PMC:7473770 / 3710-5049 JSONTXT

{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T27","span":{"begin":585,"end":589},"obj":"Body_part"},{"id":"T28","span":{"begin":683,"end":696},"obj":"Body_part"},{"id":"T29","span":{"begin":683,"end":688},"obj":"Body_part"},{"id":"T30","span":{"begin":952,"end":956},"obj":"Body_part"},{"id":"T31","span":{"begin":1207,"end":1211},"obj":"Body_part"},{"id":"T32","span":{"begin":1292,"end":1298},"obj":"Body_part"},{"id":"T33","span":{"begin":1327,"end":1338},"obj":"Body_part"}],"attributes":[{"id":"A27","pred":"fma_id","subj":"T27","obj":"http://purl.org/sig/ont/fma/fma74402"},{"id":"A28","pred":"fma_id","subj":"T28","obj":"http://purl.org/sig/ont/fma/fma63183"},{"id":"A29","pred":"fma_id","subj":"T29","obj":"http://purl.org/sig/ont/fma/fma9670"},{"id":"A30","pred":"fma_id","subj":"T30","obj":"http://purl.org/sig/ont/fma/fma7195"},{"id":"A31","pred":"fma_id","subj":"T31","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A32","pred":"fma_id","subj":"T32","obj":"http://purl.org/sig/ont/fma/fma9637"},{"id":"A33","pred":"fma_id","subj":"T33","obj":"http://purl.org/sig/ont/fma/fma76577"}],"text":"In this work, we want to demonstrate the potential of propagation-based phase contrast x-ray tomography as a tool for virtual 3D histology in general, and in particular for the histopathology of Covid-19. Our work is based on the assertion that integration of 3D morphological information with well-established histology techniques can provide a substantial asset for unraveling the pathophysiology of SARS-Cov-2 infections. To this end, we have collected x-ray tomography data from the same autopsies, which were previously studied by immunohistochemical analysis and measurements of gene expression (Ackermann et al., 2020). We ask in particular, whether DAD and the morphology of blood vessels can be visualized and quantified in 3D. This is a timely scientific question in Covid-19 research, especially in view of increased intussusceptive angiogenesis reported in Ackermann et al., 2020. Here we present first results obtained from the postmortem lung samples of six patients who succumbed from Covid-19. We exemplify the capability of this approach by 3D visualization of the DAD with hyaline membrane formation, by mapping the 3D distribution and density of angiocentric inflammation (perivascular T-cell infiltration), and by providing histograms of characteristic distances from the tissue interior to the closest air compartment."}

{"project":"LitCovid-PD-UBERON","denotations":[{"id":"T22","span":{"begin":683,"end":696},"obj":"Body_part"},{"id":"T23","span":{"begin":683,"end":688},"obj":"Body_part"},{"id":"T24","span":{"begin":689,"end":696},"obj":"Body_part"},{"id":"T25","span":{"begin":952,"end":956},"obj":"Body_part"},{"id":"T26","span":{"begin":1292,"end":1298},"obj":"Body_part"}],"attributes":[{"id":"A22","pred":"uberon_id","subj":"T22","obj":"http://purl.obolibrary.org/obo/UBERON_0001981"},{"id":"A23","pred":"uberon_id","subj":"T23","obj":"http://purl.obolibrary.org/obo/UBERON_0000178"},{"id":"A24","pred":"uberon_id","subj":"T24","obj":"http://purl.obolibrary.org/obo/UBERON_0000055"},{"id":"A25","pred":"uberon_id","subj":"T25","obj":"http://purl.obolibrary.org/obo/UBERON_0002048"},{"id":"A26","pred":"uberon_id","subj":"T26","obj":"http://purl.obolibrary.org/obo/UBERON_0000479"}],"text":"In this work, we want to demonstrate the potential of propagation-based phase contrast x-ray tomography as a tool for virtual 3D histology in general, and in particular for the histopathology of Covid-19. Our work is based on the assertion that integration of 3D morphological information with well-established histology techniques can provide a substantial asset for unraveling the pathophysiology of SARS-Cov-2 infections. To this end, we have collected x-ray tomography data from the same autopsies, which were previously studied by immunohistochemical analysis and measurements of gene expression (Ackermann et al., 2020). We ask in particular, whether DAD and the morphology of blood vessels can be visualized and quantified in 3D. This is a timely scientific question in Covid-19 research, especially in view of increased intussusceptive angiogenesis reported in Ackermann et al., 2020. Here we present first results obtained from the postmortem lung samples of six patients who succumbed from Covid-19. We exemplify the capability of this approach by 3D visualization of the DAD with hyaline membrane formation, by mapping the 3D distribution and density of angiocentric inflammation (perivascular T-cell infiltration), and by providing histograms of characteristic distances from the tissue interior to the closest air compartment."}

{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T22","span":{"begin":402,"end":406},"obj":"Disease"},{"id":"T23","span":{"begin":413,"end":423},"obj":"Disease"},{"id":"T24","span":{"begin":1178,"end":1190},"obj":"Disease"}],"attributes":[{"id":"A22","pred":"mondo_id","subj":"T22","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A23","pred":"mondo_id","subj":"T23","obj":"http://purl.obolibrary.org/obo/MONDO_0005550"},{"id":"A24","pred":"mondo_id","subj":"T24","obj":"http://purl.obolibrary.org/obo/MONDO_0021166"}],"text":"In this work, we want to demonstrate the potential of propagation-based phase contrast x-ray tomography as a tool for virtual 3D histology in general, and in particular for the histopathology of Covid-19. Our work is based on the assertion that integration of 3D morphological information with well-established histology techniques can provide a substantial asset for unraveling the pathophysiology of SARS-Cov-2 infections. To this end, we have collected x-ray tomography data from the same autopsies, which were previously studied by immunohistochemical analysis and measurements of gene expression (Ackermann et al., 2020). We ask in particular, whether DAD and the morphology of blood vessels can be visualized and quantified in 3D. This is a timely scientific question in Covid-19 research, especially in view of increased intussusceptive angiogenesis reported in Ackermann et al., 2020. Here we present first results obtained from the postmortem lung samples of six patients who succumbed from Covid-19. We exemplify the capability of this approach by 3D visualization of the DAD with hyaline membrane formation, by mapping the 3D distribution and density of angiocentric inflammation (perivascular T-cell infiltration), and by providing histograms of characteristic distances from the tissue interior to the closest air compartment."}

{"project":"LitCovid-PD-CLO","denotations":[{"id":"T36","span":{"begin":107,"end":108},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T37","span":{"begin":344,"end":345},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T38","span":{"begin":585,"end":589},"obj":"http://purl.obolibrary.org/obo/OGG_0000000002"},{"id":"T39","span":{"begin":630,"end":633},"obj":"http://purl.obolibrary.org/obo/CLO_0001755"},{"id":"T40","span":{"begin":683,"end":696},"obj":"http://purl.obolibrary.org/obo/UBERON_0001981"},{"id":"T41","span":{"begin":683,"end":696},"obj":"http://www.ebi.ac.uk/efo/EFO_0000817"},{"id":"T42","span":{"begin":745,"end":746},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T43","span":{"begin":952,"end":956},"obj":"http://purl.obolibrary.org/obo/UBERON_0002048"},{"id":"T44","span":{"begin":952,"end":956},"obj":"http://www.ebi.ac.uk/efo/EFO_0000934"},{"id":"T45","span":{"begin":1099,"end":1107},"obj":"http://purl.obolibrary.org/obo/UBERON_0000158"},{"id":"T46","span":{"begin":1205,"end":1211},"obj":"http://purl.obolibrary.org/obo/CL_0000084"}],"text":"In this work, we want to demonstrate the potential of propagation-based phase contrast x-ray tomography as a tool for virtual 3D histology in general, and in particular for the histopathology of Covid-19. Our work is based on the assertion that integration of 3D morphological information with well-established histology techniques can provide a substantial asset for unraveling the pathophysiology of SARS-Cov-2 infections. To this end, we have collected x-ray tomography data from the same autopsies, which were previously studied by immunohistochemical analysis and measurements of gene expression (Ackermann et al., 2020). We ask in particular, whether DAD and the morphology of blood vessels can be visualized and quantified in 3D. This is a timely scientific question in Covid-19 research, especially in view of increased intussusceptive angiogenesis reported in Ackermann et al., 2020. Here we present first results obtained from the postmortem lung samples of six patients who succumbed from Covid-19. We exemplify the capability of this approach by 3D visualization of the DAD with hyaline membrane formation, by mapping the 3D distribution and density of angiocentric inflammation (perivascular T-cell infiltration), and by providing histograms of characteristic distances from the tissue interior to the closest air compartment."}

{"project":"LitCovid-PD-GO-BP","denotations":[{"id":"T8","span":{"begin":585,"end":600},"obj":"http://purl.obolibrary.org/obo/GO_0010467"},{"id":"T9","span":{"begin":828,"end":856},"obj":"http://purl.obolibrary.org/obo/GO_0002041"},{"id":"T10","span":{"begin":844,"end":856},"obj":"http://purl.obolibrary.org/obo/GO_0001525"},{"id":"T11","span":{"begin":1108,"end":1117},"obj":"http://purl.obolibrary.org/obo/GO_0009058"},{"id":"T12","span":{"begin":1178,"end":1190},"obj":"http://purl.obolibrary.org/obo/GO_0006954"}],"text":"In this work, we want to demonstrate the potential of propagation-based phase contrast x-ray tomography as a tool for virtual 3D histology in general, and in particular for the histopathology of Covid-19. Our work is based on the assertion that integration of 3D morphological information with well-established histology techniques can provide a substantial asset for unraveling the pathophysiology of SARS-Cov-2 infections. To this end, we have collected x-ray tomography data from the same autopsies, which were previously studied by immunohistochemical analysis and measurements of gene expression (Ackermann et al., 2020). We ask in particular, whether DAD and the morphology of blood vessels can be visualized and quantified in 3D. This is a timely scientific question in Covid-19 research, especially in view of increased intussusceptive angiogenesis reported in Ackermann et al., 2020. Here we present first results obtained from the postmortem lung samples of six patients who succumbed from Covid-19. We exemplify the capability of this approach by 3D visualization of the DAD with hyaline membrane formation, by mapping the 3D distribution and density of angiocentric inflammation (perivascular T-cell infiltration), and by providing histograms of characteristic distances from the tissue interior to the closest air compartment."}

{"project":"LitCovid-sentences","denotations":[{"id":"T19","span":{"begin":0,"end":204},"obj":"Sentence"},{"id":"T20","span":{"begin":205,"end":424},"obj":"Sentence"},{"id":"T21","span":{"begin":425,"end":626},"obj":"Sentence"},{"id":"T22","span":{"begin":627,"end":736},"obj":"Sentence"},{"id":"T23","span":{"begin":737,"end":892},"obj":"Sentence"},{"id":"T24","span":{"begin":893,"end":1009},"obj":"Sentence"},{"id":"T25","span":{"begin":1010,"end":1339},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"In this work, we want to demonstrate the potential of propagation-based phase contrast x-ray tomography as a tool for virtual 3D histology in general, and in particular for the histopathology of Covid-19. Our work is based on the assertion that integration of 3D morphological information with well-established histology techniques can provide a substantial asset for unraveling the pathophysiology of SARS-Cov-2 infections. To this end, we have collected x-ray tomography data from the same autopsies, which were previously studied by immunohistochemical analysis and measurements of gene expression (Ackermann et al., 2020). We ask in particular, whether DAD and the morphology of blood vessels can be visualized and quantified in 3D. This is a timely scientific question in Covid-19 research, especially in view of increased intussusceptive angiogenesis reported in Ackermann et al., 2020. Here we present first results obtained from the postmortem lung samples of six patients who succumbed from Covid-19. We exemplify the capability of this approach by 3D visualization of the DAD with hyaline membrane formation, by mapping the 3D distribution and density of angiocentric inflammation (perivascular T-cell infiltration), and by providing histograms of characteristic distances from the tissue interior to the closest air compartment."}

{"project":"LitCovid-PD-HP","denotations":[{"id":"T12","span":{"begin":657,"end":660},"obj":"Phenotype"},{"id":"T13","span":{"begin":828,"end":843},"obj":"Phenotype"},{"id":"T14","span":{"begin":1082,"end":1085},"obj":"Phenotype"}],"attributes":[{"id":"A12","pred":"hp_id","subj":"T12","obj":"http://purl.obolibrary.org/obo/HP_0033006"},{"id":"A13","pred":"hp_id","subj":"T13","obj":"http://purl.obolibrary.org/obo/HP_0002576"},{"id":"A14","pred":"hp_id","subj":"T14","obj":"http://purl.obolibrary.org/obo/HP_0033006"}],"text":"In this work, we want to demonstrate the potential of propagation-based phase contrast x-ray tomography as a tool for virtual 3D histology in general, and in particular for the histopathology of Covid-19. Our work is based on the assertion that integration of 3D morphological information with well-established histology techniques can provide a substantial asset for unraveling the pathophysiology of SARS-Cov-2 infections. To this end, we have collected x-ray tomography data from the same autopsies, which were previously studied by immunohistochemical analysis and measurements of gene expression (Ackermann et al., 2020). We ask in particular, whether DAD and the morphology of blood vessels can be visualized and quantified in 3D. This is a timely scientific question in Covid-19 research, especially in view of increased intussusceptive angiogenesis reported in Ackermann et al., 2020. Here we present first results obtained from the postmortem lung samples of six patients who succumbed from Covid-19. We exemplify the capability of this approach by 3D visualization of the DAD with hyaline membrane formation, by mapping the 3D distribution and density of angiocentric inflammation (perivascular T-cell infiltration), and by providing histograms of characteristic distances from the tissue interior to the closest air compartment."}

{"project":"2_test","denotations":[{"id":"32815517-32437596-26997844","span":{"begin":620,"end":624},"obj":"32437596"},{"id":"32815517-32437596-26997845","span":{"begin":887,"end":891},"obj":"32437596"}],"text":"In this work, we want to demonstrate the potential of propagation-based phase contrast x-ray tomography as a tool for virtual 3D histology in general, and in particular for the histopathology of Covid-19. Our work is based on the assertion that integration of 3D morphological information with well-established histology techniques can provide a substantial asset for unraveling the pathophysiology of SARS-Cov-2 infections. To this end, we have collected x-ray tomography data from the same autopsies, which were previously studied by immunohistochemical analysis and measurements of gene expression (Ackermann et al., 2020). We ask in particular, whether DAD and the morphology of blood vessels can be visualized and quantified in 3D. This is a timely scientific question in Covid-19 research, especially in view of increased intussusceptive angiogenesis reported in Ackermann et al., 2020. Here we present first results obtained from the postmortem lung samples of six patients who succumbed from Covid-19. We exemplify the capability of this approach by 3D visualization of the DAD with hyaline membrane formation, by mapping the 3D distribution and density of angiocentric inflammation (perivascular T-cell infiltration), and by providing histograms of characteristic distances from the tissue interior to the closest air compartment."}

{"project":"MyTest","denotations":[{"id":"32815517-32437596-26997844","span":{"begin":620,"end":624},"obj":"32437596"},{"id":"32815517-32437596-26997845","span":{"begin":887,"end":891},"obj":"32437596"}],"namespaces":[{"prefix":"_base","uri":"https://www.uniprot.org/uniprot/testbase"},{"prefix":"UniProtKB","uri":"https://www.uniprot.org/uniprot/"},{"prefix":"uniprot","uri":"https://www.uniprot.org/uniprotkb/"}],"text":"In this work, we want to demonstrate the potential of propagation-based phase contrast x-ray tomography as a tool for virtual 3D histology in general, and in particular for the histopathology of Covid-19. Our work is based on the assertion that integration of 3D morphological information with well-established histology techniques can provide a substantial asset for unraveling the pathophysiology of SARS-Cov-2 infections. To this end, we have collected x-ray tomography data from the same autopsies, which were previously studied by immunohistochemical analysis and measurements of gene expression (Ackermann et al., 2020). We ask in particular, whether DAD and the morphology of blood vessels can be visualized and quantified in 3D. This is a timely scientific question in Covid-19 research, especially in view of increased intussusceptive angiogenesis reported in Ackermann et al., 2020. Here we present first results obtained from the postmortem lung samples of six patients who succumbed from Covid-19. We exemplify the capability of this approach by 3D visualization of the DAD with hyaline membrane formation, by mapping the 3D distribution and density of angiocentric inflammation (perivascular T-cell infiltration), and by providing histograms of characteristic distances from the tissue interior to the closest air compartment."}

{"project":"LitCovid-PubTator","denotations":[{"id":"98","span":{"begin":972,"end":980},"obj":"Species"},{"id":"99","span":{"begin":195,"end":203},"obj":"Disease"},{"id":"100","span":{"begin":402,"end":423},"obj":"Disease"},{"id":"101","span":{"begin":777,"end":785},"obj":"Disease"},{"id":"102","span":{"begin":1000,"end":1008},"obj":"Disease"},{"id":"103","span":{"begin":1165,"end":1190},"obj":"Disease"}],"attributes":[{"id":"A98","pred":"tao:has_database_id","subj":"98","obj":"Tax:9606"},{"id":"A99","pred":"tao:has_database_id","subj":"99","obj":"MESH:C000657245"},{"id":"A100","pred":"tao:has_database_id","subj":"100","obj":"MESH:C000657245"},{"id":"A101","pred":"tao:has_database_id","subj":"101","obj":"MESH:C000657245"},{"id":"A102","pred":"tao:has_database_id","subj":"102","obj":"MESH:C000657245"},{"id":"A103","pred":"tao:has_database_id","subj":"103","obj":"MESH:D007249"}],"namespaces":[{"prefix":"Tax","uri":"https://www.ncbi.nlm.nih.gov/taxonomy/"},{"prefix":"MESH","uri":"https://id.nlm.nih.gov/mesh/"},{"prefix":"Gene","uri":"https://www.ncbi.nlm.nih.gov/gene/"},{"prefix":"CVCL","uri":"https://web.expasy.org/cellosaurus/CVCL_"}],"text":"In this work, we want to demonstrate the potential of propagation-based phase contrast x-ray tomography as a tool for virtual 3D histology in general, and in particular for the histopathology of Covid-19. Our work is based on the assertion that integration of 3D morphological information with well-established histology techniques can provide a substantial asset for unraveling the pathophysiology of SARS-Cov-2 infections. To this end, we have collected x-ray tomography data from the same autopsies, which were previously studied by immunohistochemical analysis and measurements of gene expression (Ackermann et al., 2020). We ask in particular, whether DAD and the morphology of blood vessels can be visualized and quantified in 3D. This is a timely scientific question in Covid-19 research, especially in view of increased intussusceptive angiogenesis reported in Ackermann et al., 2020. Here we present first results obtained from the postmortem lung samples of six patients who succumbed from Covid-19. We exemplify the capability of this approach by 3D visualization of the DAD with hyaline membrane formation, by mapping the 3D distribution and density of angiocentric inflammation (perivascular T-cell infiltration), and by providing histograms of characteristic distances from the tissue interior to the closest air compartment."}