cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.34808/3b82-d718
title: Transitional carcinoma - Male, 80 - Tissue image [6160730013037031]

description: This is the histopathological image of BLADDER tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format. The detailed information about the patient, sample, and diagnosis are as follows: Patient:Age: 80Clinical description: Tumor of the urinary bladder.Gender: MaleDiagnosis:Classification: ICD-O_3.2Classification code: TRANSITIONAL CELL PAPILLOMAS AND CARCINOMASDiagnosis: Transitional carcinomaResult of the histopathological examination: High grade urothelial carcinoma with squamous metaplasia. The tumor invades the musclar wall of the bladder.Sample:Material: FFPECollecting method: Surgical specimenTopography: URINARY TRACTOrgan: BLADDERTissue: Urinary bladder, NOSType of staining: positive/HEStaining: Not applicableAntibody: Not applicableTechnology:Equipment: Pannoramic 250 3DHistechLens: 20xOrganization:Source: Medical University Gdańsk
DOI: 10.34808/fc0k-kk57
title: URETER, Ureter - Male, 72 - Tissue image [6160730013046791]

description: This is the histopathological image of URETER tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format. The detailed information about the patient, sample, and diagnosis are as follows: Patient:Age: 72Clinical description: Tumor of the urinary bladder.Gender: MaleDiagnosis:Classification: HealthyClassification code: Diagnosis: Result of the histopathological examination: The left ureter is free of cancer.Sample:Material: FFPECollecting method: Surgical specimenTopography: URINARY TRACTOrgan: URETERTissue: UreterType of staining: positive/HEStaining: Not applicableAntibody: Not applicableTechnology:Equipment: Pannoramic 250 3DHistechLens: 20xOrganization:Source: Medical University Gdańsk
DOI: 10.34808/vkgg-0w46
title: OTHER AND UNSPECIFIED MALE GENITAL ORGANS, Vas deferens - Male, 80 - Tissue image [6160730013036191]

description: This is the histopathological image of OTHER AND UNSPECIFIED MALE GENITAL ORGANS tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format. The detailed information about the patient, sample, and diagnosis are as follows: Patient:Age: 80Clinical description: Tumor of the urinary bladder.Gender: MaleDiagnosis:Classification: HealthyClassification code: Diagnosis: Result of the histopathological examination: The surgical margin of the vas deferens is negative.Sample:Material: FFPECollecting method: Surgical specimenTopography: MALE GENITAL ORGANSOrgan: OTHER AND UNSPECIFIED MALE GENITAL ORGANSTissue: Vas deferensType of staining: positive/HEStaining: Not applicableAntibody: Not applicableTechnology:Equipment: Pannoramic 250 3DHistechLens: 20xOrganization:Source: Medical University Gdańsk
DOI: 10.34808/d82h-8y20
title: Hyperplasia of prostate - Male, 80 - Tissue image [6160730013033131]

description: This is the histopathological image of PROSTATE GLAND tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format. The detailed information about the patient, sample, and diagnosis are as follows: Patient:Age: 80Clinical description: Tumor of the urinary bladder.Gender: MaleDiagnosis:Classification: ICD-10_10-20Classification code: Chapter XIV - Diseases of the genitourinary systemDiagnosis: Hyperplasia of prostateResult of the histopathological examination: Benign nodular hyperplasia of the prostate and chronic prostatitis.Sample:Material: FFPECollecting method: Surgical specimenTopography: MALE GENITAL ORGANSOrgan: PROSTATE GLANDTissue: Prostate glandType of staining: positive/HEStaining: Not applicableAntibody: Not applicableTechnology:Equipment: Pannoramic 250 3DHistechLens: 20xOrganization:Source: Medical University Gdańsk
DOI: 10.34808/2cz4-j162
title: OTHER AND UNSPECIFIED MALE GENITAL ORGANS, Seminal vesicle - Male, 80 - Tissue image [6160730013031691]

description: This is the histopathological image of OTHER AND UNSPECIFIED MALE GENITAL ORGANS tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format. The detailed information about the patient, sample, and diagnosis are as follows: Patient:Age: 80Clinical description: Tumor of the urinary bladder.Gender: MaleDiagnosis:Classification: HealthyClassification code: Diagnosis: Result of the histopathological examination: The seminal vesicle is of normal histological structure.Sample:Material: FFPECollecting method: Surgical specimenTopography: MALE GENITAL ORGANSOrgan: OTHER AND UNSPECIFIED MALE GENITAL ORGANSTissue: Seminal vesicleType of staining: positive/HEStaining: Not applicableAntibody: Not applicableTechnology:Equipment: Pannoramic 250 3DHistechLens: 20xOrganization:Source: Medical University Gdańsk
DOI: 10.34808/3152-r650
title: Hyperplasia of prostate - Male, 80 - Tissue image [6160730013034461]

description: This is the histopathological image of PROSTATE GLAND tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format. The detailed information about the patient, sample, and diagnosis are as follows: Patient:Age: 80Clinical description: Tumor of the urinary bladder.Gender: MaleDiagnosis:Classification: ICD-10_10-20Classification code: Chapter XIV - Diseases of the genitourinary systemDiagnosis: Hyperplasia of prostateResult of the histopathological examination: Benign nodular hyperplastia of the prostate. Chronic prostatitis.Sample:Material: FFPECollecting method: Surgical specimenTopography: MALE GENITAL ORGANSOrgan: PROSTATE GLANDTissue: Prostate glandType of staining: positive/HEStaining: Not applicableAntibody: Not applicableTechnology:Equipment: Pannoramic 250 3DHistechLens: 20xOrganization:Source: Medical University Gdańsk
DOI: 10.6084/m9.figshare.16809889
title: Supplementary Material for: Retina Vascular Structures Near the Optic Disc and in the Macula in Primary Angle Closure Suspects

description: Medicine
DOI: 10.6084/m9.figshare.16809889.v1
title: Supplementary Material for: Retina Vascular Structures Near the Optic Disc and in the Macula in Primary Angle Closure Suspects

description: Medicine
DOI: 10.6084/m9.figshare.20078431.v1
title: ESM9.txt from A network-based measure of functional diversity in food webs

description: Biodiversity is measured from various perspectives. One of them, functional diversity, quantifies the heterogeneity in species traits and roles in an ecosystem. One important aspect of species roles is their interactions with other species, i.e. their network role. We therefore investigate here functional diversity from the network perspective. Species differ in their network positions in a food web, having different interaction patterns. We developed a measure for quantifying the diversity in species interaction patterns in a food web. We examined the relationship between interaction diversity and several global network properties for 92 food webs. Our results showed that high interaction diversity occurs in sparsely connected and less cohesive food webs. High interaction diversity also occurred in food webs with more clusters and high network modularity. We also quantified several conventional functional diversity indices and demonstrate that they show little or no correlation with interaction diversity. Our proposed diversity index therefore provides a measure complementary to current concepts of functional diversity.
DOI: 10.6084/m9.figshare.20078431
title: ESM9.txt from A network-based measure of functional diversity in food webs

description: Biodiversity is measured from various perspectives. One of them, functional diversity, quantifies the heterogeneity in species traits and roles in an ecosystem. One important aspect of species roles is their interactions with other species, i.e. their network role. We therefore investigate here functional diversity from the network perspective. Species differ in their network positions in a food web, having different interaction patterns. We developed a measure for quantifying the diversity in species interaction patterns in a food web. We examined the relationship between interaction diversity and several global network properties for 92 food webs. Our results showed that high interaction diversity occurs in sparsely connected and less cohesive food webs. High interaction diversity also occurred in food webs with more clusters and high network modularity. We also quantified several conventional functional diversity indices and demonstrate that they show little or no correlation with interaction diversity. Our proposed diversity index therefore provides a measure complementary to current concepts of functional diversity.
DOI: 10.6084/m9.figshare.20078434
title: ESM10.xlsx from A network-based measure of functional diversity in food webs

description: Biodiversity is measured from various perspectives. One of them, functional diversity, quantifies the heterogeneity in species traits and roles in an ecosystem. One important aspect of species roles is their interactions with other species, i.e. their network role. We therefore investigate here functional diversity from the network perspective. Species differ in their network positions in a food web, having different interaction patterns. We developed a measure for quantifying the diversity in species interaction patterns in a food web. We examined the relationship between interaction diversity and several global network properties for 92 food webs. Our results showed that high interaction diversity occurs in sparsely connected and less cohesive food webs. High interaction diversity also occurred in food webs with more clusters and high network modularity. We also quantified several conventional functional diversity indices and demonstrate that they show little or no correlation with interaction diversity. Our proposed diversity index therefore provides a measure complementary to current concepts of functional diversity.
DOI: 10.6084/m9.figshare.20078437
title: ESM1.xlsx from A network-based measure of functional diversity in food webs

description: Biodiversity is measured from various perspectives. One of them, functional diversity, quantifies the heterogeneity in species traits and roles in an ecosystem. One important aspect of species roles is their interactions with other species, i.e. their network role. We therefore investigate here functional diversity from the network perspective. Species differ in their network positions in a food web, having different interaction patterns. We developed a measure for quantifying the diversity in species interaction patterns in a food web. We examined the relationship between interaction diversity and several global network properties for 92 food webs. Our results showed that high interaction diversity occurs in sparsely connected and less cohesive food webs. High interaction diversity also occurred in food webs with more clusters and high network modularity. We also quantified several conventional functional diversity indices and demonstrate that they show little or no correlation with interaction diversity. Our proposed diversity index therefore provides a measure complementary to current concepts of functional diversity.
DOI: 10.6084/m9.figshare.20078437.v1
title: ESM1.xlsx from A network-based measure of functional diversity in food webs

description: Biodiversity is measured from various perspectives. One of them, functional diversity, quantifies the heterogeneity in species traits and roles in an ecosystem. One important aspect of species roles is their interactions with other species, i.e. their network role. We therefore investigate here functional diversity from the network perspective. Species differ in their network positions in a food web, having different interaction patterns. We developed a measure for quantifying the diversity in species interaction patterns in a food web. We examined the relationship between interaction diversity and several global network properties for 92 food webs. Our results showed that high interaction diversity occurs in sparsely connected and less cohesive food webs. High interaction diversity also occurred in food webs with more clusters and high network modularity. We also quantified several conventional functional diversity indices and demonstrate that they show little or no correlation with interaction diversity. Our proposed diversity index therefore provides a measure complementary to current concepts of functional diversity.
DOI: 10.5281/zenodo.6650679
title: Dataset for GCNdesign

description: Training/Validation/Test dataset for the parameter training of GCNdesign model. dataset.tar.gz : Training, T500, TS50 dataset dataset_cath40.tar.bz2: CATH-v4.3 S40 dataset Please refer to (https://github.com/ShintaroMinami/GCNdesign/documents/Method_Summary.pdf) for details.
DOI: 10.5281/zenodo.6528406
title: Dataset for GCNdesign

description: Training/Validation/Test dataset for the parameter training of GCNdesign model. dataset.tar.gz : Training, T500, TS50 dataset dataset_cath40.tar.bz2: CATH-v4.3 S40 dataset Please refer to (https://github.com/ShintaroMinami/GCNdesign/documents/Method_Summary.pdf) for details.
DOI: 10.15151/esrf-es-771248043
title: The Netherlands BAG

description: The Netherlands BAG includes groups situated at five Dutch universities (Utrecht, Groningen, Amsterdam, Wageningen and Eindhoven) and at the Netherlands Cancer Institute in Amsterdam, with a total of twelve PIs. The structural biology research carried out in these groups is highly diverse, including prokaryotic and eukaryotic proteins with a strong focus on targets and processes of biomedical relevance. Central to many projects are protein receptors and their interactions with other proteins and with small molecule modulators. An additional major research area concerns structure-based protein engineering and design aiming at the characterization and engineering of new enzymes for green chemistry and new-to-nature reactions. Projects deal with membrane and soluble proteins, cell surface receptors, and protein-protein, protein-ribonucleotide, protein-drug and enzyme-ligand complexes.
DOI: 10.15151/esrf-es-771371199
title: The Israeli BAG

description: The BAG is quite large with 24 principal investigators covering almost all groups in Israel. The scientific topics are diverse and so different that depicting them in a short Abstract is extremely difficult. In this context BAG members are studying the parameters that govern protein assemblage, structural impacts of signaling processes in different cascades. There are several projects that are directed towards molecular recognition with implementation towards drug design. In addition, we still have the ribosome project and the design of unique antibiotics with specific functional interactions from the mycinamycins family and their resistance related mechanism compared with other macrolides and the photosystem and how it converts light into energy. Since Covid-19 is still a relevant topic as are other viral infections BAG members are and have been involved in the understanding of the infection process and the means to hinder it.
DOI: 10.15151/esrf-es-771424565
title: IBS BAG

description: The IBS BAG includes in this proposal IBS teams and external groups from iRTSV/CEA (Grenoble), CEA-Cadarache (St Paul lez Durance) and IRBA (Brétigny-sur-Orge). We study structure-function relationships of proteins emphasizing in human health, biotechnology and methodology. Most of the projects are a continuation of the MX-2329 proposal and can be grouped in different topics as follows: host-pathogen interaction, new drug targets, fundamental cellular mechanisms, membrane proteins, intrinsically disordered proteins, biotechnological applications and methodology. Some of these projects use integrative approaches (X-ray crystallography, SAXS, NMR (and cryo-EM), together with other biophysical studies) with the aim to fully understand the complexity of the biological macromolecular systems on study. Some teams are dedicated to serial crystallography and its developments, for which the ESRF-EBS has become the perfect tool.
DOI: 10.15151/esrf-es-806198337
title: Australian lungfish evolutionary biology

description: Scanning of australian lungfish and larvae
DOI: 10.15151/esrf-es-804821965
title: Hybrid Luminescent Materials by Incorporating Metal Halides into Metal-Organic and Covalent Organic Reticular Compounds

description: We explore various reticular porous materials, such as metal-organic and covalent organic frameworks and polyhedra as molecular templates for formation of confined atomically defined solid-state structures within the pores by incorporation of main group metal halide (MH) compounds. MH materials are known to exhibit exceptional luminescence and other optoelectronic properties. Single crystals of the porous materials can be employed as molecular templates for crystallizing MHs within the cavities. In this way, geometry, functionality, electric charge and topology of the pores determines the structure of resulting metal halide units, what might enable rational synthesis of desired solids and gives access to structures which are not known to form otherwise, and thus further tailoring optoelectronic properties. Our current work focuses on explorations of various frameworks and polyhedra and MHs as hosts and guests, respectively, offering vast compositional and structural space to dive in.
DOI: 10.15151/esrf-es-848214017
title: High-temperature X-ray absorption spectroscopy in PrNiO3 nickelate perovskite

description: Here, we propose to investigate the structural phase transition Pbnm -&gt; R-3c in PrNiO3 taking place at 773 K. The goal is to acquire XAS data at Ni K-edge around the phase transition to understand the main features of the XANES spectra. An in-house furnace as provided by the sample environment laboratory will be used to heat up the sample to 873 K.
DOI: 10.14457/tu.the.2021.180
title: การวิเคราะห์ศักยภาพการมองเห็นเชิงพื้นที่ของงานศิลปะสาธารณะในย่านชุมชนบ้านโป่ง จังหวัดราชบุรี

description: ย่านชุมชนบ้านโป่ง จังหวัดราชบุรี เป็นพื้นที่ที่มีความสำคัญทางประวัติศาสตร์รวมถึงประเพณีและวัฒนธรรมจากหลากหลายชาติพันธุ์ ซึ่งสอดคล้องกับรัฐบาลได้มีการกำหนดยุทธศาสตร์ทางเศรษฐกิจให้จังหวัดราชบุรีเป็น “ศูนย์กลางการค้าและการท่องเที่ยวเชิงสร้างสรรค์แห่งภาคตะวันตก” ย่านชุมชนบ้านโป่งจึงมีโครงการพัฒนาศิลปวัฒนธรรมร่วมสมัยที่ได้รับความร่วมมือจากคนในชุมชนเมืองบ้านโป่งทั้งภาค รัฐ ภาคเอกชนและประชาชน มาร่วมสร้างสรรค์พื้นที่เมืองโดยผ่านในรูปแบบงานศิลปะสาธารณะ งานวิจัยนี้จึงมีวัตถุประสงค์เพื่อวิเคราะห์ศักยภาพการมองเห็นเชิงพื้นที่ของศิลปะสาธารณะในย่านชุมชน โดยการศึกษาโครงสร้างสัณฐานของเมือง สำรวจการเข้าถึงพื้นที่บริเวณโดยรอบ ศึกษาศักยภาพการมองเห็นตำแหน่งงานศิลปะสาธารณะในย่านชุมชนบ้านโป่งและบริบทโดยรอบ ด้วยวิธีบูรณาการระหว่าง Space Syntax ในการหาระดับความเข้าถึงด้านโครงข่ายคมนาคม และ Visual Graph Analysis (VGA) ในระดับศักยภาพการมองเห็น (สนามทัศน์) ผลการศึกษาพบว่าศิลปะสาธารณะบนพื้นที่สาธารณะในย่านชุมชนบ้านโป่ง มีรูปทรงและการจัดวางที่แตกต่างกระจายตัวอยู่ตามอาคาร พื้นที่สาธารณะ ถนน ซอกซอย ที่มีศักยภาพการเข้าถึงและการมองเห็นที่มีศักยภาพต่ำไปจนถึงปานกลาง แสดงให้เห็นถึงความสัมพันธ์กับโครงสร้างสัณฐานของเมือง การนำเครื่องมือเหล่านี้มาช่วยวิเคราะห์จะเป็นประโยชน์ในการวางแผนติดตั้งผลงานศิลปะสาธารณะรวมไปถึงการปรับปรุงภูมิทัศน์ภายในพื้นที่ อาคารและสถานที่พื้นที่ร้างได้อย่างมีประสิทธิภาพ
DOI: 10.6084/m9.figshare.20078602
title: Long non-coding RNA plasmacytoma variant translocation 1 and growth arrest specific 5 regulate each other in osteoarthritis to regulate the apoptosis of chondrocytes

description: Long non-coding RNA (lncRNA) plasmacytoma variant translocation 1 (PVT1) and growth arrest specific 5 (GAS5) have opposite functions in the apoptosis of chondrocytes, which are involved in the pathogenesis of osteoarthritis (OA). The opposite roles of PVT1 and GAS5 in OA may indicate the existence of crosstalk between them in OA. This study aimed to explore the possible interaction between PVT1 and GAS5 in OA. Accumulation of PVT1 and GAS5 in OA and control synovial fluid samples was measured by RT-qPCR. The interaction between PVT1 and GAS5 in chondrocytes was explored by overexpression experiments. Dual-luciferase reporter assay was performed to analyze the binding of PVT1 and GAS5 to each other’s promoter regions. Regulatory roles of PVT1 and GAS5 in the apoptosis of chondrocytes were studied with cell apoptosis assay. PVT1 was upregulated in OA, and GAS5 was downregulated in OA. An inverse correlation between PVT1 and GAS5 was observed across OA samples. Under lipopolysaccharides (LPS) treatment, PVT1 was upregulated and GAS5 was downregulated. Interestingly, PVT1 and GAS5 overexpression downregulated each other in chondrocytes. Cell apoptosis analysis showed that PVT1 overexpression promoted cell apoptosis, while GAS5 overexpression suppressed cell apoptosis induced by LPS. Co-transfection of PVT1 and GAS5 failed to significantly affect cell apoptosis. PVT1 and GAS5 directly bound to each other’s promoter regions. Our study characterized the interaction between PVT1 and GAS5 in OA. Their interaction regulated the apoptosis of chondrocytes, which play a critical role in OA. PVT1 and GAS5 may form a negative feedback loop in OA.
DOI: 10.6084/m9.figshare.20078602.v1
title: Long non-coding RNA plasmacytoma variant translocation 1 and growth arrest specific 5 regulate each other in osteoarthritis to regulate the apoptosis of chondrocytes

description: Long non-coding RNA (lncRNA) plasmacytoma variant translocation 1 (PVT1) and growth arrest specific 5 (GAS5) have opposite functions in the apoptosis of chondrocytes, which are involved in the pathogenesis of osteoarthritis (OA). The opposite roles of PVT1 and GAS5 in OA may indicate the existence of crosstalk between them in OA. This study aimed to explore the possible interaction between PVT1 and GAS5 in OA. Accumulation of PVT1 and GAS5 in OA and control synovial fluid samples was measured by RT-qPCR. The interaction between PVT1 and GAS5 in chondrocytes was explored by overexpression experiments. Dual-luciferase reporter assay was performed to analyze the binding of PVT1 and GAS5 to each other’s promoter regions. Regulatory roles of PVT1 and GAS5 in the apoptosis of chondrocytes were studied with cell apoptosis assay. PVT1 was upregulated in OA, and GAS5 was downregulated in OA. An inverse correlation between PVT1 and GAS5 was observed across OA samples. Under lipopolysaccharides (LPS) treatment, PVT1 was upregulated and GAS5 was downregulated. Interestingly, PVT1 and GAS5 overexpression downregulated each other in chondrocytes. Cell apoptosis analysis showed that PVT1 overexpression promoted cell apoptosis, while GAS5 overexpression suppressed cell apoptosis induced by LPS. Co-transfection of PVT1 and GAS5 failed to significantly affect cell apoptosis. PVT1 and GAS5 directly bound to each other’s promoter regions. Our study characterized the interaction between PVT1 and GAS5 in OA. Their interaction regulated the apoptosis of chondrocytes, which play a critical role in OA. PVT1 and GAS5 may form a negative feedback loop in OA.
DOI: 10.6084/m9.figshare.7284560.v1
title: Untitled Item

description: test <br>
DOI: 10.6084/m9.figshare.20078588
title: Vision and kinaestesia

description: Intensity, latency and duration of kinaesthetic illusions induced in virtual reality
DOI: 10.6084/m9.figshare.20078588.v1
title: Vision and kinaestesia

description: Intensity, latency and duration of kinaesthetic illusions induced in virtual reality
DOI: 10.6084/m9.figshare.20078594
title: Ocean grid information of FIO-ESM-2-0

description: This is the source data of the native ocean grid information for the CMIP6 model FIO-ESM-2-0.