130 Works

Implementing tuberculosis patient cost surveys in resource-constrained settings: lessons from Tanzania

Andrew Martin Kilale, Charles Makasi, Melkisedeck Majaha, Chacha Dionis Manga, Sylvia Haule, Pudensiana Hilary, Omari Kimbute, Stephen Kitua, Bhavin Jani, Nyagosya Range, Bernard Ngowi, Emmanuel Nkiligi, Emmanuel Matechi, Wilbard Muhandiki, Vishnu Mahamba, Beatrice Mutayoba & Julia Ershova
Abstract Tuberculosis (TB) disproportionally affects persons and families who are economically and socially disadvantaged. Therefore, a patient cost survey was conducted in Tanzania to evaluate the costs incurred by patients and their households before and after the diagnosis of TB. It was the first survey in Tanzania to ascertain baseline information and experience for subsequent surveys. This paper aims to share the experience encountered during the survey to ensure a standardized approach and elimination of...

Prevalence and co-existence of morbidity of posttraumatic stress and functional impairment among Burundian refugee children and their parents

Florian Scharpf, Edna Kyaruzi, Markus A. Landolt & Tobias Hecker
Background: Although the family constitutes the prime source of risk and resilience for the well-being of children growing up in adverse conditions, the mental health of children living in refugee camps has rarely been investigated in conjunction with their parents’ mental health. Objectives: To examine the prevalence of posttraumatic stress disorder (PTSD) and other mental health problems among Burundian refugee children and their parents living in Tanzanian refugee camps and to identify patterns of comorbidity...

Methane emission and sulfide levels increase in tropical seagrass sediments during temperature stress: a mesocosm experiment

Mats Björk, Rushingisha George, Martin Gullström, Thomas J. Lyimo & Matern S.P. Mtolera
Climate change-induced ocean warming is expected to greatly affect carbon dynamics and sequestration in vegetated shallow waters, especially in the upper subtidal where water temperatures may fluctuate considerably and can reach high levels at low tides. This might alter the greenhouse gas balance and significantly reduce the carbon sink potential of tropical seagrass meadows. In order to assess such consequences, we simulated temperature stress during low tide exposures by subjecting seagrass plants (Thalassia hemprichii) and...

Life history shifts in an exploited African fish following invasion by a castrating parasite

Nestory Peter Gabagambi, Arne Skorping, Mwita Chacha, Kwendwa Jonathan Kihedu & Adele Mennerat
Evolutionary theory predicts that infection by a parasite that reduces future host survival or fecundity should select for increased investment in current reproduction. In this study we use the cestode Ligula intestinalis and its intermediate fish host Engraulicypris sardella in Wissman Bay, Lake Nyasa (Tanzania) as a model system. Using data about infection of E. sardella fish hosts by L. intestinalis collected for a period of 10 years, we explored whether parasite infection affects the...

Zinc finger C3H1 domain-containing protein (ZFC3H1) evaluates the prognosis and treatment of prostate adenocarcinoma (PRAD): A study based on TCGA data

Hang Huang, Haokai Xu, Ping Li, Xueting Ye, Wei Chen & Xixi Huang
The present study was aimed to evaluate the expression profile of Zinc finger C3H1 domain-containing protein (ZFC3H1) using bioinformatic analysis of public datasets from The Cancer Genome Atlas database (TCGA). The results showed that the expression levels of ZFC3H1 were notably lower than the corresponding non-cancerous tissues in prostate adenocarcinoma (PRAD), and patients in the high ZFC3H1-expression group showed poor survival. We hypothesized that the low expression of ZFC3H1 in tumor tissue might have be...

Editing of the rice importin gene IMPα1b results in sequestration of TAL effectors from plant cell nuclei

Jinfeng Peng, Jingyuan Nie, Xiaochen Chen, Liyuan Zhang, Xiaohui Yao, Ping Li, Huicong Shi, Congfeng Song & Hansong Dong
Abstract Transcription activator-like effectors (TALEs) produced by plant pathogenic bacteria mainly belonging to the genus Xanthomonas cause plant diseases through activation of host susceptibility genes in plant cell nuclei. How TALEs enter plant cell nuclei was not clear until recent studies about PthXo1 and TALI, two TALEs produced by Xanthomonas oryzae pv. oryzae (Xoo) and X. oryzae pv. oryzicola (Xoc), the rice (Oryza sativa) pathogens that cause bacterial blight and bacterial leaf streak, respectively. Here,...

Additional file 1 of Editing of the rice importin gene IMPα1b results in sequestration of TAL effectors from plant cell nuclei

Jinfeng Peng, Jingyuan Nie, Xiaochen Chen, Liyuan Zhang, Xiaohui Yao, Ping Li, Huicong Shi, Congfeng Song & Hansong Dong
Additional file 1. Table S1. Rice importins retrieved from Rice Genome Annotation Project databases. Table S2. Early characterizations of OsIMPα1a-edited (OsIMPα1a-ED) and OsIMPα1b-edited (OsIMPα1b-ED) rice lines. Table S3. Information on genes tested and primers used in this study.

Decoding the colorectal cancer ecosystem emphasizes the cooperative role of cancer cells, TAMs and CAFsin tumor progression

Rongfang Shen, Ping Li, Botao Zhang, Lin Feng & Shujun Cheng
Abstract Background Single-cell transcription data provided unprecedented molecular information, enabling us to directly encode the ecosystem of colorectal cancer (CRC). Characterization of the diversity of epithelial cells and how they cooperate with tumor microenvironment cells (TME) to endow CRC with aggressive characteristics at single-cell resolution is critical for the understanding of tumor progression mechanism. Methods In this study, we comprehensively analyzed the single-cell transcription data, bulk-RNA sequencing data and pathological tissue data. In detail, cellular...

Additional file 1 of Endoplasmic reticulum-quality control pathway and endoplasmic reticulum-associated degradation mechanism regulate the N-glycoproteins and N-glycan structures in the diatom Phaeodactylum tricornutum

Jichen Chen, Hong Du, Zidong Liu, Tangcheng Li, Hua Du, Wanna Wang, Muhammad Aslam, Weizhou Chen, Ping Li, Haodong Luo, Hao Fang & Xiaojuan Liu
Additional file 1: Figure S1. Up-regulated intact N-glycopeptide ALNSSNTER. Figure S2. Up-regulated intact N-glycopeptide DGVATNVCPR.

Additional file 1 of Endoplasmic reticulum-quality control pathway and endoplasmic reticulum-associated degradation mechanism regulate the N-glycoproteins and N-glycan structures in the diatom Phaeodactylum tricornutum

Jichen Chen, Hong Du, Zidong Liu, Tangcheng Li, Hua Du, Wanna Wang, Muhammad Aslam, Weizhou Chen, Ping Li, Haodong Luo, Hao Fang & Xiaojuan Liu
Additional file 1: Figure S1. Up-regulated intact N-glycopeptide ALNSSNTER. Figure S2. Up-regulated intact N-glycopeptide DGVATNVCPR.

Additional file 2 of Endoplasmic reticulum-quality control pathway and endoplasmic reticulum-associated degradation mechanism regulate the N-glycoproteins and N-glycan structures in the diatom Phaeodactylum tricornutum

Jichen Chen, Hong Du, Zidong Liu, Tangcheng Li, Hua Du, Wanna Wang, Muhammad Aslam, Weizhou Chen, Ping Li, Haodong Luo, Hao Fang & Xiaojuan Liu
Additional file 2: Table S1. Differentially expressed genes related with ERQC and ERAD.

Additional file 11 of Decoding the colorectal cancer ecosystem emphasizes the cooperative role of cancer cells, TAMs and CAFsin tumor progression

Rongfang Shen, Ping Li, Botao Zhang, Lin Feng & Shujun Cheng
Additional file 11: Figure S4. Dynamic interactions between the EC and MC. A. Relative proportions of epithelial cell clusters and TME cell clusters in the KUL3 cohort. Samples were clustered according to the distribution pattern of epithelial cells with the corresponding TME cell cluster distribution shown in the right panel. B–E. Bar plot showing the number of incoming events and outgoing events for epithelial cells communicating with TME cells in normal tissues of the SMC...

Additional file 14 of Decoding the colorectal cancer ecosystem emphasizes the cooperative role of cancer cells, TAMs and CAFsin tumor progression

Rongfang Shen, Ping Li, Botao Zhang, Lin Feng & Shujun Cheng
Additional file 14: Figure S7. Characterization of stromal cells in the KUL3 cohort. A. UMAP plot of stromal cells colored by cell cluster and sample origin. B. Heat map of marker genes identified through Seurat. For each cell cluster, cells were down-sampled to 100. C. Differentiation trajectory inferred by Monocle2. Dots represent stromal cells colored by identified cell cluster. D. Heat map plot of the top ranked regulons. E. Dot plot of the correlation between...

Additional file 13 of Decoding the colorectal cancer ecosystem emphasizes the cooperative role of cancer cells, TAMs and CAFsin tumor progression

Rongfang Shen, Ping Li, Botao Zhang, Lin Feng & Shujun Cheng
Additional file 13: Figure S6. Characterization of stromal cells in the SMC cohort. A. UMAP plot of stromal cells colored by cell cluster and sample origin. B. Heat map of marker genes identified through Seurat. For each cell cluster, cells were down-sampled to 100. C. Differentiation trajectories inferred by Monocle2. Dots represent stromal cells and are colored by identified cell cluster. D. Heat map of the top 5 ranked regulons in S5 and S6. E....

Additional file 2 of Decoding the colorectal cancer ecosystem emphasizes the cooperative role of cancer cells, TAMs and CAFsin tumor progression

Rongfang Shen, Ping Li, Botao Zhang, Lin Feng & Shujun Cheng
Additional file 2: Table S2. Cellular annotation and clinical characteristic of SMC and KUL3 cohort. Relate to Figure 1 and Figure S1.

Additional file 3 of Decoding the colorectal cancer ecosystem emphasizes the cooperative role of cancer cells, TAMs and CAFsin tumor progression

Rongfang Shen, Ping Li, Botao Zhang, Lin Feng & Shujun Cheng
Additional file 3: Table S3. Representative marker genes used for cell type annotation.

Additional file 4 of Decoding the colorectal cancer ecosystem emphasizes the cooperative role of cancer cells, TAMs and CAFsin tumor progression

Rongfang Shen, Ping Li, Botao Zhang, Lin Feng & Shujun Cheng
Additional file 4: Table S4. Signature matrix for CIBERSORTx and infered cellular fractions of TCGA-COADREAD. Related to Figure 2.

Additional file 5 of Decoding the colorectal cancer ecosystem emphasizes the cooperative role of cancer cells, TAMs and CAFsin tumor progression

Rongfang Shen, Ping Li, Botao Zhang, Lin Feng & Shujun Cheng
Additional file 5: Table S5. Biological functional difference between colorectal cancer cells and adjacent normal epithelia in SMC and KUL3 cohort. Related to Figure 3A and S3A.

Additional file 1 of Implementing tuberculosis patient cost surveys in resource-constrained settings: lessons from Tanzania

Andrew Martin Kilale, Charles Makasi, Melkisedeck Majaha, Chacha Dionis Manga, Sylvia Haule, Pudensiana Hilary, Omari Kimbute, Stephen Kitua, Bhavin Jani, Nyagosya Range, Bernard Ngowi, Emmanuel Nkiligi, Emmanuel Matechi, Wilbard Muhandiki, Vishnu Mahamba, Beatrice Mutayoba & Julia Ershova
Additional file 1. Patient cost report.

Supplemental Material - Predictive value of adenoid-nasopharyngeal ratio in the diagnosis of secretory otitis media

Ping Li, Tao Li, Liang Yu, Aiping Chen, Yisha Wu, Yuzhu Wan & Li Shi
Supplemental Material for Predictive value of adenoid-nasopharyngeal ratio in the diagnosis of secretory otitis media by Ping Li, Tao Li, Liang Yu, Aiping Chen, Yisha Wu, Yuzhu Wan and Li Shi in Ear, Nose & Throat Journal

Additional file 11 of Copy number variant analysis for syndromic congenital heart disease in the Chinese population

Ping Li, Weicheng Chen, Mengru Li, Zhengshan Zhao, Zhiyu Feng, Han Gao, Meijiao Suo, Ziqing Xu, Guixiang Tian, Feizhen Wu, Sheng Wei & Guoying Huang
Additional file 11. Fig. S3. The prioritized genes overlapping between the four tools.

Additional file 1 of Copy number variant analysis for syndromic congenital heart disease in the Chinese population

Ping Li, Weicheng Chen, Mengru Li, Zhengshan Zhao, Zhiyu Feng, Han Gao, Meijiao Suo, Ziqing Xu, Guixiang Tian, Feizhen Wu, Sheng Wei & Guoying Huang
Additional file 1. Table S1. Summary of tools for candidate gene prioritization, including VarElect, OVA, AMELIE, and ToppGene.

Chemometrics integrated with in silico pharmacology to reveal antioxidative and anti-inflammatory markers of dandelion for its quality control

Feng-Jie Liu, Jiao Yang, Xu-Yan Chen, Ting Yu, Hui Ni, Liang Feng, Ping Li & Hui-Jun Li
Abstract Background Dandelion is an herb with high nutritional and medicinal values, which has been listed in Chinese Pharmacopeia, European Pharmacopoeia and British Pharmacopoeia, gaining increasing acceptance around the world. However, the current quality control of dandelion is lagging behind. Only in Chinese Pharmacopeia, cichoric acid is used as a marker compound for its quality evaluation, whereas, it can not comprehensively reflect the bioactivity of dandelion. Methods This study developed a strategy by integrating chemometrics...

Additional file 4 of Copy number variant analysis for syndromic congenital heart disease in the Chinese population

Ping Li, Weicheng Chen, Mengru Li, Zhengshan Zhao, Zhiyu Feng, Han Gao, Meijiao Suo, Ziqing Xu, Guixiang Tian, Feizhen Wu, Sheng Wei & Guoying Huang
Additional file 4. Table S3. The remaining 85 patients with syndromic CHD.

Additional file 7 of Copy number variant analysis for syndromic congenital heart disease in the Chinese population

Ping Li, Weicheng Chen, Mengru Li, Zhengshan Zhao, Zhiyu Feng, Han Gao, Meijiao Suo, Ziqing Xu, Guixiang Tian, Feizhen Wu, Sheng Wei & Guoying Huang
Additional file 7. Table S5. Prioritized genes of four tools.

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Affiliations

  • University of Dar es Salaam
    130
  • The First Affiliated Hospital of Jinzhou Medical University
    104
  • Capital Medical University
    104
  • Xi'an Jiaotong University
    104
  • Guangdong Provincial Hospital of Traditional Chinese Medicine
    104
  • Zhongda Hospital Southeast University
    104
  • Nanjing University
    104
  • China Pharmaceutical University
    104
  • Beijing Institute of Technology
    104
  • Shanghai Jiao Tong University
    104