Additional file 1 of Identification of HMGB2 associated with proliferation, invasion and prognosis in lung adenocarcinoma via weighted gene co-expression network analysisXie Qiu, Wei Liu, Yifan Zheng, Kai Zeng, Hao Wang, Haijun Sun & Jianhua Dai
Additional file 1: Table S1. Clinical informations and IHC score of patients with LUAD.
Protective effect of brain-derived neurotrophic factor and neurotrophin-3 overexpression by adipose-derived stem cells combined with silk fibroin/chitosan scaffold in spinal cord injuryWen-Chen Ji, Meng Li, Wan-Ting Jiang, Xing Ma & Jia Li
Objectives: Spinal cord injury (SCI) is a most debilitating traumatic injury, and cytotherapy is a promising alternative treatment strategy. Here we investigated the effect and mechanism of adipose-derived stem/stromal cells (ASCs) with overexpressing brain-derived neurotrophic factor (BDNF) and neurotrophin-3 (NT3) (BDNF-NT3) in combination with silk fibroin/chitosan scaffold (SFCS) in SCI. Methods: Female Sprague-Dawley rats were used as an SCI model. SFCS,SFCS and ASCs, or ASCs overexpressing NT3, BDNF, and BDNF-NT3 were implanted into SCI rats....
Gestational diabetes mellitus (GDM) is a maternal metabolic disorder that perturbs placental development and increases the risk of offspring short- and long-term metabolic disorders. The mechanisms by which GDM impairs placental development remain poorly understood. Here, we defined the DNA methylome of GDM placentas and determined whether GDM perturbs methylation at genes important for placental development. We conducted an epigenome-wide association study of 42 placentas from pregnancies in the South African Soweto First 1000 days...
Knockdown of GSG2 inhibits the development and progression of non-small cell lung cancer in vitro and in vivoFan Zhang, Bin Qiu, Ying Ji, Hao Zhang, Peng Song, Nan Sun, Liang Zhao, Fang Lv, Lixia Yin, Yibo Gao, Qi Xue, Shugeng Gao & Jie He
Lung cancer has been recognized as the most common malignant neoplasm of the respiratory system with extremely high morbidity, among which non-small cell lung cancer (NSCLC) accounts for the majority. Many published literatures have revealed the roles of GSG2 in the progression of ovarian cancer, bladder cancer and breast cancer. However, there were no reports on the relationship between GSG2 and NSCLC. Herein, GSG2 was identified as a potential tumor promoter in NSCLC development, whose...
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...
Modeling and inference for heterogeneous data have gained great interest recently due to rapid developments in personalized marketing. Most existing regression approaches are based on the conditional mean and may require additional cluster information to accommodate data heterogeneity. In this article, we propose a novel nonparametric resolution-wise regression procedure to provide an estimated distribution of the response instead of one single value. We achieve this by decomposing the information of the response and the predictors...
Additional file 3 of mTORC1-c-Myc pathway rewires methionine metabolism for HCC progression through suppressing SIRT4 mediated ADP ribosylation of MAT2ALiang Zhao, Huizhao Su, Xiaomeng Liu, Hongquan Wang, Yukuan Feng, Yan Wang, Haiqiang Chen, Luo Dai, Shihui Lai, Siqi Xu, Chong Li, Jihui Hao & Bo Tang
Additional file 3: Table S2. The changes of metabolite levels upon methionine restriction in livers of HCC mouce models.
Additional file 7 of Effective-component compatibility of Bufei Yishen formula III ameliorated COPD by improving airway epithelial cell senescence by promoting mitophagy via the NRF2/PINK1 pathwayMin-yan Li, Yan-qin Qin, Yan-ge Tian, Kang-chen Li, Brian G. Oliver, Xue-fang Liu, Peng Zhao & Jian-sheng Li
Additional file 7.
Generation of self-replicating airway organoids from the cave nectar bat Eonycteris spelaea as a model system for studying host–pathogen interactions in the bat airway epitheliumLouisa L.Y. Chan, Akshamal M. Gamage, Chee Wah Tan, Kai Sen Tan, Jing Liu, Douglas Jie Wen Tay, Randy Jee Hiang Foo, Laurent Rénia, De Yun Wang & Lin-Fa Wang
Bats are reservoir hosts for various zoonotic viruses with pandemdic potential in humans and livestock. In vitro systems for studying bat host–pathogen interactions are of significant interest. Here, we establish protocols to generate bat airway organoids (AOs) and airway epithelial cells differentiated at the air–liquid interface (ALI-AECs) from tracheal tissues of the cave-nectar bat Eonycteris spelaea. In particular, we describe steps which enable laboratories that do not have access to live bats to perform extended...
Additional file 1 of Exploring the pharmacological mechanism of Shengjing capsule on male infertility by a network pharmacology approachMing Wang, Qi Wang, Hui Jiang, Yongqiang Du & Xiansheng Zhang
Additional file 1:
Additional file 2 of A comprehensive assessment of fungal communities in various habitats from an ice-free area of maritime Antarctica: diversity, distribution, and ecological traitTao Zhang, Dong Yan, Zhongqiang Ji, Xiufei Chen & Liyan Yu
Additional file 2. Table S2. Representative sequence of fungal ASV detected in the 213 samples.
sj-xlsx-1-pdp-10.1177_10935266221132602 – Supplemental material for Calretinin Staining in Anorectal Line Biopsies Accurately Distinguished Hirschsprung Disease in a Retrospective StudySuzanna J. Logan, Hong Yin, Beverly Rogers, Nicoleta Arva, Miriam R. Conces, Sandy Cope-Yokoyama, Louis P. Dehner, Carlos Galliani, Shipra Garg, Mai He, Aliya N. Husain, Matthew Keisling, Chandra Krishnan, Elena Puscasiu, Christopher Rossi, Faiza Siddiqui, Lisa Sutton, Jefferson Terry, Ameet I. Thaker, Yuan Huang, Jie Zhang, Courtney McCracken & Heather Rytting
Supplemental material, sj-xlsx-1-pdp-10.1177_10935266221132602 for Calretinin Staining in Anorectal Line Biopsies Accurately Distinguished Hirschsprung Disease in a Retrospective Study by Suzanna J. Logan, Hong Yin, Beverly Rogers, Nicoleta Arva, Miriam R. Conces, Sandy Cope-Yokoyama, Louis P. Dehner, Carlos Galliani, Shipra Garg, Mai He, Aliya N. Husain, Matthew Keisling, Chandra Krishnan, Elena Puscasiu, Christopher Rossi, Faiza Siddiqui, Lisa Sutton, Jefferson Terry, Ameet I. Thaker, Yuan Huang, Jie Zhang, Courtney McCracken and Heather Rytting in Pediatric and Developmental...
Additional file 2 of Chronic constriction injury-induced changes in circular RNA expression profiling of the dorsal root ganglion in a rat model of neuropathic painWanxia Xiong, Min Wei, Li Zhang, Jie Wang, Fan Liu & Zhiyao Wang
Additional file 2: Table S2. List of total circRNAs detected in the DRG of NC and CCI rats. RNA-seq was performed to profile circRNA expression in four paired DRG samples. A total of 13,172 circRNAs were detected in the L4–L5 DRG samples from the CCI and NC groups (4 mice per group).
Additional file 3 of Chronic constriction injury-induced changes in circular RNA expression profiling of the dorsal root ganglion in a rat model of neuropathic painWanxia Xiong, Min Wei, Li Zhang, Jie Wang, Fan Liu & Zhiyao Wang
Additional file 3: Table S3. List of DEcircRNAs were identified between the CCI and NC groups. Following differential expression analysis, 374 DEcircRNAs were identified between the CCI and NC groups (4 mice per group) by using FC filtering (FC ≥ 2 or ≤ 0.5) and FDR (Q < 0.001).
Additional file 4 of Chronic constriction injury-induced changes in circular RNA expression profiling of the dorsal root ganglion in a rat model of neuropathic painWanxia Xiong, Min Wei, Li Zhang, Jie Wang, Fan Liu & Zhiyao Wang
Additional file 4: Table S4. List of circRNAs and miRNA predicted by using miRanda and TargetScan. Potential connections between circRNAs and microRNAs were predicted by using TargetScan and miRanda, and the interaction results were displayed by Cytoscape. All the circRNAs and miRNAs were listed.
Additional file 1 of The prognostic value of IPI in patients with primary breast lymphoma, a multicenter retrospective studyKexin Feng, Shuangtao Zhao, Qingyao Shang, Guangdong Qiao, Jiaxiang Liu, Chenxuan Yang, Ya Wei, Yalun Li, Fei Ren, Lixue Xuan, Xiang Wang & Xin Wang
Additional file 1: Table S1.Clinical data of each patients.
Gallbladder cancer (GBC) is the common malignancy of the bile tract system with extremely poor clinical outcomes, owing to its metastatic property and intrinsic resistance to the first-line drugs. Although it is well-established that cholesterol abnormity contributes to gallstone formation, a leading risk factor for GBC, the link of cholesterol homeostasis with GBC has not been investigated. The present study systematically examined the genes implicated in cholesterol homeostasis, and revealed altered gene expressions of de...
Additional file 1 of CSP I-plus modified rEndostatin inhibits hepatocellular carcinoma metastasis via down-regulation of VEGFA and integrinβ1Xueqin Chen, Yan Wang, Hancong Liu, Jingjing Zhang, Jie Wang, Xiaobao Jin & Yan Ma
Additional file 1: Supplementary Figures. The full-length blots of WB in Fig. 5B. Whole-cell extracts were resolved on 10% SDS-PAGE by bio-rad Mini-PROTEAN with 10 sample Wells (1Marker, 2space, 3Blank group, 4CSP I-plus group, 5Endostar group, 6rES-CSP group, 7rES-CSP+ heparin group, 8DDP group, 9space, 10Marker), and then electrotransferred onto a polyvinylidene difluoride (PVDF) membrane (Millipore). The membranes were then probed with respective primary antibodies against VEGFA, MMP2, integrinβ1, and E-cadherin procured from Abcam, β-actin from...
Additional file 4 of The H2A.Z-KDM1A complex promotes tumorigenesis by localizing in the nucleus to promote SFRP1 promoter methylation in cholangiocarcinoma cellsQi Wang, Yongqiang Qi, Fei Xiong, Da Wang, Bing Wang & Yongjun Chen
Additional file 4: Table S1. Detailed information of the microarray used in this study.
Additional file 2 of The landscape of hervRNAs transcribed from human endogenous retroviruses across human body sitesJianqi She, Minghao Du, Zhanzhan Xu, Yueqi Jin, Yu Li, Daoning Zhang, Changyu Tao, Jian Chen, Jiadong Wang & Ence Yang
Additional file 2: Table S1-S15. Supplementary tables.
Additional file 5 of Detection of cytomegalovirus (CMV) by digital PCR in stool samples for the non-invasive diagnosis of CMV gastroenteritisJia Gu, Hongyan Ji, Tongyuan Liu, Caixia Chen, Siye Zhao, Yang Cao, Na Wang, Min Xiao, Liting Chen & Haodong Cai
Additional file 5. The details of assay validation and data analysis about figures in this study.
Additional file 4 of Detection of cytomegalovirus (CMV) by digital PCR in stool samples for the non-invasive diagnosis of CMV gastroenteritisJia Gu, Hongyan Ji, Tongyuan Liu, Caixia Chen, Siye Zhao, Yang Cao, Na Wang, Min Xiao, Liting Chen & Haodong Cai
Additional file 4. The details of the dPCR platform and the reaction system.
Additional file 4. KEGG level3 pathways of functional prediction. 50 KEGG level3 pathways enriched in the P group were found to be significantly higher than in H group.
Additional file 2 of Integrative analyses of maternal plasma cell-free DNA nucleosome footprint differences reveal chromosomal aneuploidy fetuses gene expression profileMin Zhang, Kun Li, Shoufang Qu, Zhiwei Guo, Yuanli Wang, Xu Yang, Junhua Zhou, Guojun Ouyang, Rongtao Weng, Fenxia Li, Yingsong Wu & Xuexi Yang
Additional file 2: Table S2. Differential promoter coverage genes and GO, KEGG enrichment analysis results of differential genes for pregnant women with trisomy 21.
Additional file 10 of Evolution patterns of NBS genes in the genus Dendrobium and NBS-LRR gene expression in D. officinale by salicylic acid treatmentJiapeng Yang, Caijun Xiong, Siyuan Li, Cheng Zhou, Lingli Li, Qingyun Xue, Wei Liu, Zhitao Niu & Xiaoyu Ding
Additional file 10.
Capital Medical University1,361
Chinese Academy of Medical Sciences & Peking Union Medical College940
Shanghai Jiao Tong University776
Huazhong University of Science and Technology681
Chinese Academy of Sciences627
Sun Yat-sen University625
Nanjing Medical University605