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132 papers found.
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Global transcriptome and gene regulation network for secondary metabolite biosynthesis of tea plant (Camellia sinensis)

Background Major secondary metabolites, including flavonoids, caffeine, and theanine, are important components of tea products and are closely related to the taste, flavor, and health benefits of tea. Secondary metabolite biosynthesis in Camellia sinensis is differentially regulated in different tissues during growth and development. Until now, little was known about the...

Correction: Road Traffic Injury Prevention Initiatives: A Systematic Review and Metasummary of Effectiveness in Low and Middle Income Countries

Nicole Toomey Rebeccah Wafula Jihad Abdelgadir Yi Zhao Chen Liu Fengdi Pei Brittany Zick Camille D. Ratliff Claire Rotich Nicole Jadue Luciano de Andrade Megan von Isenburg Michael Hocker The seventh ... author's name is incorrectly spelled. The correct name is Yi Zhao. OPEN ACCESS

Influence of Seismic Loading on Segment Opening of a Shield Tunnel

The influence of seismic loading on segment opening of a shield tunnel was explored using the dynamic finite element method to analyze the distribution of segment opening under multidirectional seismic loading, combined with a typical engineering installation. The calculation of segment opening was deduced from equivalent continuous theory and segment opening was obtained through...

Single nucleotide polymorphism at alcohol dehydrogenase-1B is associated with risk of esophageal squamous cell carcinoma

Background Esophageal squamous incidence in many developed countries has increased dramatically over last decades, while the underlying mechanism of the biogenesis of ES was still unknown. Methods Here, we investigate 1001 subjects with esophageal cancer recruited from the affiliated hospital of Shanghai Jiao Tong University from Jan. 1, 2001 to Feb. 2, 2004. Single nucleotide...

A novel quinone-based polymer electrode for high performance lithium-ion batteries

Designing of high electrochemical performance organic electrode materials has attracted tremendous attention. Recent investigations revealed that quinone-based polymers along with the stable thioether bonds could achieve a high specific capacity and a good cycling stability simultaneously. In this study, we synthesized a novel ladder-structured polymer poly(2,3-dithiino-1,4...

LSD 2.0: an update of the leaf senescence database

This manuscript describes an update of the leaf senescence database (LSD) previously featured in the 2011 NAR Database Issue. LSD provides comprehensive information concerning senescence-associated genes (SAGs) and their corresponding mutants. We have made extensive annotations for these SAGs through both manual and computational approaches. Recently, we updated LSD to a new...

NPInter v2.0: an updated database of ncRNA interactions

NPInter (http://www.bioinfo.org/NPInter) is a database that integrates experimentally verified functional interactions between noncoding RNAs (excluding tRNAs and rRNAs) and other biomolecules (proteins, RNAs and genomic DNAs). Extensive studies on ncRNA interactions have shown that ncRNAs could act as part of enzymatic or structural complexes, gene regulators or other functional...

PEDF Expression Is Inhibited by Insulin Treatment in Adipose Tissue via Suppressing 11β-HSD1

Early intensive insulin therapy improves insulin sensitivity in type 2 diabetic patients; while the underlying mechanism remains largely unknown. Pigment epithelium-derived factor (PEDF), an anti-angiogenic factor, is believed to be involved in the pathogenesis of insulin resistance. Here, we hypothesize that PEDF might be down regulated by insulin and then lead to the improved...

Gaussian process regression model for normalization of LC-MS data using scan-level information

Background Differences in sample collection, biomolecule extraction, and instrument variability introduce bias to data generated by liquid chromatography coupled with mass spectrometry (LC-MS). Normalization is used to address these issues. In this paper, we introduce a new normalization method using the Gaussian process regression model (GPRM) that utilizes information from...

The association between medical students’ lifestyles and their attitudes towards preventive counseling in different countries

1 Yi Zhao 7 Shen Yuan 4 Ruijuan Zhang 4 Matthew Sebranek 0 Lennert Veerman 6 Mu Li 5 Enying Gong 9 Shu Chen 9 Wenjie Ma 9 Liping Huang 5 KaWing Cho 9 Stephen Leeder 8 Lijing Yan 0 0 Duke Global Health

Generalized Projective Synchronization between Two Different Neural Networks with Mixed Time Delays

The generalized projective synchronization (GPS) between two different neural networks with nonlinear coupling and mixed time delays is considered. Several kinds of nonlinear feedback controllers are designed to achieve GPS between two different such neural networks. Some results for GPS of these neural networks are proved theoretically by using the Lyapunov stability theory and...

Large-scale study of long non-coding RNA functions based on structure and expression features

Mammals and other complex organisms can transcribe an abundance of long non-coding RNAs (lncRNAs) that fulfill a wide variety of regulatory roles in many biological processes. These roles, including as scaffolds and as guides for protein-coding genes, mainly depend on the structure and expression level of lncRNAs. In this review, we focus on the current methods for analyzing...

Evaluation of high-risk clinicopathological indicators in gastrointestinal stromal tumors for prognosis and imatinib treatment outcome

Background Although the clinical benefit of imatinib adjuvant therapy for high-risk patients with gastrointestinal stromal tumor (GIST) has been proven, the recurrence rate still remains high. This study aimed to sub-divide high-risk GIST patients with some “very high-risk” factors for more precise prognostic indicator, and possible association with efficiency of imatinib...

Exploring hierarchical and overlapping modular structure in the yeast protein interaction network

Changning Liu 0 Jing Li 0 Yi Zhao 0 0 Bioinformatics Group, Key Laboratory of Intelligent Information Processing, Center for Advanced Computing Research, Institute of Computing Technology, Chinese

Characteristics of TCM constitutions of adult Chinese women in Hong Kong and identification of related influencing factors: a cross-sectional survey

and helped to perform the statistical analysis and manuscript writing; Yi Zhao and Steve An Xue gave expert advice in the study design and participated in manuscript writing; Lei Jia, Yanhua He, Xiao

Transcriptomic analyses reveal the adaptive features and biological differences of guts from two invasive whitefly species

Background The gut of phloem feeding insects is critical for nutrition uptake and xenobiotics degradation. However, partly due to its tiny size, genomic information for the gut of phloem feeding insects is limited. Results In this study, the gut transcriptomes of two species of invasive whiteflies in the Bemisia tabaci complex, Middle East Asia Minor 1 (MEAM1) and Mediterranean...

Comprehensive Characterization of 10,571 Mouse Large Intergenic Noncoding RNAs from Whole Transcriptome Sequencing

Large intergenic noncoding RNAs (lincRNAs) have been recognized in recent years to constitute a significant portion of the mammalian transcriptome, yet their biological functions remain largely elusive. This is partly due to an incomplete annotation of tissue-specific lincRNAs in essential model organisms, particularly in mice, which has hindered the genetic annotation and...

A general strategy for synthesis of metal oxide nanoparticles attached on carbon nanomaterials

We report a general strategy for synthesis of a large variety of metal oxide nanoparticles on different carbon nanomaterials (CNMs), including single-walled carbon nanotubes, multi-walled carbon nanotubes, and a few-layer graphene. The approach was based on the π-π interaction between CNMs and modified aromatic organic ligands, which acted as bridges connecting metal ions and...

NONCODEv4: exploring the world of long non-coding RNA genes

NONCODE (http://www.bioinfo.org/noncode/) is an integrated knowledge database dedicated to non-coding RNAs (excluding tRNAs and rRNAs). Non-coding RNAs (ncRNAs) have been implied in diseases and identified to play important roles in various biological processes. Since NONCODE version 3.0 was released 2 years ago, discovery of novel ncRNAs has been promoted by high-throughput RNA...

Systematic study of human long intergenic non-coding RNAs and their impact on cancer

The functional impact of several long intergenic non-coding RNAs (lincRNAs) has been characterized in previous studies. However, it is difficult to identify lincRNAs on a large-scale and to ascertain their functions or predict their structures in laboratory experiments because of the diversity, lack of knowledge and specificity of expression of lincRNAs. Furthermore, although...