PMC:7473770 / 47055-48128 JSONTXT

{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T286","span":{"begin":129,"end":137},"obj":"Body_part"},{"id":"T287","span":{"begin":156,"end":164},"obj":"Body_part"},{"id":"T288","span":{"begin":302,"end":314},"obj":"Body_part"},{"id":"T289","span":{"begin":302,"end":308},"obj":"Body_part"},{"id":"T290","span":{"begin":316,"end":327},"obj":"Body_part"},{"id":"T291","span":{"begin":316,"end":322},"obj":"Body_part"},{"id":"T292","span":{"begin":329,"end":341},"obj":"Body_part"},{"id":"T293","span":{"begin":353,"end":361},"obj":"Body_part"},{"id":"T294","span":{"begin":445,"end":453},"obj":"Body_part"},{"id":"T295","span":{"begin":603,"end":615},"obj":"Body_part"},{"id":"T296","span":{"begin":641,"end":644},"obj":"Body_part"},{"id":"T297","span":{"begin":821,"end":826},"obj":"Body_part"},{"id":"T298","span":{"begin":875,"end":892},"obj":"Body_part"},{"id":"T299","span":{"begin":875,"end":880},"obj":"Body_part"},{"id":"T300","span":{"begin":900,"end":908},"obj":"Body_part"},{"id":"T301","span":{"begin":1053,"end":1061},"obj":"Body_part"}],"attributes":[{"id":"A286","pred":"fma_id","subj":"T286","obj":"http://purl.org/sig/ont/fma/fma14542"},{"id":"A287","pred":"fma_id","subj":"T287","obj":"http://purl.org/sig/ont/fma/fma14542"},{"id":"A288","pred":"fma_id","subj":"T288","obj":"http://purl.org/sig/ont/fma/fma14163"},{"id":"A289","pred":"fma_id","subj":"T289","obj":"http://purl.org/sig/ont/fma/fma50720"},{"id":"A290","pred":"fma_id","subj":"T290","obj":"http://purl.org/sig/ont/fma/fma14155"},{"id":"A291","pred":"fma_id","subj":"T291","obj":"http://purl.org/sig/ont/fma/fma50720"},{"id":"A292","pred":"fma_id","subj":"T292","obj":"http://purl.org/sig/ont/fma/fma62845"},{"id":"A293","pred":"fma_id","subj":"T293","obj":"http://purl.org/sig/ont/fma/fma264783"},{"id":"A294","pred":"fma_id","subj":"T294","obj":"http://purl.org/sig/ont/fma/fma14542"},{"id":"A295","pred":"fma_id","subj":"T295","obj":"http://purl.org/sig/ont/fma/fma62845"},{"id":"A296","pred":"fma_id","subj":"T296","obj":"http://purl.org/sig/ont/fma/fma54448"},{"id":"A297","pred":"fma_id","subj":"T297","obj":"http://purl.org/sig/ont/fma/fma9670"},{"id":"A298","pred":"fma_id","subj":"T298","obj":"http://purl.org/sig/ont/fma/fma63194"},{"id":"A299","pred":"fma_id","subj":"T299","obj":"http://purl.org/sig/ont/fma/fma9670"},{"id":"A300","pred":"fma_id","subj":"T300","obj":"http://purl.org/sig/ont/fma/fma264783"},{"id":"A301","pred":"fma_id","subj":"T301","obj":"http://purl.org/sig/ont/fma/fma14542"}],"text":"An overview of different morphological features identified by conventional HE histology and virtual 3D histology is presented in Appendix 1—figure 2, while Appendix 1—figure 3 presents a direct comparison for the same slice. For this purpose, the sample was sectioned and stained after the PC-CT scan. Artery lumen, artery wall, erythrocytes, thrombus, alveolar septum, marcophage, hyaline membrane and black granules (anthracosis) are shown in Appendix 1—figure 2 for both imaging methods. Contrast of the hyaline membrane is homogenous in both modalities, facilitating idetification and segmentation. Erythrocytes are easily recognized by eye in the conventional histology image, due to the HE staining, but less well distinguished by virtual histology. This results in a difficult differentiation between thrombus and blood stasis as well as a difficult identification of blood capillaries in the alveolar septum. Importantly, however, feature identification can be confirmed by correlative 2d and 3D histology on the same section, as exemplified by Appendix 1—figure 3."}

{"project":"LitCovid-PD-UBERON","denotations":[{"id":"T259","span":{"begin":25,"end":47},"obj":"Body_part"},{"id":"T260","span":{"begin":302,"end":308},"obj":"Body_part"},{"id":"T261","span":{"begin":316,"end":327},"obj":"Body_part"},{"id":"T262","span":{"begin":316,"end":322},"obj":"Body_part"},{"id":"T263","span":{"begin":362,"end":368},"obj":"Body_part"},{"id":"T264","span":{"begin":641,"end":644},"obj":"Body_part"},{"id":"T265","span":{"begin":821,"end":826},"obj":"Body_part"},{"id":"T266","span":{"begin":875,"end":880},"obj":"Body_part"},{"id":"T267","span":{"begin":909,"end":915},"obj":"Body_part"}],"attributes":[{"id":"A259","pred":"uberon_id","subj":"T259","obj":"http://purl.obolibrary.org/obo/UBERON_0034768"},{"id":"A260","pred":"uberon_id","subj":"T260","obj":"http://purl.obolibrary.org/obo/UBERON_0001637"},{"id":"A261","pred":"uberon_id","subj":"T261","obj":"http://purl.obolibrary.org/obo/UBERON_0000415"},{"id":"A262","pred":"uberon_id","subj":"T262","obj":"http://purl.obolibrary.org/obo/UBERON_0001637"},{"id":"A263","pred":"uberon_id","subj":"T263","obj":"http://purl.obolibrary.org/obo/UBERON_0003037"},{"id":"A264","pred":"uberon_id","subj":"T264","obj":"http://purl.obolibrary.org/obo/UBERON_0000970"},{"id":"A265","pred":"uberon_id","subj":"T265","obj":"http://purl.obolibrary.org/obo/UBERON_0000178"},{"id":"A266","pred":"uberon_id","subj":"T266","obj":"http://purl.obolibrary.org/obo/UBERON_0000178"},{"id":"A267","pred":"uberon_id","subj":"T267","obj":"http://purl.obolibrary.org/obo/UBERON_0003037"}],"text":"An overview of different morphological features identified by conventional HE histology and virtual 3D histology is presented in Appendix 1—figure 2, while Appendix 1—figure 3 presents a direct comparison for the same slice. For this purpose, the sample was sectioned and stained after the PC-CT scan. Artery lumen, artery wall, erythrocytes, thrombus, alveolar septum, marcophage, hyaline membrane and black granules (anthracosis) are shown in Appendix 1—figure 2 for both imaging methods. Contrast of the hyaline membrane is homogenous in both modalities, facilitating idetification and segmentation. Erythrocytes are easily recognized by eye in the conventional histology image, due to the HE staining, but less well distinguished by virtual histology. This results in a difficult differentiation between thrombus and blood stasis as well as a difficult identification of blood capillaries in the alveolar septum. Importantly, however, feature identification can be confirmed by correlative 2d and 3D histology on the same section, as exemplified by Appendix 1—figure 3."}

{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T59","span":{"begin":343,"end":351},"obj":"Disease"},{"id":"T60","span":{"begin":419,"end":430},"obj":"Disease"},{"id":"T61","span":{"begin":808,"end":816},"obj":"Disease"}],"attributes":[{"id":"A59","pred":"mondo_id","subj":"T59","obj":"http://purl.obolibrary.org/obo/MONDO_0000831"},{"id":"A60","pred":"mondo_id","subj":"T60","obj":"http://purl.obolibrary.org/obo/MONDO_0006654"},{"id":"A61","pred":"mondo_id","subj":"T61","obj":"http://purl.obolibrary.org/obo/MONDO_0000831"}],"text":"An overview of different morphological features identified by conventional HE histology and virtual 3D histology is presented in Appendix 1—figure 2, while Appendix 1—figure 3 presents a direct comparison for the same slice. For this purpose, the sample was sectioned and stained after the PC-CT scan. Artery lumen, artery wall, erythrocytes, thrombus, alveolar septum, marcophage, hyaline membrane and black granules (anthracosis) are shown in Appendix 1—figure 2 for both imaging methods. Contrast of the hyaline membrane is homogenous in both modalities, facilitating idetification and segmentation. Erythrocytes are easily recognized by eye in the conventional histology image, due to the HE staining, but less well distinguished by virtual histology. This results in a difficult differentiation between thrombus and blood stasis as well as a difficult identification of blood capillaries in the alveolar septum. Importantly, however, feature identification can be confirmed by correlative 2d and 3D histology on the same section, as exemplified by Appendix 1—figure 3."}

{"project":"LitCovid-PD-CLO","denotations":[{"id":"T421","span":{"begin":185,"end":186},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T422","span":{"begin":302,"end":308},"obj":"http://purl.obolibrary.org/obo/UBERON_0001637"},{"id":"T423","span":{"begin":302,"end":308},"obj":"http://www.ebi.ac.uk/efo/EFO_0000814"},{"id":"T424","span":{"begin":316,"end":322},"obj":"http://purl.obolibrary.org/obo/UBERON_0001637"},{"id":"T425","span":{"begin":316,"end":322},"obj":"http://www.ebi.ac.uk/efo/EFO_0000814"},{"id":"T426","span":{"begin":329,"end":341},"obj":"http://purl.obolibrary.org/obo/CL_0000232"},{"id":"T427","span":{"begin":390,"end":398},"obj":"http://purl.obolibrary.org/obo/UBERON_0000158"},{"id":"T428","span":{"begin":515,"end":523},"obj":"http://purl.obolibrary.org/obo/UBERON_0000158"},{"id":"T429","span":{"begin":603,"end":615},"obj":"http://purl.obolibrary.org/obo/CL_0000232"},{"id":"T430","span":{"begin":641,"end":644},"obj":"http://www.ebi.ac.uk/efo/EFO_0000827"},{"id":"T431","span":{"begin":772,"end":773},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T432","span":{"begin":821,"end":826},"obj":"http://purl.obolibrary.org/obo/UBERON_0000178"},{"id":"T433","span":{"begin":821,"end":826},"obj":"http://www.ebi.ac.uk/efo/EFO_0000296"},{"id":"T434","span":{"begin":845,"end":846},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T435","span":{"begin":875,"end":880},"obj":"http://purl.obolibrary.org/obo/UBERON_0000178"},{"id":"T436","span":{"begin":875,"end":880},"obj":"http://www.ebi.ac.uk/efo/EFO_0000296"}],"text":"An overview of different morphological features identified by conventional HE histology and virtual 3D histology is presented in Appendix 1—figure 2, while Appendix 1—figure 3 presents a direct comparison for the same slice. For this purpose, the sample was sectioned and stained after the PC-CT scan. Artery lumen, artery wall, erythrocytes, thrombus, alveolar septum, marcophage, hyaline membrane and black granules (anthracosis) are shown in Appendix 1—figure 2 for both imaging methods. Contrast of the hyaline membrane is homogenous in both modalities, facilitating idetification and segmentation. Erythrocytes are easily recognized by eye in the conventional histology image, due to the HE staining, but less well distinguished by virtual histology. This results in a difficult differentiation between thrombus and blood stasis as well as a difficult identification of blood capillaries in the alveolar septum. Importantly, however, feature identification can be confirmed by correlative 2d and 3D histology on the same section, as exemplified by Appendix 1—figure 3."}

{"project":"LitCovid-PD-GO-BP","denotations":[{"id":"T53","span":{"begin":589,"end":601},"obj":"http://purl.obolibrary.org/obo/GO_0035282"}],"text":"An overview of different morphological features identified by conventional HE histology and virtual 3D histology is presented in Appendix 1—figure 2, while Appendix 1—figure 3 presents a direct comparison for the same slice. For this purpose, the sample was sectioned and stained after the PC-CT scan. Artery lumen, artery wall, erythrocytes, thrombus, alveolar septum, marcophage, hyaline membrane and black granules (anthracosis) are shown in Appendix 1—figure 2 for both imaging methods. Contrast of the hyaline membrane is homogenous in both modalities, facilitating idetification and segmentation. Erythrocytes are easily recognized by eye in the conventional histology image, due to the HE staining, but less well distinguished by virtual histology. This results in a difficult differentiation between thrombus and blood stasis as well as a difficult identification of blood capillaries in the alveolar septum. Importantly, however, feature identification can be confirmed by correlative 2d and 3D histology on the same section, as exemplified by Appendix 1—figure 3."}

{"project":"LitCovid-sentences","denotations":[{"id":"T388","span":{"begin":0,"end":224},"obj":"Sentence"},{"id":"T389","span":{"begin":225,"end":301},"obj":"Sentence"},{"id":"T390","span":{"begin":302,"end":490},"obj":"Sentence"},{"id":"T391","span":{"begin":491,"end":602},"obj":"Sentence"},{"id":"T392","span":{"begin":603,"end":755},"obj":"Sentence"},{"id":"T393","span":{"begin":756,"end":916},"obj":"Sentence"},{"id":"T394","span":{"begin":917,"end":1073},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"An overview of different morphological features identified by conventional HE histology and virtual 3D histology is presented in Appendix 1—figure 2, while Appendix 1—figure 3 presents a direct comparison for the same slice. For this purpose, the sample was sectioned and stained after the PC-CT scan. Artery lumen, artery wall, erythrocytes, thrombus, alveolar septum, marcophage, hyaline membrane and black granules (anthracosis) are shown in Appendix 1—figure 2 for both imaging methods. Contrast of the hyaline membrane is homogenous in both modalities, facilitating idetification and segmentation. Erythrocytes are easily recognized by eye in the conventional histology image, due to the HE staining, but less well distinguished by virtual histology. This results in a difficult differentiation between thrombus and blood stasis as well as a difficult identification of blood capillaries in the alveolar septum. Importantly, however, feature identification can be confirmed by correlative 2d and 3D histology on the same section, as exemplified by Appendix 1—figure 3."}

{"project":"LitCovid-PubTator","denotations":[{"id":"396","span":{"begin":693,"end":695},"obj":"Chemical"},{"id":"397","span":{"begin":343,"end":351},"obj":"Disease"},{"id":"398","span":{"begin":808,"end":816},"obj":"Disease"},{"id":"399","span":{"begin":290,"end":295},"obj":"CellLine"}],"attributes":[{"id":"A397","pred":"tao:has_database_id","subj":"397","obj":"MESH:D013927"},{"id":"A398","pred":"tao:has_database_id","subj":"398","obj":"MESH:D013927"},{"id":"A399","pred":"tao:has_database_id","subj":"399","obj":"CVCL:B848"}],"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":"An overview of different morphological features identified by conventional HE histology and virtual 3D histology is presented in Appendix 1—figure 2, while Appendix 1—figure 3 presents a direct comparison for the same slice. For this purpose, the sample was sectioned and stained after the PC-CT scan. Artery lumen, artery wall, erythrocytes, thrombus, alveolar septum, marcophage, hyaline membrane and black granules (anthracosis) are shown in Appendix 1—figure 2 for both imaging methods. Contrast of the hyaline membrane is homogenous in both modalities, facilitating idetification and segmentation. Erythrocytes are easily recognized by eye in the conventional histology image, due to the HE staining, but less well distinguished by virtual histology. This results in a difficult differentiation between thrombus and blood stasis as well as a difficult identification of blood capillaries in the alveolar septum. Importantly, however, feature identification can be confirmed by correlative 2d and 3D histology on the same section, as exemplified by Appendix 1—figure 3."}