PMC:7473770 / 35654-36533 JSONTXT

{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T236","span":{"begin":267,"end":273},"obj":"Body_part"},{"id":"T237","span":{"begin":369,"end":375},"obj":"Body_part"},{"id":"T238","span":{"begin":518,"end":524},"obj":"Body_part"},{"id":"T239","span":{"begin":704,"end":710},"obj":"Body_part"}],"attributes":[{"id":"A236","pred":"fma_id","subj":"T236","obj":"http://purl.org/sig/ont/fma/fma9637"},{"id":"A237","pred":"fma_id","subj":"T237","obj":"http://purl.org/sig/ont/fma/fma9637"},{"id":"A238","pred":"fma_id","subj":"T238","obj":"http://purl.org/sig/ont/fma/fma9637"},{"id":"A239","pred":"fma_id","subj":"T239","obj":"http://purl.org/sig/ont/fma/fma9637"}],"text":"Both configurations were implemented side-by-side, using the same fully-motorized tomography stage and mounting, as detailed in Frohn et al., 2020. A sketch of both configurations is shown in Figure 1 . First, parallel-beam overview scans were acquired of the entire tissue volume embedded in paraffin. To this end a 3.5 mm biopsy punch was taken from the multi-sample tissue block, and then scanned in a stitching-mode yielding a large overview reconstruction, composed of up to 20 individual tomograms (depending on tissue size). To increase image quality and avoid artifacts related to region-of-interest (ROI) or local tomography, a selected 1 mm punch was then taken from the already scanned larger tissue cylinder, and re-scanned, first in the parallel- and then the cone-beam geometry. Experimental and acquisition parameters used for the data shown are listed in Table 3."}

{"project":"LitCovid-PD-UBERON","denotations":[{"id":"T236","span":{"begin":267,"end":273},"obj":"Body_part"},{"id":"T237","span":{"begin":369,"end":375},"obj":"Body_part"},{"id":"T238","span":{"begin":518,"end":524},"obj":"Body_part"},{"id":"T239","span":{"begin":704,"end":710},"obj":"Body_part"}],"attributes":[{"id":"A236","pred":"uberon_id","subj":"T236","obj":"http://purl.obolibrary.org/obo/UBERON_0000479"},{"id":"A237","pred":"uberon_id","subj":"T237","obj":"http://purl.obolibrary.org/obo/UBERON_0000479"},{"id":"A238","pred":"uberon_id","subj":"T238","obj":"http://purl.obolibrary.org/obo/UBERON_0000479"},{"id":"A239","pred":"uberon_id","subj":"T239","obj":"http://purl.obolibrary.org/obo/UBERON_0000479"}],"text":"Both configurations were implemented side-by-side, using the same fully-motorized tomography stage and mounting, as detailed in Frohn et al., 2020. A sketch of both configurations is shown in Figure 1 . First, parallel-beam overview scans were acquired of the entire tissue volume embedded in paraffin. To this end a 3.5 mm biopsy punch was taken from the multi-sample tissue block, and then scanned in a stitching-mode yielding a large overview reconstruction, composed of up to 20 individual tomograms (depending on tissue size). To increase image quality and avoid artifacts related to region-of-interest (ROI) or local tomography, a selected 1 mm punch was then taken from the already scanned larger tissue cylinder, and re-scanned, first in the parallel- and then the cone-beam geometry. Experimental and acquisition parameters used for the data shown are listed in Table 3."}

{"project":"LitCovid-PD-CLO","denotations":[{"id":"T361","span":{"begin":148,"end":149},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T362","span":{"begin":315,"end":316},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T363","span":{"begin":403,"end":404},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T364","span":{"begin":429,"end":430},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T365","span":{"begin":635,"end":636},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"}],"text":"Both configurations were implemented side-by-side, using the same fully-motorized tomography stage and mounting, as detailed in Frohn et al., 2020. A sketch of both configurations is shown in Figure 1 . First, parallel-beam overview scans were acquired of the entire tissue volume embedded in paraffin. To this end a 3.5 mm biopsy punch was taken from the multi-sample tissue block, and then scanned in a stitching-mode yielding a large overview reconstruction, composed of up to 20 individual tomograms (depending on tissue size). To increase image quality and avoid artifacts related to region-of-interest (ROI) or local tomography, a selected 1 mm punch was then taken from the already scanned larger tissue cylinder, and re-scanned, first in the parallel- and then the cone-beam geometry. Experimental and acquisition parameters used for the data shown are listed in Table 3."}

{"project":"LitCovid-sentences","denotations":[{"id":"T277","span":{"begin":0,"end":147},"obj":"Sentence"},{"id":"T278","span":{"begin":148,"end":202},"obj":"Sentence"},{"id":"T279","span":{"begin":203,"end":302},"obj":"Sentence"},{"id":"T280","span":{"begin":303,"end":531},"obj":"Sentence"},{"id":"T281","span":{"begin":532,"end":792},"obj":"Sentence"},{"id":"T282","span":{"begin":793,"end":879},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"Both configurations were implemented side-by-side, using the same fully-motorized tomography stage and mounting, as detailed in Frohn et al., 2020. A sketch of both configurations is shown in Figure 1 . First, parallel-beam overview scans were acquired of the entire tissue volume embedded in paraffin. To this end a 3.5 mm biopsy punch was taken from the multi-sample tissue block, and then scanned in a stitching-mode yielding a large overview reconstruction, composed of up to 20 individual tomograms (depending on tissue size). To increase image quality and avoid artifacts related to region-of-interest (ROI) or local tomography, a selected 1 mm punch was then taken from the already scanned larger tissue cylinder, and re-scanned, first in the parallel- and then the cone-beam geometry. Experimental and acquisition parameters used for the data shown are listed in Table 3."}

{"project":"LitCovid-PubTator","denotations":[{"id":"313","span":{"begin":293,"end":301},"obj":"Chemical"}],"attributes":[{"id":"A313","pred":"tao:has_database_id","subj":"313","obj":"MESH:D010232"}],"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":"Both configurations were implemented side-by-side, using the same fully-motorized tomography stage and mounting, as detailed in Frohn et al., 2020. A sketch of both configurations is shown in Figure 1 . First, parallel-beam overview scans were acquired of the entire tissue volume embedded in paraffin. To this end a 3.5 mm biopsy punch was taken from the multi-sample tissue block, and then scanned in a stitching-mode yielding a large overview reconstruction, composed of up to 20 individual tomograms (depending on tissue size). To increase image quality and avoid artifacts related to region-of-interest (ROI) or local tomography, a selected 1 mm punch was then taken from the already scanned larger tissue cylinder, and re-scanned, first in the parallel- and then the cone-beam geometry. Experimental and acquisition parameters used for the data shown are listed in Table 3."}