cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25442/hku.20522016
title: Supporting data for “High-resolution profiles of dynamic antibody responses to SARS-CoV-2 and autoantigens”

description: Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) elicit antibody response in most patients within three weeks of symptom onset. While SARS-CoV-2 infection result in protective antibodies, other potential pathogenic antibodies can also be generated, resulting in pathogenic inflammatory responses in both the acute phase and long COVID-19. In this project, we established a sequence-linked immunosorbent assay (SLISA) to comprehensively investigate the target specificity and temporal dynamics of antibody responses in COVID-19 patients against SARS-CoV-2 on the genomic scale. Furthermore, by examining antibody response to 1164 known autoantigens, we found that COVID-19 induced antibodies against cellular proteins related to neurological, immunological, and coagulation functions. Some autoantibodies can stimulate T cells in a CD3-dependent manner. Using SLISA, we demonstrated the continuous change in antibody responses against viral- and auto-antigens during the acute and convalescent phases of COVID-19. The platform can be broadly applicable to systematically investigating antibody responses in many physiological and pathological conditions. This is the supporting data set for "High-resolution profiles of dynamic antibody responses to SARS-CoV-2 and autoantigens". It contains relevent raw and processed data for this project, including gel electrophoresis images, PCR data, luminex and elisa data, SLISA analysis, etc.
DOI: 10.25442/hku.20522016.v1
title: Supporting data for “High-resolution profiles of dynamic antibody responses to SARS-CoV-2 and autoantigens”

description: Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) elicit antibody response in most patients within three weeks of symptom onset. While SARS-CoV-2 infection result in protective antibodies, other potential pathogenic antibodies can also be generated, resulting in pathogenic inflammatory responses in both the acute phase and long COVID-19. In this project, we established a sequence-linked immunosorbent assay (SLISA) to comprehensively investigate the target specificity and temporal dynamics of antibody responses in COVID-19 patients against SARS-CoV-2 on the genomic scale. Furthermore, by examining antibody response to 1164 known autoantigens, we found that COVID-19 induced antibodies against cellular proteins related to neurological, immunological, and coagulation functions. Some autoantibodies can stimulate T cells in a CD3-dependent manner. Using SLISA, we demonstrated the continuous change in antibody responses against viral- and auto-antigens during the acute and convalescent phases of COVID-19. The platform can be broadly applicable to systematically investigating antibody responses in many physiological and pathological conditions. This is the supporting data set for "High-resolution profiles of dynamic antibody responses to SARS-CoV-2 and autoantigens". It contains relevent raw and processed data for this project, including gel electrophoresis images, PCR data, luminex and elisa data, SLISA analysis, etc.
DOI: 10.5281/zenodo.6325549
title: RIGA+ Dataset for Unsupervised Domain Adaptation in Medical Image Segmentation

description: Different from the previous combined multi-domain dataset for unsupervised domain adaptation (UDA) in medical image segmentation, this multi-domain fundus image dataset contains annotations made by the same group of ophthalmologists. Hence the annotator bias among different datasets can be mitigated. Therefore, this dataset can provide a relatively fair benchmark for evaluating UDA methods in fundus image segmentation. This dataset is based on the RIGA[1] dataset and MESSIDOR[2] dataset. We appreciate their efforts devoted by the authors of [1] and [2]. The six duplicated cases in the RIGA dataset are filtered out according to the Errata. We also remove the duplicated cases that exist in both the RIGA dataset and the MESSIDOR dataset by hash value matching. Details of the RIGA+ dataset Domain Dataset Labeled Samples (Train+Test) Unlabeled Samples Source BinRushed 195 (195+0) 0 Source Magrabia 95 (95+0) 0 Target MESSIDOR-BASE1 173 (138+35) 227 Target MESSIDOR-BASE2 148 (118+30) 238 Target MESSIDOR-BASE3 133 (106+27) 252 [1] Almazroa A, Alodhayb S, Osman E, et al. Retinal fundus images for glaucoma analysis: the RIGA dataset[C]//Medical Imaging 2018: Imaging Informatics for Healthcare, Research, and Applications. International Society for Optics and Photonics, 2018, 10579: 105790B. [2] Decencière E, Zhang X, Cazuguel G, et al. Feedback on a publicly distributed image database: the Messidor database[J]. Image Analysis & Stereology, 2014, 33(3): 231-234. If you find this dataset useful for your research, please consider citing the paper as follows: <pre><code>@inproceedings{hu2022domain, title={Domain Specific Convolution and High Frequency Reconstruction based Unsupervised Domain Adaptation for Medical Image Segmentation}, author={Shishuai Hu and Zehui Liao and Yong Xia}, booktitle={International Conference on Medical Image Computing and Computer-Assisted Intervention}, year={2022}, organization={Springer} }</code></pre>
DOI: 10.5281/zenodo.6325548
title: RIGA+ Dataset for Unsupervised Domain Adaptation in Medical Image Segmentation

description: Different from the previous combined multi-domain dataset for unsupervised domain adaptation (UDA) in medical image segmentation, this multi-domain fundus image dataset contains annotations made by the same group of ophthalmologists. Hence the annotator bias among different datasets can be mitigated. Therefore, this dataset can provide a relatively fair benchmark for evaluating UDA methods in fundus image segmentation. This dataset is based on the RIGA[1] dataset and MESSIDOR[2] dataset. We appreciate their efforts devoted by the authors of [1] and [2]. The six duplicated cases in the RIGA dataset are filtered out according to the Errata. We also remove the duplicated cases that exist in both the RIGA dataset and the MESSIDOR dataset by hash value matching. Details of the RIGA+ dataset Domain Dataset Labeled Samples (Train+Test) Unlabeled Samples Source BinRushed 195 (195+0) 0 Source Magrabia 95 (95+0) 0 Target MESSIDOR-BASE1 173 (138+35) 227 Target MESSIDOR-BASE2 148 (118+30) 238 Target MESSIDOR-BASE3 133 (106+27) 252 [1] Almazroa A, Alodhayb S, Osman E, et al. Retinal fundus images for glaucoma analysis: the RIGA dataset[C]//Medical Imaging 2018: Imaging Informatics for Healthcare, Research, and Applications. International Society for Optics and Photonics, 2018, 10579: 105790B. [2] Decencière E, Zhang X, Cazuguel G, et al. Feedback on a publicly distributed image database: the Messidor database[J]. Image Analysis & Stereology, 2014, 33(3): 231-234. If you find this dataset useful for your research, please consider citing the paper as follows: <pre><code>@inproceedings{hu2022domain, title={Domain Specific Convolution and High Frequency Reconstruction based Unsupervised Domain Adaptation for Medical Image Segmentation}, author={Shishuai Hu and Zehui Liao and Yong Xia}, booktitle={International Conference on Medical Image Computing and Computer-Assisted Intervention}, year={2022}, organization={Springer} }</code></pre>
DOI: 10.25442/hku.20527980
title: Supporting data for "Inhibition of CAF-1 histone chaperone complex triggers cytosolic DNA and dsRNA sensing pathways and induces intrinsic immunity of hepatocellular carcinoma"

description: <br> Epigenetic therapy may synergize with Immune checkpoint inhibitor (ICI) in cancer immunotherapy. Herein, we unraveled the immune-modulatory role of the histone chaperone complex Chromatin assembly factor 1 (CAF-1) in hepatocellular carcinoma (HCC). In HCC patients, CAF-1 complex overexpression is associated with poor prognosis. Knockout of CAF-1 remarkably triggered replicative stress, induced chromatin instability and micronuclei formation, and suppressed HCC growth. Upon CAF-1 knockout, massive H3.1 to H3.3 histone replacement increased chromatin accessibility and activated the expression of endogenous retrovirus elements (ERVs), a phenomenon known as viral mimicry. Cytosolic micronuclei and ERVs are recognized by the STING and dsRNA viral sensing pathways, respectively. Thus, knockout of CAF-1 activated inflammatory response and immune surveillance, thereby augmenting the anti-cancer effect of immune checkpoint therapy in HCC. Our findings suggest that CAF-1 is essential for HCC development, targeting CAF-1 may awaken the anti-cancer immune response and may sensitize ICI treatment in cancer therapy. <br> Our studies include research data of TCGA or in-house liver cancer patients and experimental data on liver cancer cell lines.Data included raw number of experiments and figures or images obtained from machines. Raw number is in the excel file. Images and figures were in a separated folder.
DOI: 10.25442/hku.20527980.v1
title: Supporting data for "Inhibition of CAF-1 histone chaperone complex triggers cytosolic DNA and dsRNA sensing pathways and induces intrinsic immunity of hepatocellular carcinoma"

description: <br> Epigenetic therapy may synergize with Immune checkpoint inhibitor (ICI) in cancer immunotherapy. Herein, we unraveled the immune-modulatory role of the histone chaperone complex Chromatin assembly factor 1 (CAF-1) in hepatocellular carcinoma (HCC). In HCC patients, CAF-1 complex overexpression is associated with poor prognosis. Knockout of CAF-1 remarkably triggered replicative stress, induced chromatin instability and micronuclei formation, and suppressed HCC growth. Upon CAF-1 knockout, massive H3.1 to H3.3 histone replacement increased chromatin accessibility and activated the expression of endogenous retrovirus elements (ERVs), a phenomenon known as viral mimicry. Cytosolic micronuclei and ERVs are recognized by the STING and dsRNA viral sensing pathways, respectively. Thus, knockout of CAF-1 activated inflammatory response and immune surveillance, thereby augmenting the anti-cancer effect of immune checkpoint therapy in HCC. Our findings suggest that CAF-1 is essential for HCC development, targeting CAF-1 may awaken the anti-cancer immune response and may sensitize ICI treatment in cancer therapy. <br> Our studies include research data of TCGA or in-house liver cancer patients and experimental data on liver cancer cell lines.Data included raw number of experiments and figures or images obtained from machines. Raw number is in the excel file. Images and figures were in a separated folder.
DOI: 10.5517/ccdc.csd.cc2b66qh
title: CCDC 2150926: Experimental Crystal Structure Determination

description: Related Article: Khalil Youssef, Antoine Vacher, Frédéric Barrière, Thierry Roisnel, Dominique Lorcy|2022|Polyhedron|226|116086|doi:10.1016/j.poly.2022.116086
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2b66rj
title: CCDC 2150927: Experimental Crystal Structure Determination

description: Related Article: Khalil Youssef, Antoine Vacher, Frédéric Barrière, Thierry Roisnel, Dominique Lorcy|2022|Polyhedron|226|116086|doi:10.1016/j.poly.2022.116086
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2b66sk
title: CCDC 2150928: Experimental Crystal Structure Determination

description: Related Article: Khalil Youssef, Antoine Vacher, Frédéric Barrière, Thierry Roisnel, Dominique Lorcy|2022|Polyhedron|226|116086|doi:10.1016/j.poly.2022.116086
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2bg2hd
title: CCDC 2158483: Experimental Crystal Structure Determination

description: Related Article: López-Cardoso Marcela, Jaime-Adán Everardo, Román-Bravo Perla, Vargas-Pineda Gabriela, Jancik Vojtech, Bernal-Uruchurtu Margarita, Cea-Olivares Raymundo, Tlahuext Hugo|2022|J.Mol.Struct.|1270|133987|doi:10.1016/j.molstruc.2022.133987
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2bg2rn
title: CCDC 2158491: Experimental Crystal Structure Determination

description: Related Article: López-Cardoso Marcela, Jaime-Adán Everardo, Román-Bravo Perla, Vargas-Pineda Gabriela, Jancik Vojtech, Bernal-Uruchurtu Margarita, Cea-Olivares Raymundo, Tlahuext Hugo|2022|J.Mol.Struct.|1270|133987|doi:10.1016/j.molstruc.2022.133987
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2bg2sp
title: CCDC 2158492: Experimental Crystal Structure Determination

description: Related Article: López-Cardoso Marcela, Jaime-Adán Everardo, Román-Bravo Perla, Vargas-Pineda Gabriela, Jancik Vojtech, Bernal-Uruchurtu Margarita, Cea-Olivares Raymundo, Tlahuext Hugo|2022|J.Mol.Struct.|1270|133987|doi:10.1016/j.molstruc.2022.133987
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2cztjq
title: CCDC 2204364: Experimental Crystal Structure Determination

description: Related Article: R. Ida Malarselvi, B. Krishnapriya, C. Ramachandra Raja, R. Priscilla and  Aravazhi Amalan Thiruvalluvar|2022|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.25442/hku.20518200
title: Supporting data for "Investigating systemic immune and neuroimmune responses and cognitive functions in experimental models of depression"

description: This folder contains the data obtained for the thesis entitled "Investigating systemic immune and neuroimmune responses and cognitive functions in experimental models of depression". This includes video files of behavioral tests conducted, Western blot images, immunohistochemical images, qPCR analysis, and the relevant quantification and analysis of data.
DOI: 10.25442/hku.20518200.v1
title: Supporting data for "Investigating systemic immune and neuroimmune responses and cognitive functions in experimental models of depression"

description: This folder contains the data obtained for the thesis entitled "Investigating systemic immune and neuroimmune responses and cognitive functions in experimental models of depression". This includes video files of behavioral tests conducted, Western blot images, immunohistochemical images, qPCR analysis, and the relevant quantification and analysis of data.
DOI: 10.25442/hku.20546286
title: Supporting data for ''Evaluating retinal and choroidal vascularity changes in active and passive smokers over 50 years old: a population-based study in Hong Kong''

description: The raw data include the demographic characteristics, systemic diseases and ocular information of the participants who were finally enrolled in the study. Additionally, the data include a sheet explaining the coding of different variables. These data were analysed to evaluate retinal and choroidal vascularity changes between non-smokers, active smokers and passive smokers, and to identify influence factors of choroidal vascularity index (CVI) such as age, gender, BMI and vascular systemic diseases. Additionally, the data were used to obtain reference values of normal CVI for Chinese ≥50 years of age in Hong Kong.
DOI: 10.25442/hku.20546286.v1
title: Supporting data for ''Evaluating retinal and choroidal vascularity changes in active and passive smokers over 50 years old: a population-based study in Hong Kong''

description: The raw data include the demographic characteristics, systemic diseases and ocular information of the participants who were finally enrolled in the study. Additionally, the data include a sheet explaining the coding of different variables. These data were analysed to evaluate retinal and choroidal vascularity changes between non-smokers, active smokers and passive smokers, and to identify influence factors of choroidal vascularity index (CVI) such as age, gender, BMI and vascular systemic diseases. Additionally, the data were used to obtain reference values of normal CVI for Chinese ≥50 years of age in Hong Kong.
DOI: 10.25442/hku.20574108
title: Supporting Data for "Role of Dual-Specificity Tyrosine Phosphorylation-regulated Kinase 1A (DYRK1A) in Double-Strand Break (DSB) Mobility and Repair"

description: This is the supporting data for my PhD thesis "Role of Dual-Specificity Tyrosine Phosphorylation-regulated Kinase 1A (DYRK1A) in Double-Strand Break (DSB) Mobility and Repair". <br> Faithful DSB repair requires DSB mobilization and clustering for efficient repair. While emerging evidence has unveiled nuclear actin filaments (F-actin) directs DSB movements for repair, the underlying mechanism that controls such mobility remains to be explored. In this study, the DYRK1A-Spir1 axis is revealed as one of the molecular determinants to promote DSB repair by assisting local F-actin formation and DSB mobilization. <br> Apart from the figures used in this thesis, the supporting data folder also contains raw data of this study. The raw data uploaded consists of four categories: uncropped images of Western blots, full-range timelapse images of laser microirradiation experiments, representative videos of live cell imaging for DSB foci tracking experiments, as well as the associated quantifications.
DOI: 10.25442/hku.20574108.v1
title: Supporting Data for "Role of Dual-Specificity Tyrosine Phosphorylation-regulated Kinase 1A (DYRK1A) in Double-Strand Break (DSB) Mobility and Repair"

description: This is the supporting data for my PhD thesis "Role of Dual-Specificity Tyrosine Phosphorylation-regulated Kinase 1A (DYRK1A) in Double-Strand Break (DSB) Mobility and Repair". <br> Faithful DSB repair requires DSB mobilization and clustering for efficient repair. While emerging evidence has unveiled nuclear actin filaments (F-actin) directs DSB movements for repair, the underlying mechanism that controls such mobility remains to be explored. In this study, the DYRK1A-Spir1 axis is revealed as one of the molecular determinants to promote DSB repair by assisting local F-actin formation and DSB mobilization. <br> Apart from the figures used in this thesis, the supporting data folder also contains raw data of this study. The raw data uploaded consists of four categories: uncropped images of Western blots, full-range timelapse images of laser microirradiation experiments, representative videos of live cell imaging for DSB foci tracking experiments, as well as the associated quantifications.
DOI: 10.5281/zenodo.5484202
title: Dataset on the Chemistry of Australian Plant Exudates from Historical Collection

description: FT-IR.zip: FT-IR dataset<br> GC-MS.zip: GC-MS dataset<br> ICP-MS.zip: ICP-MS dataset<br> Py-GC-MS.zip: Py-GC-MS dataset<br> XRS C K-edge.zip: X-ray Raman spectroscopy dataset at the carbon K edge<br> XRS O K-edge.zip: X-ray Raman spectroscopy dataset at the carbon O edge
description: We acknowledge the SOLEIL and SSRL synchrotrons for the provision of beamtime. U.B. and L.B. acknowledge support from the France–Stanford Center for Interdisciplinary Studies Program and the LabEx PATRIMA (Agence Nationale de la Recherche, 10-LABX-0094) / Fondation des Sciences du Patrimoine for U.B.'s invited professorship at Université Paris-Saclay. R.S.P.F. acknowledges the Flinders University Outside Studies Program and the Australian Synchrotron International Synchrotron Access Program for a research visit to Stanford University. We thank Alessia Andreotti from the Department of Chemistry and Industrial Chemistry of the University of Pisa for her help with the GC-MS analysis of polysaccharide gums. R.G.'s PhD work was funded by UVSQ and Synchrotron SOLEIL. R.G. acknowledges support from Université Paris-Saclay for the financing of a visit to Stanford. R.G. acknowledges support from the State Scholarships Foundation of Cyprus for doctoral studies.
DOI: 10.5281/zenodo.5484203
title: Dataset on the Chemistry of Australian Plant Exudates from Historical Collection

description: FT-IR.zip: FT-IR dataset<br> GC-MS.zip: GC-MS dataset<br> ICP-MS.zip: ICP-MS dataset<br> Py-GC-MS.zip: Py-GC-MS dataset<br> XRS C K-edge.zip: X-ray Raman spectroscopy dataset at the carbon K edge<br> XRS O K-edge.zip: X-ray Raman spectroscopy dataset at the carbon O edge
description: We acknowledge the SOLEIL and SSRL synchrotrons for the provision of beamtime. U.B. and L.B. acknowledge support from the France–Stanford Center for Interdisciplinary Studies Program and the LabEx PATRIMA (Agence Nationale de la Recherche, 10-LABX-0094) / Fondation des Sciences du Patrimoine for U.B.'s invited professorship at Université Paris-Saclay. R.S.P.F. acknowledges the Flinders University Outside Studies Program and the Australian Synchrotron International Synchrotron Access Program for a research visit to Stanford University. We thank Alessia Andreotti from the Department of Chemistry and Industrial Chemistry of the University of Pisa for her help with the GC-MS analysis of polysaccharide gums. R.G.'s PhD work was funded by UVSQ and Synchrotron SOLEIL. R.G. acknowledges support from Université Paris-Saclay for the financing of a visit to Stanford. R.G. acknowledges support from the State Scholarships Foundation of Cyprus for doctoral studies.
DOI: 10.5281/zenodo.3238614
title: XRS carbon K-edge speciation mapping of an Eocene (ca. 53 Mya) ant entrapped in amber from Oise, France

description: XRS carbon K-edge speciation mapping of an Eocene (ca. 53 Mya) ant entrapped in amber from Oise, France
DOI: 10.5281/zenodo.3238615
title: XRS carbon K-edge speciation mapping of an Eocene (ca. 53 Mya) ant entrapped in amber from Oise, France

description: XRS carbon K-edge speciation mapping of an Eocene (ca. 53 Mya) ant entrapped in amber from Oise, France
DOI: 10.25625/8mzswb/4qjiie
title: 220624_poster-etl-wlo-2022_en.pdf

description: :unav
DOI: 10.25625/8mzswb/ostnpg
title: 220624_poster-etl-wlo-2022_en.pdf

description: :unav