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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T255 22-40 Body_part denotes capillary networks http://purl.org/sig/ont/fma/fma45633
T256 22-31 Body_part denotes capillary http://purl.org/sig/ont/fma/fma63194
T257 172-189 Body_part denotes capillary network http://purl.org/sig/ont/fma/fma45633
T258 201-205 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T259 323-327 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T260 354-365 Body_part denotes macrophages http://purl.org/sig/ont/fma/fma63261
T261 370-381 Body_part denotes lymphocytes http://purl.org/sig/ont/fma/fma62863
T262 506-508 Body_part denotes AG http://purl.org/sig/ont/fma/fma61898
T263 585-596 Body_part denotes lymphocytes http://purl.org/sig/ont/fma/fma62863
T264 765-776 Body_part denotes lymphocytes http://purl.org/sig/ont/fma/fma62863
T265 873-884 Body_part denotes macrophages http://purl.org/sig/ont/fma/fma63261
T266 902-911 Body_part denotes capillary http://purl.org/sig/ont/fma/fma63194
T267 969-980 Body_part denotes lymphocytes http://purl.org/sig/ont/fma/fma62863
T268 1003-1014 Body_part denotes macrophages http://purl.org/sig/ont/fma/fma63261
T269 1109-1120 Body_part denotes lymphocytes http://purl.org/sig/ont/fma/fma62863
T270 1165-1176 Body_part denotes macrophages http://purl.org/sig/ont/fma/fma63261
T271 1199-1216 Body_part denotes endothelial cells http://purl.org/sig/ont/fma/fma66772
T272 1211-1216 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T273 1234-1245 Body_part denotes capillaries http://purl.org/sig/ont/fma/fma63194
T274 1258-1263 Body_part denotes blood http://purl.org/sig/ont/fma/fma9670
T275 1414-1425 Body_part denotes lymphocytes http://purl.org/sig/ont/fma/fma62863
T276 1447-1458 Body_part denotes lymphocytes http://purl.org/sig/ont/fma/fma62863
T277 1505-1516 Body_part denotes lymphocytes http://purl.org/sig/ont/fma/fma62863
T278 1528-1532 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195
T279 1533-1539 Body_part denotes tissue http://purl.org/sig/ont/fma/fma9637

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T249 22-31 Body_part denotes capillary http://purl.obolibrary.org/obo/UBERON_0001982
T250 172-181 Body_part denotes capillary http://purl.obolibrary.org/obo/UBERON_0001982
T251 902-911 Body_part denotes capillary http://purl.obolibrary.org/obo/UBERON_0001982
T252 1258-1263 Body_part denotes blood http://purl.obolibrary.org/obo/UBERON_0000178
T253 1528-1532 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048
T254 1533-1539 Body_part denotes tissue http://purl.obolibrary.org/obo/UBERON_0000479

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T398 8-17 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membranes
T399 154-163 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membranes
T400 201-211 http://purl.obolibrary.org/obo/CL_0000000 denotes cell types
T401 323-327 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T402 723-724 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T403 787-788 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T404 947-948 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T405 1199-1216 http://purl.obolibrary.org/obo/CL_0000115 denotes endothelial cells
T406 1258-1263 http://purl.obolibrary.org/obo/UBERON_0000178 denotes blood
T407 1258-1263 http://www.ebi.ac.uk/efo/EFO_0000296 denotes blood
T408 1340-1341 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T409 1528-1532 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T410 1528-1532 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung
T411 1540-1542 http://purl.obolibrary.org/obo/CLO_0052906 denotes cl

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T48 74-86 http://purl.obolibrary.org/obo/GO_0035282 denotes segmentation
T49 533-545 http://purl.obolibrary.org/obo/GO_0035282 denotes segmentation
T50 745-757 http://purl.obolibrary.org/obo/GO_0035282 denotes segmentation
T51 1398-1410 http://purl.obolibrary.org/obo/GO_0035282 denotes segmentation

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T330 0-138 Sentence denotes Hyaline membranes and capillary networks were extracted using semi-manual segmentation functions in Avizo (Thermo Fisher Scientific, USA).
T331 139-294 Sentence denotes Beside hyaline membranes and the capillary network, different cell types can be readily identified based on the 3D reconstructions of the electron density.
T332 295-405 Sentence denotes In particular, inflammatory cell subpopulations - that is, macrophages and lymphocytes - can be distinguished.
T333 406-519 Sentence denotes To this end, an automatic and parameter-controlled algorithm denoted as BlobFinder was used (arivis AG, Germany).
T334 520-663 Sentence denotes Based on its segmentation output, the amount and position of the lymphocytes in the 3D-reconstructions from parallel beam scans was calculated.
T335 664-736 Sentence denotes The algorithm is able to identify roundish structures with a given size.
T336 737-820 Sentence denotes For the segmentation of the lymphocytes, we chose a characteristic size of 6.5⁢μ⁢m.
T337 821-919 Sentence denotes The structures identified in this step also include macrophages and parts of the capillary system.
T338 920-1068 Sentence denotes For the unbinned datasets, a distinction between lymphocytes and the nuclei of the macrophages was made based on the difference in electron density.
T339 1069-1177 Sentence denotes In the tomographic reconstructions, the lymphocytes appear denser compared to the nuclei of the macrophages.
T340 1178-1318 Sentence denotes Further, nuclei from endothelial cells and parts of the capillaries filled with blood residues were excluded based on their elongated shape.
T341 1319-1384 Sentence denotes Only structures with a sphericity higher than 0.55 were included.
T342 1385-1562 Sentence denotes Based on the segmentation of lymphocytes, the total number of lymphocytes Nl was obtained and the mean concentration of lymphocytes within the lung tissue cl=Nl/V was estimated.