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PMC:7519301 / 40680-42102 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T118 11-15 Body_part denotes Gene http://purl.org/sig/ont/fma/fma74402
T119 236-240 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T120 683-687 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T296 11-15 http://purl.obolibrary.org/obo/OGG_0000000002 denotes Gene
T297 236-240 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T298 683-687 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T299 954-955 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T300 986-987 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T301 1063-1064 http://purl.obolibrary.org/obo/CLO_0001020 denotes a

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
504 269-272 Gene denotes GST
505 931-946 Species denotes other sequences Tax:28384

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T250 0-52 Sentence denotes Global and Gene-Specific Population Differentiation.
T251 53-141 Sentence denotes Alignments subsampled at 10% 100 times were used to estimate population differentiation.
T252 142-273 Sentence denotes The genetic differentiation of subpopulations within sampled sequences was calculated on each gene separately using Nei’s (30) GST.
T253 274-601 Sentence denotes Because comparisons between subpopulations of different sizes can bias genetic differentiation estimates (60), genetic differentiation was also calculated using Jost’s (31) D, which accounts for differences in genetic heterogeneity between subpopulations and is intended to correct for biases in the size of the subpopulations.
T254 602-673 Sentence denotes Both statistics were computed with the mmod package (32) in R (v3.6.1).
T255 674-776 Sentence denotes For each gene, statistics were calculated over 100 bootstrapped samples for each subsampled alignment.
T256 777-817 Sentence denotes Subpopulations were defined in two ways.
T257 818-977 Sentence denotes First, sequences originating from the initial outbreak in the Hubei province (30 sequences) were compared to all other sequences within a subsampled alignment.
T258 978-1173 Sentence denotes Second, a 1-wk sliding window was designed to compare all sequences sampled prior to a collection date (subpopulation 1) to all sequences sampled after the same collection date (subpopulation 2).
T259 1174-1422 Sentence denotes The first collection date for subpopulation 1 was February 14, 2020, the week after the last sequence from the Hubei province was sampled (February 8, 2020), The window was designed to terminate when <30 sequences were available in subpopulation 2.

2_test

Id Subject Object Predicate Lexical cue
32868447-4519626-132542427 265-267 4519626 denotes 30
32868447-21375616-132542428 380-382 21375616 denotes 60
32868447-19238703-132542429 443-445 19238703 denotes 31
32868447-22883857-132542430 655-657 22883857 denotes 32