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Article
Open AccessHippocampal transcriptome-wide association study and pathway analysis of mitochondrial solute carriers in Alzheimer’s disease
The etiopathogenesis of late-onset Alzheimer’s disease (AD) is increasingly recognized as the result of the combination of the aging process, toxic proteins, brain dysmetabolism, and genetic risks. Although th...
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Article
Open AccessDNA sequences performs as natural language processing by exploiting deep learning algorithm for the identification of N4-methylcytosine
N4-methylcytosine is a biochemical alteration of DNA that affects the genetic operations without modifying the DNA nucleotides such as gene expression, genomic imprinting, chromosome stability, and the develop...
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Chapter and Conference Paper
FGN: Fusion Glyph Network for Chinese Named Entity Recognition
As pictographs, Chinese characters contain latent glyph information, which is often overlooked. In this paper, we propose the FGN (https://githup.com/AidenHuen/FGN-NER
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Article
Open AccessNeuroprotection by Heat Shock Factor-1 (HSF1) and Trimerization-Deficient Mutant Identifies Novel Alterations in Gene Expression
Heat shock factor-1 (HSF1) protects neurons from death caused by the accumulation of misfolded proteins by stimulating the transcription of genes encoding heat shock proteins (HSPs). This stimulatory action de...
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Article
Open AccessThe protective role of DOT1L in UV-induced melanomagenesis
The DOT1L histone H3 lysine 79 (H3K79) methyltransferase plays an oncogenic role in MLL-rearranged leukemogenesis. Here, we demonstrate that, in contrast to MLL-rearranged leukemia, DOT1L plays a protective ro...
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Article
Open AccessThe distinct metabolic phenotype of lung squamous cell carcinoma defines selective vulnerability to glycolytic inhibition
Adenocarcinoma (ADC) and squamous cell carcinoma (SqCC) are the two predominant subtypes of non-small cell lung cancer (NSCLC) and are distinct in their histological, molecular and clinical presentation. Howev...
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Article
Open AccessEstimating developmental states of tumors and normal tissues using a linear time-ordered model
Tumor cells are considered to have an aberrant cell state, and some evidence indicates different development states appearing in the tumorigenesis. Embryonic development and stem cell differentiation are order...
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Article
Open AccessUnderstanding protein evolutionary rate by integrating gene co-expression with protein interactions
Among the many factors determining protein evolutionary rate, protein-protein interaction degree (PPID) has been intensively investigated in recent years, but its precise effect on protein evolutionary rate is...
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Article
Pharmacokinetics of forsythoside after intravenous administration in beagle dogs
A high-performance liquid chromatography with ultraviolet detection method was established and validated for quantification of forsythoside concentrations in dog plasma. Following a single-step protein precipi...
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Article
Hybrid selection of discrete genomic intervals on custom-designed microarrays for massively parallel sequencing
Complementary techniques that deepen information content and minimize reagent costs are required to realize the full potential of massively parallel sequencing. Here, we describe a resequencing approach that d...
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Article
Open AccessUsing quality scores and longer reads improves accuracy of Solexa read map**
Second-generation sequencing has the potential to revolutionize genomics and impact all areas of biomedical science. New technologies will make re-sequencing widely available for such applications as identifyi...
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Article
Genome-wide in situ exon capture for selective resequencing
Increasingly powerful sequencing technologies are ushering in an era of personal genome sequences and raising the possibility of using such information to guide medical decisions. Genome resequencing also prom...
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Article
A microRNA component of the p53 tumour suppressor network
The tumour suppressor p53 is the most commonly mutated gene in human cancers, and probably nearly all tumours have a lesion somewhere in this pathway. The p53 network is activated in response to numerous insul...
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Article
Open AccessBoosting with stumps for predicting transcription start sites
Promoter prediction is a difficult but important problem in gene finding, and it is critical for elucidating the regulation of gene expression. We introduce a new promoter prediction program, CoreBoost, which ...
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Article
Open AccessGenome-wide promoter extraction and analysis in human, mouse, and rat
Large-scale and high-throughput genomics research needs reliable and comprehensive genome-wide promoter annotation resources. We have conducted a systematic investigation on how to improve mammalian promoter p...
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Article
Computational comparison of two mouse draft genomes and the human golden path
The availability of both mouse and human draft genomes has marked the beginning of a new era of comparative mammalian genomics. The two available mouse genome assemblies, from the public mouse genome sequencin...
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Article
Identification of selenocysteine insertion sequence (SECIS) element in eukaryotic selenoproteins by RNA Draw program
The computer program RNA Draw was used to identify the secondary structures in the 3′ untranslated regions (3′UTRs) of the mRNAs from 46 eukaryotic selenoproteins among 7 species. The program found one or two ...
