3,459 Works

Additional file 2 of Comprehensive characterization of ubiquitinome of human colorectal cancer and identification of potential survival-related ubiquitination

Wei Zhang, Yan Yang, Liewen Lin, Jingquan He, Jingjing Dong, Bin Yan, Wanxia Cai, Yumei Chen, Lianghong Yin, Donge Tang, Fanna Liu & Yong Dai
Additional file 2. Table S1. Ubiquitination annotation. Table S2. Protein annotation. Table S3. 42 proteins having ten or more than ten ubiquitination modifications. Table S4. 20 ubiquitin-binding motifs. Table S5. 2242 proteins with an upregulated ubiquitination and 1204 proteins with a down-regulated ubiquitination. Table S6. 1172 up-regulated proteins and 1700 down-regulated proteins. Table S7. 646 Secretory proteins. Table S8. 53 proteins having an upregulated expression simultaneously with a down-regulated ubiquitination and 116 proteins having down-regulated...

Additional file 1 of Comprehensive characterization of ubiquitinome of human colorectal cancer and identification of potential survival-related ubiquitination

Wei Zhang, Yan Yang, Liewen Lin, Jingquan He, Jingjing Dong, Bin Yan, Wanxia Cai, Yumei Chen, Lianghong Yin, Donge Tang, Fanna Liu & Yong Dai
Additional file 1: Figure S1. The length of all identified ubiquitinated peptides. Figure S2. The numbers of all identified spectrums, peptides and proteins. Figure S3. The screening of potential functional ubiquitination in CRC patients.

Comprehensive characterization of ubiquitinome of human colorectal cancer and identification of potential survival-related ubiquitination

Wei Zhang, Yan Yang, Liewen Lin, Jingquan He, Jingjing Dong, Bin Yan, Wanxia Cai, Yumei Chen, Lianghong Yin, Donge Tang, Fanna Liu & Yong Dai
Abstract Background According to the Global Cancer Statistics in 2020, the incidence and mortality of colorectal cancer (CRC) rank third and second among all tumors. The disturbance of ubiquitination plays an important role in the initiation and development of CRC, but the ubiquitinome of CRC cells and the survival-relevant ubiquitination are poorly understood. Methods The ubiquitinome of CRC patients (n = 6) was characterized using our own data sets of proteomic and ubiquitin-proteomic examinations. Then,...

Supplementary document for Quantum and quasi-classical effects in the strong field ionization and subsequent excitation of nitrogen molecules - 5939627.pdf

Liang Xu, Qi Lu, Vladimir Tikhonchuk, Bin Zhou, Runzhe Yang, Qingqing Liang, He Feng, Rostyslav Danylo, Aurelien Houard & Andre Mysyrowicz
Supplemental Document

An effective immobilization of β-glucosidases by partly cross-linking enzyme aggregates

Yuefeng Deng, Jie Ouyang, Hu Liu, Jianjun Wang, Yihui Zhu, Ziqian Chen, Chengli Yang, Dali Li & Kefeng Ma
Enzyme immobilization provides ideal operating conditions for enzymes stabilization and sustainable recycling. In this work, as a kind of clay material, montmorillonite (MTL) was chosen for immobilizing the β-glucosidase extracted from Agrocybe aegirit. The immobilized β-glucosidase via partly cross-linking enzyme aggregates (pCLEAs) formed by self-catalysis provided biocatalysts with satisfactory thermal and pH stability. Compared to the glutaraldehyde cross-linked, the immobilized β-glucosidase (β-G-pCLEAs@MTL) exhibited significantly higher immobilization efficiency (IE) and immobilization yield (IY), which were 80.6%...

DFT study on Fe and N decorated graphene as the drug delivery system for β-lapachone anticancer drug

Wei Zhang
The β-lapachone anticancer drug performs efficiently in preventing the growth of cancer cells. Transporting the pharmaceutical compound to its target cell is a hot topic in target-direct treatment. Here, we propose a new kind of drug delivery, Fe and N decorated graphene (Fe-N-Graphene), based on density functional theory, showing high performance in the transportation of β-lapachone anticancer drugs. Results indicate Fe-N-Graphene exhibits high adsorption energies of 1.67–1.73 eV for β-lapachone molecules, which guarantees stability during...

Additional file 1 of Interactions of CDKAL1 rs7747752 polymorphism and serum levels of L-carnitine and choline are related to increased risk of gestational diabetes mellitus

Hui Wang, Jing Li, Jinnan Liu, Junhong Leng, Weiqin Li, Zhijie Yu, Claudia H. T. Tam, Gang Hu, Ronald C. W. Ma, Zhongze Fang, Ying Wang & Xilin Yang
Additional file 1: Figure S1. Associations between L-carnitine and the risk of gestational diabetes mellitus (GDM) in Chinese women.

Additional file 6 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 6. Figure S3: Prognostic values of postsurgical ctDNA detection at 3 months and 6 months. A-B) The recurrence-free survival analysis (top panel) and multi-variant Cox regression (bottom panel) of postsurgical ctDNA detection at 3 months (A) and 6 months (B). For the analysis at 6 months after surgeries, only patients with plasma samples available at this scheduled point and followed-up for more than 6 months were included. Abbreviations: RFS – recurrence-free survival, LNM...

Additional file 2 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 2. Table S2: Adjuvant treatment information.

Additional file 4 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 4. Figure S1: Availability of plasma samples. The availability of plasma samples for analysis at each schedule collection time point. Blue and red blocks denote samples collected before and after disease recurrence, respectively. Abbreviations: LUAD – lung adenocarcinoma, LUSC - lung squamous-cell carcinoma, RFS – recurrence-free survival, AT – adjuvant therapy, RT – radiotherapy, LNM – lymph node metastasis.

Additional file 12 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 12. Supplementary discussion.

Additional file 6 of Genomic Architecture of Yield Performance of an Elite Rice Hybrid Revealed by its Derived Recombinant Inbred Line and Their Backcross Hybrid Populations

Fan Zhang, Conghe Zhang, Xiuqin Zhao, Shuangbing Zhu, Kai Chen, Guixiang Zhou, Zhichao Wu, Min Li, Tianqing Zheng, Wensheng Wang, Zhi Yan, Qinyong Fei, Zhikang Li, Jinjie Chen & Jianlong Xu
Additional file 6: Table S3. Summary of 639 main-effect QTL affecting 12 traits identified in the combined population across three environments by inclusive composite interval mapping.

Additional file 6 of Genomic Architecture of Yield Performance of an Elite Rice Hybrid Revealed by its Derived Recombinant Inbred Line and Their Backcross Hybrid Populations

Fan Zhang, Conghe Zhang, Xiuqin Zhao, Shuangbing Zhu, Kai Chen, Guixiang Zhou, Zhichao Wu, Min Li, Tianqing Zheng, Wensheng Wang, Zhi Yan, Qinyong Fei, Zhikang Li, Jinjie Chen & Jianlong Xu
Additional file 6: Table S3. Summary of 639 main-effect QTL affecting 12 traits identified in the combined population across three environments by inclusive composite interval mapping.

Additional file 8 of Genomic Architecture of Yield Performance of an Elite Rice Hybrid Revealed by its Derived Recombinant Inbred Line and Their Backcross Hybrid Populations

Fan Zhang, Conghe Zhang, Xiuqin Zhao, Shuangbing Zhu, Kai Chen, Guixiang Zhou, Zhichao Wu, Min Li, Tianqing Zheng, Wensheng Wang, Zhi Yan, Qinyong Fei, Zhikang Li, Jinjie Chen & Jianlong Xu
Additional file 8: Table S5. Classification of 2,736 epistatic QTL pairs into 13 types according to their gene actions identified in the Q9311/WSSM combined population.

Additional file 9 of Genomic Architecture of Yield Performance of an Elite Rice Hybrid Revealed by its Derived Recombinant Inbred Line and Their Backcross Hybrid Populations

Fan Zhang, Conghe Zhang, Xiuqin Zhao, Shuangbing Zhu, Kai Chen, Guixiang Zhou, Zhichao Wu, Min Li, Tianqing Zheng, Wensheng Wang, Zhi Yan, Qinyong Fei, Zhikang Li, Jinjie Chen & Jianlong Xu
Additional file 9: Fig. S4. Whole-genome variation of two parental lines of QYSM. a, Density and chromosome distribution of polymorphic SNPs between Q9311B and WSSM. b, The principal component analysis. c, Phylogenetic positions of two parental lines (Q9311B and WSSM) in the neighbor-joining tree of 1,946 rice accessions from 3 K-RG, in which the known information on the clades of 3 K-RG is indicated.

Additional file 1 of Genomic Architecture of Yield Performance of an Elite Rice Hybrid Revealed by its Derived Recombinant Inbred Line and Their Backcross Hybrid Populations

Fan Zhang, Conghe Zhang, Xiuqin Zhao, Shuangbing Zhu, Kai Chen, Guixiang Zhou, Zhichao Wu, Min Li, Tianqing Zheng, Wensheng Wang, Zhi Yan, Qinyong Fei, Zhikang Li, Jinjie Chen & Jianlong Xu
Additional file 1: Table S1. Phenotypic performance and heterosis of traits in Q9311B/WSSM RILs and backcross F1s (Q9311A × RIL).

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
Abstract Background Circulating tumor DNA (ctDNA) has been proven as a marker for detecting minimal residual diseases following systemic therapies in mid-to-late-stage non-small-cell lung cancers (NSCLCs) by multiple studies. However, fewer studies cast light on ctDNA-based MRD monitoring in early-to-mid-stage NSCLCs that received surgical resection as the standard of care. Methods We prospectively recruited 128 patients with stage I–III NSCLCs who received curative surgical resections in our Lung Cancer Tempo-spatial Heterogeneity prospective cohort. Plasma samples...

Additional file 4 of Aberrant methylation of Serpine1 mediates lung injury in neonatal mice prenatally exposed to intrauterine inflammation

Dongting Yao, Jiuru Zhao, Qianqian Zhang, Tao Wang, Meng Ni, Sudong Qi, Qianwen Shen, Wei Li, Baihe Li, Xiya Ding & Zhiwei Liu
Additional file 4: Figure S4. Enrichment of differentially expressed genes in Serpine1-overexpressing MLE-12 cells. A, B GO and KEGG enrichment of the upregulated genes. C, D GO and KEGG enrichment of the downregulated genes. Q-value ≤ 0.05 and fold-change ≥ 2 were used as the thresholds for screening the differentially expressed genes.

Additional file 6 of Aberrant methylation of Serpine1 mediates lung injury in neonatal mice prenatally exposed to intrauterine inflammation

Dongting Yao, Jiuru Zhao, Qianqian Zhang, Tao Wang, Meng Ni, Sudong Qi, Qianwen Shen, Wei Li, Baihe Li, Xiya Ding & Zhiwei Liu
Additional file 6: Figure S6. HDAC2 inhibition promoted the expression of Serpine1. A SDS-PAGE identification of the proteins pulled-down by DNA fragment of Serpine1 promoter. The gel was stained with Coomassie blue. The indicated differential bands were excised with a scalpel and identified by LC-MS. B Total ion chromatogram of proteins. C–E Serpine1 expression analysed using RT-qPCR and western blot in trichostatin A (TSA)-treated MLE-12 cells. Data show mean ± SEM; Data was analysed using...

Additional file 6 of Aberrant methylation of Serpine1 mediates lung injury in neonatal mice prenatally exposed to intrauterine inflammation

Dongting Yao, Jiuru Zhao, Qianqian Zhang, Tao Wang, Meng Ni, Sudong Qi, Qianwen Shen, Wei Li, Baihe Li, Xiya Ding & Zhiwei Liu
Additional file 6: Figure S6. HDAC2 inhibition promoted the expression of Serpine1. A SDS-PAGE identification of the proteins pulled-down by DNA fragment of Serpine1 promoter. The gel was stained with Coomassie blue. The indicated differential bands were excised with a scalpel and identified by LC-MS. B Total ion chromatogram of proteins. C–E Serpine1 expression analysed using RT-qPCR and western blot in trichostatin A (TSA)-treated MLE-12 cells. Data show mean ± SEM; Data was analysed using...

Additional file 1 of YAP1 protects against septic liver injury via ferroptosis resistance

Jin Wang, Qian Zhu, Rui Li, Jing Zhang, Xujun Ye & Xinyi Li
Additional file 1. Supplementary figures.

Experimental study on the seismic behavior of RC columns improved with central large-diameter butted steel rods

Hanming Zhang, Jie Luo, Jianchun Xiao, Jing Chen, Zhuoqun Liu, Yi Zhang, Zongli Luo & Hong Zhang
Abstract A reinforced concrete (RC) column improved with central large-diameter butted steel rods (CLBSR column) has been proposed to increase the limit value of the axial compression ratio. This paper presents the seismic behavior analysis of CLBSR columns subjected to low-cycle reciprocating loading. The CLBSR columns were also compared with the RC column improved with central large-diameter steel rods (CLSR column) and the RC column improved with central reinforcement bars (CRB column) under the same...

Experimental study on the seismic behavior of RC columns improved with central large-diameter butted steel rods

Hanming Zhang, Jie Luo, Jianchun Xiao, Jing Chen, Zhuoqun Liu, Yi Zhang, Zongli Luo & Hong Zhang
Abstract A reinforced concrete (RC) column improved with central large-diameter butted steel rods (CLBSR column) has been proposed to increase the limit value of the axial compression ratio. This paper presents the seismic behavior analysis of CLBSR columns subjected to low-cycle reciprocating loading. The CLBSR columns were also compared with the RC column improved with central large-diameter steel rods (CLSR column) and the RC column improved with central reinforcement bars (CRB column) under the same...

Additional file 1 of A novel semiautomatic Chinese keywords instrument screening delirium based on electronic medical records

Ling Chen, Nan Li, Yuxia Zheng, Langli Gao, Ning Ge, Dongmei Xie & Jirong Yue
Additional file 1.

Effects of SLCO1B1 on elimination and toxicities of high-dose methotrexate in pediatric acute lymphoblastic leukemia - Supplementary Material

Fei-Fei Yang, Tian-Lin Xue, Chao Gao, Ying Wu, Wei Lin, Jun Li, Rui-Dong Zhang, Hu-Yong Zheng & Shu-Guang Liu
Supplementary Table S1. Treatment elements of consolidation therapy in CCLG-ALL-2018. Supplementary Table S2. Leucovorin rescue and MTX concentration

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