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Adequate Animal Protein Intake Maintains Normal Thyroid Antibody Levels in Pregnant Women With Mild Iodine Deficiency

Zhengyuan Wang, Jiaying Shen, Qi Song, Xueying Cui, Zehuan Shi, Changyi Guo, Jin Su, Jiajie Zang,

<h4>Background: </h4> Both of the iodine and animal protein may affect thyroid function. We explored the association between animal protein intake and thyroid antibody status in pregnant women after universal salt iodization. Method: Pregnant women were enrolled by using a multistage, stratified random sampling method. 4,646 eligible participants were interviewed ... Read more >>

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MATHLA: a robust framework for HLA-peptide binding prediction integrating bidirectional LSTM and multiple head attention mechanism.

Yilin Ye, Jian Wang, Yunwan Xu, Yi Wang, Youdong Pan, Qi Song, Xing Liu, Ji Wan,

<h4>Background</h4>Accurate prediction of binding between class I human leukocyte antigen (HLA) and neoepitope is critical for target identification within personalized T-cell based immunotherapy. Many recent prediction tools developed upon the deep learning algorithms and mass spectrometry data have indeed showed improvement on the average predicting power for class I HLA-peptide ... Read more >>

BMC Bioinformatics (BMC bioinformatics)
[2021, 22(1):7]

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An integrative analysis identifying transcriptional features and key genes involved in COVID-19.

Guoping Li, Junyi Wang, Xiang He, Lei Zhang, Qin Ran, Anying Xiong, Dehong Wu, Lingjuan Hu, Qi Song, Dong Zhu,

<b>Aim:</b> To elucidate the transcriptional characteristics of COVID-19. <b>Materials & methods:</b> We utilized an integrative approach to comprehensively analyze the transcriptional features of both COVID-19 patients and SARS-CoV-2 infected cells. <b>Results:</b> Widespread infiltration of immune cells was observed. We identified 233 genes that were codifferentially expressed in both bronchoalveolar lavage ... Read more >>

Epigenomics (Epigenomics)
[2020, 12(22):1969-1981]

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Identification of cell-type marker genes from plant single-cell RNA-seq data using machine learning

Haidong Yan, Qi Song, Jiyoung Lee, John Schiefelbein, Song Li,

An essential step of single-cell RNA sequencing analysis is to classify specific cell types with marker genes in order to dissect the biological functions of each individual cell. In this study, we integrated five published scRNA-seq datasets from the Arabidopsis root containing over 25,000 cells and 17 cell clusters. We ... Read more >>

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Identification and analysis of micro-exons in AP2/ERF and MADS gene families.

Qi Song, Amna Bari, Huan Li, Ling-Ling Chen,

Micro-exons are a set of ultrashort exons with lengths ≤ 51 nucleotides. Our previous study revealed that micro-exons were enriched in AP2 domains and K-box domains, which are crucial components of AP2/ERF (APETALA2/ethylene-responsive element-binding protein) and MADS-box (an acronym of MCM1, AGAMOUS, DEFICIENS and SRF) genes, respectively. In this study, we analyzed ... Read more >>

FEBS Open Bio (FEBS open bio)
[2020, 10(12):2564-2577]

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Records of Three Mammal Tick Species Parasitizing an a typical Host, the Multi-ocellated Racerunner, in Arid Regions of Xinjiang, China

Qi Zhou, Jiao Li, Xianguang Guo, Jinlong Liu, Qi Song, Xiong Gong, Han Chen, Jianhui Zhang, Jinlei He, Zhiwan Zheng, Dali Chen, Jian-Ping Chen,

<h4>Background: </h4> To better simulate and predict zoonotic disease outbreaks, data on arthropods acting as pathogen carriers and information on host-arthropod associations should be collected. Ticks are obligate haematophagous ectoparasites of vertebrate animals, including humans, with a wide global distribution. To date, the species discrimination and phylogenetic relationships among the ... Read more >>

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A China Healthy Diet Index-based evaluation of dietary quality among pregnant women in coastal areas across trimesters and residential areas

Zhengyuan Wang, Jiaying Shen, Yiwen Wu, Xueying Cui, Qi Song, Zehuan Shi, Wei Jin, Changyi Guo, Chunfeng Wu, Jiajie Zang,

<h4>Background: </h4> Good dietary quality among pregnant women is critical for maternal and fetal health. Comprehensive assessments of large representative samples are lacking. <h4>Methods: </h4> Pregnant women were enrolled using a multistage, stratified, random-sampling method in Shanghai. We used a personal food frequency questionnaire and a household condiment weighing method ... Read more >>

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IRE1α-JNK pathway-mediated autophagy promotes cell survival in response to endoplasmic reticulum stress during the initial phase of hepatic steatosis.

Pengbo Wu, Tian Tian, Jinbo Zhao, Qi Song, Xiaoman Wu, Yitian Guo, Yuanjie Yu, Shiyun Tan, Hongmiao Xia,

<h4>Aims</h4>It has been widely reported that autophagy and inositol-requiring enzyme-1α (IRE1α)-c-Jun N-terminal kinase (JNK) pathway was involved in cell survival under endoplasmic reticulum (ER) stress, but their specific roles in hepatic steatosis remain unclear. This study aimed to determine the interaction between autophagy and IRE1α-JNK pathway on cell survival in ... Read more >>

Life Sci (Life sciences)
[2021, 264:118668]

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Enhanced Faraday rotation in proximitized monolayer transition metal dichalcogenides.

Hongwei Dai, Qi Song, Haixia Da,

Monolayer transition metal dichalcogenides (TMDCs) under the application of a magnetic exchange field carry the nontrivial optical Hall conductivity and thus exhibit the nonzero Faraday rotation (FR) angle. However, the tradeoff between the FR angle and transmission hinders their possible applications in magnetic-optical (MO) devices. Here, we theoretically show that ... Read more >>

Nanotechnology (Nanotechnology)
[2020, 31(46):465202]

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End-to-end multimodal image registration via reinforcement learning.

Jing Hu, Ziwei Luo, Xin Wang, Shanhui Sun, Youbing Yin, Kunlin Cao, Qi Song, Siwei Lyu, Xi Wu,

Multimodal image registration is a vital initial step in several medical image applications for providing complementary information from different data modalities. Since images with different modalities do not exhibit the same characteristics, finding their accurate correspondences remains a challenge. For convolutional multimodal registration methods, two components are quite significant: descriptive ... Read more >>

Med Image Anal (Medical image analysis)
[2021, 68:101878]

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Mouse double minute 2 amplification in oesophageal squamous cell carcinoma is associated with better outcome.

Dongxian Jiang, Lingli Chen, Jie Huang, Hao Wang, Qi Song, Peng Shi, Haixing Wang, Yingyong Hou,

<h4>Aims</h4>This study aimed to determine the frequency of mouse double minute 2 (MDM2) amplification in oesophageal squamous cell carcinomas (ESCC) and to clarify its prognostic significance.<h4>Methods and results</h4>We investigated MDM2 amplification on tissue microarrays using fluorescence in-situ hybridisation and analysed its correlations with clinicopathological features and outcomes in 515 Chinese ... Read more >>

Histopathology (Histopathology)
[2020, 77(6):963-973]

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Neural encoding of socially adjusted value during competitive and hazardous foraging

Brian Silston, Toby Wise, Song Qi, Xin Sui, Peter Dayan, Dean Mobbs,

In group foraging organisms, optimizing the conflicting demands of competitive food loss and safety is critical. We demonstrate that humans select competition avoidant and risk diluting strategies during foraging depending on socially adjusted value. We formulate a mathematically grounded quantification of socially adjusted value in foraging environments and show using ... Read more >>

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Direct femtosecond laser ablation of large-area TaSe2, SnS2, and TiS2 thick films by a back ablation procedure.

Qi Song, Lu Chai, Yao Li, Dongqing Pang, Minglie Hu,

Direct ablation of large-area graphene-like two-dimensional (2D) materials, i.e., tantalum diselenide (<i>T</i><i>a</i><i>S</i><i>e</i><sub>2</sub>), stannic disulfide (<i>S</i><i>n</i><i>S</i><sub>2</sub>), and titanium disulfide (<i>T</i><i>i</i><i>S</i><sub>2</sub>), by the back ablation method with a femtosecond laser with a repetition rate of 50 MHz and pulse width of 200 fs is studied for the first time to our knowledge. ... Read more >>

Appl Opt (Applied optics)
[2020, 59(25):7606-7612]

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Identification of plasma hsa_circ_0008673 expression as a potential biomarker and tumor regulator of breast cancer.

Youting Hu, Qi Song, Jianguo Zhao, Jian Ruan, Fan He, Xia Yang, Xiaocheng Yu,

OBJECTIVE:Cell-free circular RNAs (circRNAs) are stable and abundantly exist in body fluids. In this study, we aimed to investigate plasma cell-free circRNAs as a novel class of biomarkers for the diagnosis of breast cancer (BC). METHODS:Differentially expressed circRNAs from 6 normal and 6 BC plasma samples were detected by microarray. ... Read more >>

J Clin Lab Anal (Journal of clinical laboratory analysis)
[2020, 34(9):e23393]

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An immune-related lncRNA signature as a prognostic immunotherapy target for colon cancer

Bin Wu, Yi Yao, Yi Dong, Si Qi Yang, Deng Jing Zhou, Meng Xia Xiao, Qi Bin Song,

The authors have withdrawn this preprint due to author disagreement. ... Read more >>

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TP5, a Peptide Inhibitor of Aberrant and Hyperactive CDK5/p25: A Novel Therapeutic Approach against Glioblastoma.

Emeline Tabouret, Herui Wang, Niranjana Amin, Jinkyu Jung, Romain Appay, Jing Cui, Qi Song, Antonio Cardone, Deric M Park, Mark R Gilbert, Harish Pant, Zhengping Zhuang,

We examined the efficacy of selective inhibition of cyclin-dependent kinase 5 (CDK5) in glioblastoma by TP5. We analyzed its impact in vitro on CDK5 expression and activity, cell survival, apoptosis and cell cycle. DNA damage was analyzed using the expression of γH2A.X and phosphorylated ATM. Its tolerance and efficacy were ... Read more >>

Cancers (Basel) (Cancers)
[2020, 12(7):]

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Association of Iodine-Related Knowledge, Attitudes, and Behaviours with Urinary Iodine Excretion in Pregnant Women with Mild Iodine Deficiency

Zhengyuan Wang, Yiwen Wu, Zehuan Shi, Jun Song, Guoquan Wang, Qi Song, Wei Jin, Xueying Cui, Chunfeng Wu, Jiajie Zang, Changyi Guo,

<h4>Background: </h4> China’s universal salt-iodization program has all but eliminated iodine deficiency disorders. Concern has shifted to mild iodine deficiency. Our study examined factors with the potential to predict mild iodine deficiency in pregnant women. <h4>Methods: </h4> A total of 2 400 pregnant women were enrolled using a multistage, stratified, ... Read more >>

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Three species (Hyalomma asiaticum, Rhipicephalus turanicus and H.sulcata)of ticks identified from lizards in arid desert regions of Xinjiang

Qi Zhou, Jiao Li, Xianguang Guo, Jinlong Liu, Qi Song, Xiong Gong, Han Chen, Jianhui Zhang, Jinlei He, Zhiwan Zheng, Dali Chen, Jian-Ping Chen,

<h4>Background: </h4> Ticks are obligate hematophagous ectoparasites of vertebrate animals including human with wide distribution over the world, which are vectors of some human diseases. To date, the species discrimination and phylogenetic relationships among ticks on lizards in China are still unclear. The morphological method is not sufficient for identification ... Read more >>

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Pretreatment Neutrophil-to-Lymphocyte Ratio (NLR) May Predict the Outcomes of Advanced Non-small-cell Lung Cancer (NSCLC) Patients Treated With Immune Checkpoint Inhibitors (ICIs).

Ye Li, Zhibo Zhang, Yi Hu, Xiang Yan, Qi Song, Guoqiang Wang, Runzhe Chen, Shunchang Jiao, Jinliang Wang,

<b>Background:</b> Recent studies have demonstrated the predictive value of pretreatment neutrophil-to-lymphocyte ratio (NLR) in advanced cancers; however, the role of NLR in patients with advanced non-small-cell lung cancer (NSCLC) treated with immune checkpoint inhibitors (ICIs) remained to be explored. Thus, we aimed to investigate whether pretreatment NLR was associated with ... Read more >>

Front Oncol (Frontiers in oncology)
[2020, 10:654]

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Relationship of household cooking salt and eating out on iodine status of pregnant women in environmental iodine-deficient coastal areas of China.

Zhengyuan Wang, Wei Jin, Zhenni Zhu, Xueying Cui, Qi Song, Zehuan Shi, Chunfeng Wu, Jiajie Zang, Changyi Guo,

As city residents eat out more frequently, it is unknown that if iodised salt is still required in home cooking. We analysed the relationship of household salt and eating out on urinary iodine concentration (UIC) in pregnant women. A household condiment weighing method was implemented to collect salt data for ... Read more >>

Br J Nutr (The British journal of nutrition)
[2020, 124(9):971-978]

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The Role of the Medial Prefrontal Cortex in Spatial Margin of Safety Calculations

Song Qi, Logan Cross, Toby Wise, Xin Sui, John O’Doherty, Dean Mobbs,

Humans, like many other animals, pre-empt danger by moving to locations that maximize their success at escaping future threats. We test the idea that spatial margin of safety (MOS) decisions, a form of pre-emptive avoidance, results in participants placing themselves closer to safer locations when facing more unpredictable threats. Using ... Read more >>

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Prediction of condition-specific regulatory genes using machine learning.

Qi Song, Jiyoung Lee, Shamima Akter, Matthew Rogers, Ruth Grene, Song Li,

Recent advances in genomic technologies have generated data on large-scale protein-DNA interactions and open chromatin regions for many eukaryotic species. How to identify condition-specific functions of transcription factors using these data has become a major challenge in genomic research. To solve this problem, we have developed a method called ConSReg, ... Read more >>

Nucleic Acids Res (Nucleic acids research)
[2020, 48(11):e62]

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Short-Term Rental Forecast of Urban Public Bicycle Based on the HOSVD-LSTM Model in Smart City.

Dazhou Li, Chuan Lin, Wei Gao, Zihui Meng, Qi Song,

As a kind of transportation in a smart city, urban public bicycles have been adopted by major cities and bear the heavy responsibility of the "last mile" of urban public transportation. At present, the main problem of the urban public bicycle system is that it is difficult for users to ... Read more >>

Sensors (Basel) (Sensors (Basel, Switzerland))
[2020, 20(11):]

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Genomic and Epigenomic Features of Primary and Recurrent Hepatocellular Carcinomas.

Xiaofan Ding, Mian He, Anthony W H Chan, Qi Xiu Song, Siu Ching Sze, Hui Chen, Matthew K H Man, Kwan Man, Stephen L Chan, Paul B S Lai, Xin Wang, Nathalie Wong,

BACKGROUND & AIMS:Intratumor heterogeneity and divergent clonal lineages within and among primary and recurrent hepatocellular carcinomas (HCCs) produce challenges to patient management. We investigated genetic and epigenetic variations within liver tumors, among hepatic lesions, and between primary and relapsing tumors. METHODS:Tumor and matched non-tumor liver specimens were collected from 113 ... Read more >>

Gastroenterology (Gastroenterology)
[2020, :]

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Appropriate Range of Median Urinary Iodine Concentration in 8- to 10-Year-Old Children Based on Generalized Additive Model.

Zhengyuan Wang, Baozhang Luo, Jiajie Zang, Zehuan Shi, Xueying Cui, Qi Song, Wei Jin, Changyi Guo, Shoujun Liu,

<b><i>Background:</i></b> The appropriate range of median urinary iodine concentration (MUI) in children has always been controversial. To prevent the occurrence of a goiter epidemic in Shanghai, we explored the appropriate range of MUI by integrating multiple monitoring results. <b><i>Methods:</i></b> This study summarized and analyzed the monitoring data from 1997, 1999, ... Read more >>

Thyroid (Thyroid : official journal of the American Thyroid Association)
[2020, 30(10):1535-1540]

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