733 Works

Additional file 8 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 8. Figure S5: Prognostic values of ctDNA detection based on clonal and subclonal mutations. A). The recurrence-free survival analysis of patients stratified by ctDNA detection based on only clonal mutation profiles. B). The recurrence-free survival analysis of patients stratified by ctDNA detection based on all clonal and subclonal mutations.

Additional file 2 of Construction and yield optimization of a cinnamylamine biosynthesis route in Escherichia coli

Qi Wang, Linlin Ma, Zhiguo Wang, Quan Chen, Qian Wang & Qingsheng Qi
Additional file 2: Table S2. Plasmids used in this study.

Additional file 3 of Construction and yield optimization of a cinnamylamine biosynthesis route in Escherichia coli

Qi Wang, Linlin Ma, Zhiguo Wang, Quan Chen, Qian Wang & Qingsheng Qi
Additional file 3: Table S3. Oligonucleotides used in this study.

A pharmacovigilance analysis of FDA adverse event reporting system events for romosozumab

Zepeng Chen, Ming Li, Shuzhen Li, Yuxi Li, Junyan Wu, Kaifeng Qiu, Xiaoxia Yu, Lin Huang & Guanghui Chen
Romosozumab is a novel drug for the treatment of osteoporosis. The adverse reactions of romosozumab still need to be explored. The FDA Adverse Event Reporting System (FAERS) provides an enormous dataset for adverse events (AEs) analysis. AEs registered in FAERS between January 2019 and December 2020 were collected for this study. The reporting odds ratio (ROR) method was applied to analyze the AEs of romosozumab. The number of AEs ≥4 cases and ROR value 95%...

Additional file 1 of Inhibition of Schwann cell pannexin 1 attenuates neuropathic pain through the suppression of inflammatory responses

Qian Wang, Han-yang Li, Zhuo-min Ling, Gang Chen & Zhong-Ya Wei
Additional file 1: Figure S1. Panx 2 and Panx 3 mRNA expression after CCI. A-B. A qPCR assay was used to detect Panx 2 (A) and Panx 3 (B) mRNA levels at 4 and 14 days post-CCI. The data are mean ± SEM. n = 3 mice/group. **p < 0.01, ***p < 0.001, vs. sham injury. The data were analyzed by one-way ANOVA followed by Dunnett’s test.

Additional file 2 of Inhibition of Schwann cell pannexin 1 attenuates neuropathic pain through the suppression of inflammatory responses

Qian Wang, Han-yang Li, Zhuo-min Ling, Gang Chen & Zhong-Ya Wei
Additional file 2: Figure S2. The distribution of Panx 1 in the DRG and within sciatic nerves. A. Double-immunofluorescence images of Panx 1 (green) and the sciatic nerve axonal marker, NF200 (red). (B). Images of Panx 1 immunostaining (red) and, Nissl staining (green) in the DRG; Scale bar = 50 μm. Enlarged images in lower panel are from the inset boxes of upper panel. Upper panel, scale bar = 100 μm. Lower panel, scale bar...

ADSCs-derived exosomes ameliorate hepatic fibrosis by suppressing stellate cell activation and remodeling hepatocellular glutamine synthetase-mediated glutamine and ammonia homeostasis

Baitong Wu, Jiuxing Feng, Jingyi Guo, Jian Wang, Guanghui Xiu, Jiaqi Xu, Ke Ning, Bin Ling, Qingchun Fu & Jun Xu
Abstract Background Hepatic fibrosis is a common pathologic stage in chronic liver disease development, which might ultimately lead to liver cirrhosis. Accumulating evidence suggests that adipose-derived stromal cells (ADSCs)-based therapies show excellent therapeutic potential in liver injury disease owing to its superior properties, including tissue repair ability and immunomodulation effect. However, cell-based therapy still limits to several problems, such as engraftment efficiency and immunoreaction, which impede the ADSCs-based therapeutics development. So, ADSCs-derived extracellular vesicles (EVs),...

Additional file 1 of Performance of a fully-automated Lumipulse plasma phospho-tau181 assay for Alzheimer’s disease

Edward N. Wilson, Christina B. Young, Javier Ramos Benitez, Michelle S. Swarovski, Igor Feinstein, Manu Vandijck, Yann Le Guen, Nandita M. Kasireddy, Marian Shahid, Nicole K. Corso, Qian Wang, Gabriel Kennedy, Alexandra N. Trelle, Betty Lind, Divya Channappa, Malia Belnap, Veronica Ramirez, Irina Skylar-Scott, Kyan Younes, Maya V. Yutsis, Nathalie Le Bastard, Joseph F. Quinn, Christopher H. van Dyck, Angus Nairn, Carolyn A. Fredericks … & Katrin I. Andreasson
Additional file 1: Table S1. Characteristics of Participants Stratified by Diagnosis and APOE Genotype.

Additional file 4 of Performance of a fully-automated Lumipulse plasma phospho-tau181 assay for Alzheimer’s disease

Edward N. Wilson, Christina B. Young, Javier Ramos Benitez, Michelle S. Swarovski, Igor Feinstein, Manu Vandijck, Yann Le Guen, Nandita M. Kasireddy, Marian Shahid, Nicole K. Corso, Qian Wang, Gabriel Kennedy, Alexandra N. Trelle, Betty Lind, Divya Channappa, Malia Belnap, Veronica Ramirez, Irina Skylar-Scott, Kyan Younes, Maya V. Yutsis, Nathalie Le Bastard, Joseph F. Quinn, Christopher H. van Dyck, Angus Nairn, Carolyn A. Fredericks … & Katrin I. Andreasson
Additional file 4: Table S4. Betas (standard errors) and p values for models examining plasma p-tau181 and cross-sectional cognition and function.

Four new compounds from the fruits of Chinese dwarf cherry (Prunus humilis Bunge)

Sheng Dong, Ying Zhou, Ji-Chao Wang, Yi-Lin Zhuo, Yi-Han Sun, Jun-Gang Wang & Guo-Gang Zhang
A new flavonoid (bunge A) (1), a new sesquiterpene (bunge B) (8), a new furan derivative (bunge C) (12) and a new alkenoic acid (bunge D) (14), together with ten known ones [four flavonoids (2, 3, 4, 5), two phenylpropanoids (6, 7), three sesquiterpenes (9, 10, 11) and one lactone (13)] were isolated from the fruits of Prunus humilis Bunge [Cerasus humilis (Bunge) Sokolov]. Their structures were elucidated based on extensive spectroscopic analysis (including HR-ESI-MS...

Global proteomic analysis of extracellular matrix in mouse and human brain highlights relevance to cerebrovascular disease

Alexandra Pokhilko, Gaia Brezzo, Lahiru Handunnetthi, Raphael Heilig, Rachel Lennon, Colin Smith, Stuart M Allan, Alessandra Granata, Sanjay Sinha, Tao Wang, Hugh S Markus, Alexandra Naba, Roman Fischer, Tom Van Agtmael, Karen Horsburgh & M Zameel Cader
The extracellular matrix (ECM) is a key interface between the cerebrovasculature and adjacent brain tissues. Deregulation of the ECM contributes to a broad range of neurological disorders. However, despite this importance, our understanding of the ECM composition remains very limited mainly due to difficulties in its isolation. To address this, we developed an approach to extract the cerebrovascular ECM from mouse and human post-mortem normal brain tissues. We then used mass spectrometry with off-line high-pH...

Additional file 2 of Genome-wide association study uncovers major genetic loci associated with flowering time in response to active accumulated temperature in wild soybean population

Guang Yang, Wei Li, Chao Fan, Miao Liu, Jianxin Liu, Wenwei Liang, Ling Wang, Shufeng Di, Chao Fang, Haiyang Li, Guohua Ding, Yingdong Bi & Yongcai Lai
Additional file 2: Fig. S1. Distribution of SNP number in different chromosomes and count of MAF. A, SNP numbers. B, SNP frequency in different minor allele frequency. Fig. S2. Distributions of SNP linkage disequilibrium decay and heterozygosity. A, Linkage disequilibrium decay (r2) across different linkage disequilibrium windows in 294 wild soybean accessions. B, Histogram of heterozygosity for SNPs. Fig. S3. Boxplot representing the distribution of flowering time in five active accumulated temperature zones in Heilongjiang...

Additional file 4 of Methylome and transcriptome data integration reveals potential roles of DNA methylation and candidate biomarkers of cow Streptococcus uberis subclinical mastitis

Mengqi Wang, Nathalie Bissonnette, Mario Laterrière, Pier-Luc Dudemaine, David Gagné, Jean-Philippe Roy, Xin Zhao, Marc-André Sirard & Eveline M. Ibeagha-Awemu
Additional file 4: Fig. S4. DNA methylation landscape. (A) The number of DMCs grouped by the differences in methylation levels per chromosome. (B-D) Manhattan plots showing the global distribution of DMCs in the context of CpG (B), CHG (C) and CHH (D). (E) DNA methylation landscape of chromosome 2.

Additional file 8 of Methylome and transcriptome data integration reveals potential roles of DNA methylation and candidate biomarkers of cow Streptococcus uberis subclinical mastitis

Mengqi Wang, Nathalie Bissonnette, Mario Laterrière, Pier-Luc Dudemaine, David Gagné, Jean-Philippe Roy, Xin Zhao, Marc-André Sirard & Eveline M. Ibeagha-Awemu
Additional file 8: Table S3. The list of differentially methylated cytosines (DMCs) in the context of CpG, CHG and CHH.

Additional file 8 of Methylome and transcriptome data integration reveals potential roles of DNA methylation and candidate biomarkers of cow Streptococcus uberis subclinical mastitis

Mengqi Wang, Nathalie Bissonnette, Mario Laterrière, Pier-Luc Dudemaine, David Gagné, Jean-Philippe Roy, Xin Zhao, Marc-André Sirard & Eveline M. Ibeagha-Awemu
Additional file 8: Table S3. The list of differentially methylated cytosines (DMCs) in the context of CpG, CHG and CHH.

Additional file 1 of Methylome and transcriptome data integration reveals potential roles of DNA methylation and candidate biomarkers of cow Streptococcus uberis subclinical mastitis

Mengqi Wang, Nathalie Bissonnette, Mario Laterrière, Pier-Luc Dudemaine, David Gagné, Jean-Philippe Roy, Xin Zhao, Marc-André Sirard & Eveline M. Ibeagha-Awemu
Additional file 1: Fig. S1. DNA methylation level trends. (A) Bean plots showing the methylation level distribution of methylation sites in the context of CpG, CHG and CHH at genome wide scale. (B) The methylation level trends around gene features per sample. a = promoter (2 kb upstream of transcription start site); b = first exon; c = first intron; d = inner exons; e = inner introns; f = last exon; g = downstream...

Additional file 2 of Methylome and transcriptome data integration reveals potential roles of DNA methylation and candidate biomarkers of cow Streptococcus uberis subclinical mastitis

Mengqi Wang, Nathalie Bissonnette, Mario Laterrière, Pier-Luc Dudemaine, David Gagné, Jean-Philippe Roy, Xin Zhao, Marc-André Sirard & Eveline M. Ibeagha-Awemu
Additional file 2: Fig. S2. Methylation status of differentially methylated sites. (A-B) Volcano plots showing DMCs in the context of CHG (A) and CHH (B). (C) Bar plots showing distribution of differences in methylation levels of DMCs.

Additional file 16 of Methylome and transcriptome data integration reveals potential roles of DNA methylation and candidate biomarkers of cow Streptococcus uberis subclinical mastitis

Mengqi Wang, Nathalie Bissonnette, Mario Laterrière, Pier-Luc Dudemaine, David Gagné, Jean-Philippe Roy, Xin Zhao, Marc-André Sirard & Eveline M. Ibeagha-Awemu
Additional file 16: Table S11. The results of functional enrichment differentially methylated and expressed genes (MetGDE genes).

Additional file 17 of Methylome and transcriptome data integration reveals potential roles of DNA methylation and candidate biomarkers of cow Streptococcus uberis subclinical mastitis

Mengqi Wang, Nathalie Bissonnette, Mario Laterrière, Pier-Luc Dudemaine, David Gagné, Jean-Philippe Roy, Xin Zhao, Marc-André Sirard & Eveline M. Ibeagha-Awemu
Additional file 17: Table S12. The cluster of functional annotations enriched by differential methylated and expressed genes (MetGDE genes).

Additional file 1 of Neuronal nuclear calcium signaling suppression of microglial reactivity is mediated by osteoprotegerin after traumatic brain injury

Albrecht Fröhlich, Florian Olde Heuvel, Rida Rehman, Sruthi Sankari Krishnamurthy, Shun Li, Zhenghui Li, David Bayer, Alison Conquest, Anna M. Hagenston, Albert Ludolph, Markus Huber-Lang, Tobias Boeckers, Bernd Knöll, Maria Cristina Morganti-Kossmann, Hilmar Bading & Francesco Roselli
Additional file 1: Figure S1. Glial CREB phosphorylation post injury is limited to IBA1+ cells. A)-B) AAVs are able to infect 89.98 ± 14.47% of cortical neurons. Data are shown as mean ± SD (Red dots represent individual animals). N=8. Scale bar: 50µm. C)-D) Non-neuronal pCREB signal is mainly found in IBA1+ cells (IBA1+ cells: 97.76 ± 0.83% vs. GFAP+ cells: 1.24 ± 0.83%). Data are shown as mean ± SD. N=4. Scale Bar: 50µm.E-F)...

Additional file 3 of Neuronal nuclear calcium signaling suppression of microglial reactivity is mediated by osteoprotegerin after traumatic brain injury

Albrecht Fröhlich, Florian Olde Heuvel, Rida Rehman, Sruthi Sankari Krishnamurthy, Shun Li, Zhenghui Li, David Bayer, Alison Conquest, Anna M. Hagenston, Albert Ludolph, Markus Huber-Lang, Tobias Boeckers, Bernd Knöll, Maria Cristina Morganti-Kossmann, Hilmar Bading & Francesco Roselli
Additional file 3: Figure S3. Blunting neuronal nuclear calcium signaling did not alter amplitude and velocity of whisker movement post-TBI. A)-C) The amplitudes of the affected (CS = 0.88 ± 0.22; CT = 1.1 ± 0.19; PS = 0.93 ± 0.42; PT = 1.269 ± 0.56) or unaffected (CS = 1.07 ± 0.39; CT = 1.05 ± 0.35; PS = 1.14 ± 0.45; PT = 1.22 ± 0.45) whisker were not significantly changed 24h after...

Additional file 4 of Neuronal nuclear calcium signaling suppression of microglial reactivity is mediated by osteoprotegerin after traumatic brain injury

Albrecht Fröhlich, Florian Olde Heuvel, Rida Rehman, Sruthi Sankari Krishnamurthy, Shun Li, Zhenghui Li, David Bayer, Alison Conquest, Anna M. Hagenston, Albert Ludolph, Markus Huber-Lang, Tobias Boeckers, Bernd Knöll, Maria Cristina Morganti-Kossmann, Hilmar Bading & Francesco Roselli
Additional file 4: Figure S4. Neuronal expression of osteoprotegerin is upregulated by nuclear calcium signaling and neuronal activity in TBI. A) Negative Control, baseline OPG (TNFRSF11B) signal and a positive Control of the in situ hybridization 24h post injury. B) OPG (TNFRSF11B) in situ signal is mainly found in neuronal sources (neuronal vs non-neuronal 75.38 ± 1.83% vs 24.62% ± 1.83%). N=5. C)-D) Significant increase of OPG (TNFRSF11b) mRNA density 24h post-TBI compared to sham...

Additional file 8 of Neuronal nuclear calcium signaling suppression of microglial reactivity is mediated by osteoprotegerin after traumatic brain injury

Albrecht Fröhlich, Florian Olde Heuvel, Rida Rehman, Sruthi Sankari Krishnamurthy, Shun Li, Zhenghui Li, David Bayer, Alison Conquest, Anna M. Hagenston, Albert Ludolph, Markus Huber-Lang, Tobias Boeckers, Bernd Knöll, Maria Cristina Morganti-Kossmann, Hilmar Bading & Francesco Roselli
Additional file 8: Table S3. Antibodies and Probes. Full information on antibodies and probes is provided.

Binary Response Models for Heterogeneous Panel Data with Interactive Fixed Effects

Jiti Gao, Fei Liu & Bin peng
In this paper, we investigate binary response models for heterogeneous panel data with interactive fixed effects by allowing both the cross sectional dimension and the temporal dimension to diverge. From a practical point of view, the proposed framework can be applied to predict the probability of corporate failure, conduct credit rating analysis, etc. Theoretically and methodologically, we establish a link between a maximum likelihood estimation and a least squares approach, provide a simple information criterion...

Additional file 1 of Analysis of sputum microbial metagenome in COPD based on exacerbation frequency and lung function: a case control study

Wei Li, Bingbing Wang, Min Tan, Xiaolian Song, Shuanshuan Xie & Changhui Wang
Additional file 1. Supplemental Figures.

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