shortening of mRNAs as an a...
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Article
Open AccessPredicting and exploring network components involved in pathogenesis in the malaria parasite via novel subnetwork alignments
Malaria is a major health threat, affecting over 40% of the world's population. The latest report released by the World Health Organization estimated about 207 million cases of malaria infection, and about 627...
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Article
Open AccessSubPatCNV: approximate subspace pattern mining for map** copy-number variations
Many DNA copy-number variations (CNVs) are known to lead to phenotypic variations and pathogenesis. While CNVs are often only common in a small number of samples in the studied population or patient cohort, pr...
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Article
Mixing via the extended family
In this paper, the relationship between the extended family and several mixing properties in measuretheoretical dynamical systems is investigated. The extended family \(e\mathcal{F}\) ...
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Article
Open AccessA novel subnetwork alignment approach predicts new components of the cell cycle regulatory apparatus in Plasmodium falciparum
According to the World Health organization, half the world's population is at risk of contracting malaria. They estimated that in 2010 there were 219 million cases of malaria, resulting in 660,000 deaths and a...
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Article
Open AccessLarge-scale integrative network-based analysis identifies common pathways disrupted by copy number alterations across cancers
Many large-scale studies analyzed high-throughput genomic data to identify altered pathways essential to the development and progression of specific types of cancer. However, no previous study has been extende...
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Article
Open AccessModule-based subnetwork alignments reveal novel transcriptional regulators in malaria parasite Plasmodium falciparum
Malaria causes over one million deaths annually, posing an enormous health and economic burden in endemic regions. The completion of genome sequencing of the causative agents, a group of parasites in the genus Pl...
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Chapter and Conference Paper
Prioritizing Disease Genes by Bi-Random Walk
Random walk methods have been successfully applied to prioritizing disease causal genes. In this paper, we propose a bi-random walk algorithm (BiRW) based on a regularization framework for graph matching to gl...
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Article
Open AccessGenomic Signal Processing
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Article
Synthesis of cysteamine-coated CdTe quantum dots for the detection of bisphenol A
Cadmium telluride quantum dots (QDs) were prepared and coated with cysteamine using ultrasonic irradiation. The QDs were characterized by fluorescence spectroscopy, UV-vis absorption spectra, X-ray diffraction...
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Article
Improved prediction of malaria degradomes by supervised learning with SVM and profile kernel
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Article
Improved prediction of malaria degradomes by supervised learning with SVM and profile kernel
The spread of drug resistance through malaria parasite populations calls for the development of new therapeutic strategies. However, the seemingly promising genomics-driven target identification paradigm is ha...
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Article
Open AccessSVM-Fold: a tool for discriminative multi-class protein fold and superfamily recognition
Predicting a protein's structural class from its amino acid sequence is a fundamental problem in computational biology. Much recent work has focused on develo** new representations for protein sequences, cal...
