529 Works

The industrial solvent 1,4-Dioxane causes hyperalgesia by targeting capsaicin receptor TRPV1

Xiaoyi Mo, Qiang Liu, Luna Gao, Chang Xie, Xin Wei, Peiyuan Pang, Quan Tian, Yue Gao, Youjing Zhang, Yuanyuan Wang, Tianchen Xiong, Bo Zhong, Dongdong Li & Jing Yao
Background: The synthetic chemical 1,4-dioxane is used as industrial solvent, food and care product additive. 1,4-Dioxane has been noted to influence the nervous system in long-term animal experiments and in humans, but the molecular mechanisms underlying its effects on animals were not previously known. Results: Here, we report that 1,4-dioxane potentiates the capsaicin-sensitive transient receptor potential (TRP) channel TRPV1, thereby causing hyperalgesia in mouse model. This effect was abolished by CRISPR/Cas9-mediated genetic deletion of TRPV1...

Protein disulfide isomerases (PDIs) negatively regulate ebolavirus structural glycoprotein expression in the endoplasmic reticulum (ER) via the autophagy-lysosomal pathway

Bin Wang, Jing Zhang, Xin Liu, Qingqing Chai, Xiaoran Lu, Xiaoyu Yao, Zhichang Yang, Liangliang Sun, Silas F. Johnson, Richard C Schwartz & Yong-Hui Zheng
Zaire ebolavirus (EBOV) causes a severe hemorrhagic fever in humans and non-human primates with high morbidity and mortality. EBOV infection is dependent on its structural glycoprotein (GP), but high levels of GP expression also trigger cell rounding, detachment, and downregulation of many surface molecules that is thought to contribute to its high pathogenicity. Thus, EBOV has evolved an RNA editing mechanism to reduce its GP expression and increase its fitness. We now report that the...

Data from: A migratory divide spanning two continents is associated with genomic and ecological divergence

Sheela Turbek, Drew Schield, Elizabeth Scordato, Andrea Contina, Xin-Wei Da, Yang Liu, Yu Liu, Emilio Pagani-Núñez, Qing-Miao Ren, Chris Smith, Craig Stricker, Michael Wunder, David Zonana & Rebecca Safran
Migratory divides are contact zones between breeding populations with divergent migratory strategies during the non-breeding season. These locations provide an opportunity to evaluate the role of seasonal migration in the maintenance of reproductive isolation, particularly the relationship between population structure and features associated with distinct migratory strategies. We combine light-level geolocators, genomic sequencing, and stable isotopes to investigate the timing of migration and migratory routes of individuals breeding on either side of a migratory divide...

Identification of an arthropod molecular target for plant-derived natural repellents

Jing Yao, Quan Tian, Peiyu Wang, Chang Xie, Peiyuan Pang, Youjing Zhang, Yue Gao, Zhijian Cao, Yingliang Wu, Wenxin Li, Michael Zhu & Dongdong Li
Arthropods maintain ecosystem balance, while also contribute to disease spreading. Plant-derived natural repellents represent an ecological way of pest control, but their direct molecular targets in arthropods remain to be further elucidated. Occupying a critical phylogenetic niche in arthropod evolution, scorpions retain an ancestral genetic profile. Here, using a behavior-guided screening of the Mesobuthus martensii genome, we identified a scorpion transient receptor potential (sTRP1) channel that senses Cymbopogon-derived natural repellents, while insensitive to the synthetic...

Additional file 1 of Circulating tumor DNA integrating tissue clonality detects minimal residual disease in resectable non-small-cell lung cancer

Siwei Wang, Ming Li, Jingyuan Zhang, Peng Xing, Min Wu, Fancheng Meng, Feng Jiang, Jie Wang, Hua Bao, Jianfeng Huang, Binhui Ren, Mingfeng Yu, Ninglei Qiu, Houhuai Li, Fangliang Yuan, Zhi Zhang, Hui Jia, Xinxin Lu, Shuai Zhang, Xiaojun Wang, Youtao Xu, Wenjia Xia, Tongyan Liu, Weizhang Xu, Xinyu Xu … & Rong Yin
Additional file 1. Table S1: Patient demography.

Additional file 10 of Transcriptomic analysis of paternal behaviors in prairie voles

Florian Duclot, Yan Liu, Samantha K. Saland, Zuoxin Wang & Mohamed Kabbaj
Additional file 10. Differential expression analysis details. For conciseness, the labels of pairwise comparisons were coded in two letters: the first one represents the phenotype (M: mothers, F: fathers, P: paternal males, A: attackers), whereas the second one represents the structure (M: MPOA, N: NAc, L: LS). For instance, PLvAL refers to the comparison between the Paternal and Attackers phenotypes in the LS. DE: differentially expressed.

Additional file 10 of Transcriptomic analysis of paternal behaviors in prairie voles

Florian Duclot, Yan Liu, Samantha K. Saland, Zuoxin Wang & Mohamed Kabbaj
Additional file 10. Differential expression analysis details. For conciseness, the labels of pairwise comparisons were coded in two letters: the first one represents the phenotype (M: mothers, F: fathers, P: paternal males, A: attackers), whereas the second one represents the structure (M: MPOA, N: NAc, L: LS). For instance, PLvAL refers to the comparison between the Paternal and Attackers phenotypes in the LS. DE: differentially expressed.

Additional file 14 of Transcriptomic analysis of paternal behaviors in prairie voles

Florian Duclot, Yan Liu, Samantha K. Saland, Zuoxin Wang & Mohamed Kabbaj
Additional file 14. Functional enrichment of genes differentially expressed in the medial preoptic area (MPOA), the nucleus accumbens (NAc), or the lateral septum (LS). For each pairwise comparison, the functional enrichments in gene ontologies of the biological processes (BP), cellular components (CC), and molecular functions (MF) categories as well as in pathways from the Kyoto Encyclopedia of Genes and Genomes (KEGG) were tested for the differentially expressed genes up- or down-regulated (UP, and DOWN, respectively)....

Additional file 7 of Transcriptomic analysis of paternal behaviors in prairie voles

Florian Duclot, Yan Liu, Samantha K. Saland, Zuoxin Wang & Mohamed Kabbaj
Additional file 7. Detailed results from the linear regressions between all behaviors scored during the parental behaviors test, testing for an interaction of Group (Mothers/Fathers/Paternal).

Additional file 9 of Transcriptomic analysis of paternal behaviors in prairie voles

Florian Duclot, Yan Liu, Samantha K. Saland, Zuoxin Wang & Mohamed Kabbaj
Additional file 9. Functional enrichment across structures and phenotypes. For each pairwise comparison, the functional enrichments in gene ontologies of the biological processes (BP), cellular components (CC), and molecular functions (MF) categories as well as in pathways from the Kyoto Encyclopedia of Genes and Genomes (KEGG) were tested for the differentially expressed genes up- or down-regulated (UP, and DOWN, respectively). The labels of pairwise comparisons were coded in two letters: the first one represents the...

Additional file 21 of Transcriptomic analysis of paternal behaviors in prairie voles

Florian Duclot, Yan Liu, Samantha K. Saland, Zuoxin Wang & Mohamed Kabbaj
Additional file 21. Number of immediate early genes (IEG) in the genes differentially expressed in the medial preoptic area (MPOA), nucleus accumbens (NAc), and lateral septum (LS).

Additional file 4 of Bile acid distributions, sex-specificity, and prognosis in colorectal cancer

Yuping Cai, Xinyi Shen, Lingeng Lu, Hong Yan, Huang Huang, Patricia Gaule, Engjel Muca, Casey M. Theriot, Zahra Rattray, Nicholas J. W. Rattray, Jun Lu, Nita Ahuja, Yawei Zhang, Philip B. Paty, Sajid A. Khan & Caroline H. Johnson
Additional file 4. Clinical information and bile acid values (dichotomized by medians) of individual patients.

From Black Box to Shining Spotlight: Using Random Forest Prediction Intervals to Illuminate the Impact of Assumptions in Linear Regression

Andrew J. Sage, Yang Liu & Joe Sato
We introduce a pair of Shiny web applications that allow users to visualize random forest prediction intervals alongside those produced by linear regression models. The apps are designed to help undergraduate students deepen their understanding of the role that assumptions play in statistical modeling by comparing and contrasting intervals produced by regression models with those produced by more flexible algorithmic techniques. We describe the mechanics of each approach, illustrate the features of the apps, provide...

From Black Box to Shining Spotlight

Andrew J. Sage, Yang Liu & Joe Sato
We introduce a pair of Shiny web applications that allow users to visualize random forest prediction intervals alongside those produced by linear regression models. The apps are designed to help undergraduate students deepen their understanding of the role that assumptions play in statistical modeling by comparing and contrasting intervals produced by regression models with those produced by more flexible algorithmic techniques. We describe the mechanics of each approach, illustrate the features of the apps, provide...

Additional file 2 of Transcriptome analysis of MYB transcription factors family and PgMYB genes involved in salt stress resistance in Panax ginseng

Mingming Liu, Ke Li, Shichao Sheng, Mingyu Wang, Panpan Hua, Yanfang Wang, Ping Chen, Kangyu Wang, Mingzhu Zhao, Yi Wang & Meiping Zhang
Additional file 2: Table S2. The PgMYB protein sequences for phylogenetic analysis.

Additional file 3 of Functional analysis revealed the involvement of ZmABCB15 in resistance to rice black-streaked dwarf virus infection

Runqing Yue, Qi Sun, Jianguo Ding, Wenlan Li, Wencai Li, Meng Zhao, Shouping Lu, Tingru Zeng, Hua Zhang, Suxian Zhao, Shuanggui Tie & Zhaodong Meng
Additional file 3: Table S2. The CDSs of ZmABCB family.

Gapless genome assembly of East Asian finless porpoise, Neophocaena asiaeorientalis sunameri

Denghua Yin, Chunhai Chen, Danqing Lin, Jialun Zhang, Congping Ying, Yan Liu, Wang Liu, Zhichen Cao, Chenxi Zhao, Chenhe Wang, Liping Liang, Pao Xu, Jianbo Jian & Kai Liu
There are the genome sequence, gene set, coding sequence and protein sequence of Neophocaena asiaeorientalis sunameri.

Additional file 3 of Combining QTL mapping and RNA-Seq Unravels candidate genes for Alfalfa (Medicago sativa L.) leaf development

Xueqian Jiang, Xijiang Yang, Fan Zhang, Tianhui Yang, Changfu Yang, Fei He, Ting Gao, Chuan Wang, Qingchuan Yang, Zhen Wang & Junmei Kang
Additional file 3: Table S1 Analysis of variance for LL, LW and LA in an F1 population using mixed model for two years in two locations (CP and LF)

Additional file 4 of Combining QTL mapping and RNA-Seq Unravels candidate genes for Alfalfa (Medicago sativa L.) leaf development

Xueqian Jiang, Xijiang Yang, Fan Zhang, Tianhui Yang, Changfu Yang, Fei He, Ting Gao, Chuan Wang, Qingchuan Yang, Zhen Wang & Junmei Kang
Additional file 4: Table S2. List of 2,443 leaf-specific genes.

The Cauchy Combination Test under Arbitrary Dependence Structures

Mingya Long, Zhengbang Li, Wei Zhang & Qizhai Li
Combining individual p-values to perform an overall test is often encountered in statistical applications. The Cauchy combination test (CCT) (Journal of the American Statistical Association, 2020, 115, 393–402) is a powerful and computationally efficient approach to integrate individual p-values under arbitrary dependence structures for sparse signals. We revisit this test to additionally show that (i) the tail probability of the CCT can be approximated just as well when more relaxed assumptions are imposed on individual...

Additional file 4 of Oxidative stress genes in patients with esophageal squamous cell carcinoma: construction of a novel prognostic signature and characterization of tumor microenvironment infiltration

Wei Liu, Hao-Shuai Yang, Shao-Yi Zheng, Hong-He Luo, Yan-Fen Feng & Yi-Yan Lei
Additional file 4: Table S3. The results of univariate Cox proportional hazards regression analyses between clinical features and risk score in the training, testing, and entire sets.

Additional file 5 of Oxidative stress genes in patients with esophageal squamous cell carcinoma: construction of a novel prognostic signature and characterization of tumor microenvironment infiltration

Wei Liu, Hao-Shuai Yang, Shao-Yi Zheng, Hong-He Luo, Yan-Fen Feng & Yi-Yan Lei
Additional file 5: Table S4. The results of univariate Cox proportional hazards regression analyses between clinical features and risk score in the training, testing, and entire sets.

Additional file 8 of Identification of SSBP1 as a ferroptosis-related biomarker of glioblastoma based on a novel mitochondria-related gene risk model and in vitro experiments

Jun Su, Yue Li, Qing Liu, Gang Peng, Chaoying Qin & Yang Li
Additional file 8: Table S3. The 201 DE-MRGs between neoplatstic and non-neoplastic cells.

Numerical investigation of asymmetric weld fusion geometry in laser welding of aluminium alloy with beam oscillation

Xi Chen, Nan Jiang, Meng Jiang, Yang Du, Shengchong Ma, Yuan Chen, Caiwang Tan, Zhenglong Lei, Sicong Zhao & Yanbin Chen
In this work, the asymmetric weld fusion geometry in oscillating laser beam welding (OLBW) of aluminium alloy was reported and investigated using a numerical approach. A multi-physics heat transfer and fluid flow model of OLBW was developed and validated with the corresponding experimental results. The weld fusion geometry, temperature fields, and fluid flow behaviours for four commonly used oscillation modes, line, circle, eight, and infinity, were calculated to analyse the origin of the asymmetric weld...

Additional file 4 of Genomic insight into the nocturnal adaptation of the black-crowned night heron (Nycticorax nycticorax)

Haoran Luo, Site Luo, Wenzhen Fang, Qingxian Lin, Xiaolin Chen & Xiaoping Zhou
Additional file 4: Supplement Table S3. xlsx

Registration Year

  • 2022
    529

Resource Types

  • Dataset
    529

Affiliations

  • Wuhan University
    529
  • Shanghai Jiao Tong University
    375
  • Chinese Academy of Medical Sciences & Peking Union Medical College
    357
  • Zhejiang University
    335
  • Capital Medical University
    327
  • Huazhong University of Science and Technology
    254
  • Fudan University
    247
  • Sun Yat-sen University
    243
  • University of Chinese Academy of Sciences
    243
  • Nanjing Medical University
    234