PMC:7473770 / 51190-53339
Annnotations
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T319 | 75-79 | Body_part | denotes | lung | http://purl.org/sig/ont/fma/fma7195 |
| T320 | 80-86 | Body_part | denotes | tissue | http://purl.org/sig/ont/fma/fma9637 |
| T321 | 432-440 | Body_part | denotes | Appendix | http://purl.org/sig/ont/fma/fma14542 |
| T322 | 576-580 | Body_part | denotes | lung | http://purl.org/sig/ont/fma/fma7195 |
| T323 | 625-631 | Body_part | denotes | tissue | http://purl.org/sig/ont/fma/fma9637 |
| T324 | 875-881 | Body_part | denotes | tissue | http://purl.org/sig/ont/fma/fma9637 |
| T325 | 916-920 | Body_part | denotes | V, 1 | http://purl.org/sig/ont/fma/fma13444|http://purl.org/sig/ont/fma/fma68614 |
| T327 | 1208-1214 | Body_part | denotes | tissue | http://purl.org/sig/ont/fma/fma9637 |
| T328 | 1885-1889 | Body_part | denotes | lung | http://purl.org/sig/ont/fma/fma7195 |
| T329 | 1890-1896 | Body_part | denotes | tissue | http://purl.org/sig/ont/fma/fma9637 |
| T330 | 1988-1995 | Body_part | denotes | tissues | http://purl.org/sig/ont/fma/fma9637 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T278 | 75-79 | Body_part | denotes | lung | http://purl.obolibrary.org/obo/UBERON_0002048 |
| T279 | 80-86 | Body_part | denotes | tissue | http://purl.obolibrary.org/obo/UBERON_0000479 |
| T280 | 576-580 | Body_part | denotes | lung | http://purl.obolibrary.org/obo/UBERON_0002048 |
| T281 | 625-631 | Body_part | denotes | tissue | http://purl.obolibrary.org/obo/UBERON_0000479 |
| T282 | 875-881 | Body_part | denotes | tissue | http://purl.obolibrary.org/obo/UBERON_0000479 |
| T283 | 1208-1214 | Body_part | denotes | tissue | http://purl.obolibrary.org/obo/UBERON_0000479 |
| T284 | 1885-1889 | Body_part | denotes | lung | http://purl.obolibrary.org/obo/UBERON_0002048 |
| T285 | 1890-1896 | Body_part | denotes | tissue | http://purl.obolibrary.org/obo/UBERON_0000479 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T449 | 75-79 | http://purl.obolibrary.org/obo/UBERON_0002048 | denotes | lung |
| T450 | 75-79 | http://www.ebi.ac.uk/efo/EFO_0000934 | denotes | lung |
| T451 | 90-91 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T452 | 462-463 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T453 | 509-510 | http://purl.obolibrary.org/obo/CLO_0001021 | denotes | b |
| T454 | 576-580 | http://purl.obolibrary.org/obo/UBERON_0002048 | denotes | lung |
| T455 | 576-580 | http://www.ebi.ac.uk/efo/EFO_0000934 | denotes | lung |
| T456 | 867-874 | http://purl.obolibrary.org/obo/CLO_0007225 | denotes | labeled |
| T457 | 1575-1576 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T458 | 1751-1752 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T459 | 1885-1889 | http://purl.obolibrary.org/obo/UBERON_0002048 | denotes | lung |
| T460 | 1885-1889 | http://www.ebi.ac.uk/efo/EFO_0000934 | denotes | lung |
| T461 | 2032-2036 | http://purl.obolibrary.org/obo/CLO_0001185 | denotes | 2018 |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T1 | 909-911 | Chemical | denotes | IV | http://purl.obolibrary.org/obo/CHEBI_74327 |
| T2 | 1059-1061 | Chemical | denotes | IV | http://purl.obolibrary.org/obo/CHEBI_74327 |
| T3 | 1234-1236 | Chemical | denotes | II | http://purl.obolibrary.org/obo/CHEBI_74067 |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T428 | 0-9 | Sentence | denotes | Controls: |
| T429 | 10-100 | Sentence | denotes | The imaging workflow was also applied to hydrated and/or healthy lung tissue as a control. |
| T430 | 101-165 | Sentence | denotes | First, overview scans covering the entire samples were recorded. |
| T431 | 166-348 | Sentence | denotes | Then, hydrated 1 mm biopsy punches (two for CTRLI, one for CTRLII and CTRLIII, where CTRLII and CTRLIII are from the same patient) were recorded in (1 - parallel beam) configuration. |
| T432 | 349-431 | Sentence | denotes | Biopsy punches from CTRLII and CTRLIII were also examined in (2 - cone beam) mode. |
| T433 | 432-632 | Sentence | denotes | Appendix 3—figure 1 presents (a) the rendering of the hydrated control, and (b,c) virtual slices through the reconstruction volume, showing the lung parenchymal architecture in healthy control tissue. |
| T434 | 633-652 | Sentence | denotes | UA-stained samples: |
| T435 | 653-757 | Sentence | denotes | For all Covid-19 patients, autopsies were also treated by UA-staining in order to increase the contrast. |
| T436 | 758-854 | Sentence | denotes | Stitched overview scans in (1 - parallel beam) configuration were recorded, similar to Figure 3. |
| T437 | 855-995 | Sentence | denotes | From the UA-labeled tissue blocks of patients I, III, IV and V, 1 mm, biopsy punches were than scanned in the same configuration (Figure 4). |
| T438 | 996-1149 | Sentence | denotes | Using the (2 - cone beam) setup, these samples from I, III and IV were imaged at 8.0keV x-rays, while V was examined at 13.8keV, as shown for Figure 5. |
| T439 | 1150-1184 | Sentence | denotes | Variation of propagation distance: |
| T440 | 1185-1372 | Sentence | denotes | Scans of the unstained tissue block from patient II were recorded at different propagation distances (z12=50, 100 and 125keV) and different x-ray energies (13.3, 13.8, 14.3 and 14.8 keV). |
| T441 | 1373-1474 | Sentence | denotes | In cone-beam configuration, the unstained biopsy punch from patient I was scanned at 13.8keV x-rays. |
| T442 | 1475-1493 | Sentence | denotes | Compact μCT scans: |
| T443 | 1494-1852 | Sentence | denotes | Prior to the synchrotron experiment, some of the samples have been examined with a laboratory phase-contrast μCT-setup in large mm2-sized FOV-configuration (Liquid metal jet source, Kα=9.5keV, pxeff=5μm, z12=1.7m, 1200 projections of 1 s exposure time with a flat panel CMOS detector with 150μm Gadox-scintillator, PerkinElmer, USA) (Bartels et al., 2013). |
| T444 | 1853-2062 | Sentence | denotes | Metal-staining (here UA) of the lung tissue helped to achieve sufficient contrast, similar to previous μCT-studies of other biological tissues (Müller et al., 2017; Busse et al., 2018; De Clercq et al., 2019). |
| T445 | 2063-2149 | Sentence | denotes | The resulting overview scans could also be correlated well with histological sections. |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 412 | 288-295 | Species | denotes | patient | Tax:9606 |
| 413 | 670-678 | Species | denotes | patients | Tax:9606 |
| 414 | 892-900 | Species | denotes | patients | Tax:9606 |
| 415 | 1226-1233 | Species | denotes | patient | Tax:9606 |
| 416 | 1433-1440 | Species | denotes | patient | Tax:9606 |
| 417 | 1658-1663 | Chemical | denotes | metal | MESH:D008670 |
| 418 | 1853-1858 | Chemical | denotes | Metal | MESH:D008670 |
| 419 | 661-669 | Disease | denotes | Covid-19 | MESH:C000657245 |