PMC:7252096 / 123699-125486 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T224 108-112 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T225 153-158 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T226 256-267 Body_part denotes pneumocytes http://purl.org/sig/ont/fma/fma62499
T227 392-397 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T228 601-606 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T229 660-665 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T230 712-717 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T231 893-898 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T232 952-957 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T233 1092-1097 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T234 1331-1336 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T235 1411-1416 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T236 1493-1498 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T237 1678-1682 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T323 108-112 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T324 153-158 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T325 162-163 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T326 234-239 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T327 240-247 http://purl.obolibrary.org/obo/NCBITaxon_9443 denotes primate
T328 377-378 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T329 392-397 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T330 474-475 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T331 601-606 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T332 645-646 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T333 660-665 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T334 712-717 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T335 893-898 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T336 911-912 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T337 924-925 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T338 952-973 http://purl.obolibrary.org/obo/UBERON_0034922 denotes cells in that cluster
T339 1092-1097 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T340 1101-1102 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T341 1218-1219 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T342 1331-1336 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T343 1411-1416 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T344 1449-1451 http://purl.obolibrary.org/obo/CLO_0008935 denotes S9
T345 1493-1498 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T346 1502-1503 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T347 1678-1682 http://purl.obolibrary.org/obo/GO_0005623 denotes cell

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T17094 253-255 Chemical denotes II http://purl.obolibrary.org/obo/CHEBI_74067

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T865 0-122 Sentence denotes Finally, we investigated how observed differences in ACE2+ proportions across clusters might be affected by cell sampling.
T866 123-545 Sentence denotes Using the proportion of ACE2+ cells in a “typical” cluster annotated as being ACE2 positive (i.e., 6.8% in non-human primate type II pneumocytes, Figure 1), we calculated the cluster sizes needed to be confident that the probability of observing zero to a few positive cells is unlikely to have arisen by random chance (probabilities calculated under a negative binomial distribution with parameter p = 0.068, Figure S6E).
T867 546-731 Sentence denotes We found that as cluster sizes approach and exceed 100 cells, the probability of observing zero to a few positive cells rapidly approaches zero, if we assume 6.8% of cells are positive.
T868 732-1349 Sentence denotes Further, to examine our confidence in estimating an approximate upper bound (ignoring the impact of protocol inefficiencies discussed above) for the fraction of cells positive in a cluster as a function of the number of cells in that cluster, we also calculated the probability of observing zero (and its complement, probability of observing at least 1) ACE2+ cells as a function of cluster size across true positive proportions ranging from 0.1% to 10% (probabilities calculated under a negative binomial distribution with parameter p = 0.001 to 0.1, representing hypothetical proportions of ACE2+ cells Figure S6F).
T869 1350-1590 Sentence denotes Given our typical cluster sizes (on the order of hundreds of cells, exact values provided in Table S9), we find that for us to observe 0 ACE2+ cells in a cluster due to sampling artifacts, the fraction of true positives must be ∼1% or less.
T870 1591-1787 Sentence denotes Thus, these complementary approaches demonstrate that our observed variations in ACE2+ cell proportions across clusters likely reflect underlying biological differences, rather than random chance.

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
2902 53-57 Gene denotes ACE2 Gene:59272
2903 147-151 Gene denotes ACE2 Gene:59272
2904 201-205 Gene denotes ACE2 Gene:59272
2905 1086-1090 Gene denotes ACE2 Gene:59272
2906 1325-1329 Gene denotes ACE2 Gene:59272
2907 1487-1491 Gene denotes ACE2 Gene:59272
2908 1672-1676 Gene denotes ACE2 Gene:59272
2909 234-239 Species denotes human Tax:9606