PMC:7574920 / 21720-23152
Annnotations
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T104 | 727-731 | Body_part | denotes | axis | http://purl.org/sig/ont/fma/fma12520 |
| T105 | 749-753 | Body_part | denotes | axis | http://purl.org/sig/ont/fma/fma12520 |
| T106 | 857-860 | Body_part | denotes | RNA | http://purl.org/sig/ont/fma/fma67095 |
| T107 | 1297-1301 | Body_part | denotes | axis | http://purl.org/sig/ont/fma/fma12520 |
| T108 | 1375-1379 | Body_part | denotes | axis | http://purl.org/sig/ont/fma/fma12520 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T66 | 846-854 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T205 | 72-73 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T206 | 114-115 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T207 | 209-211 | http://purl.obolibrary.org/obo/CLO_0007653 | denotes | ME |
| T208 | 225-226 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T209 | 568-569 | http://purl.obolibrary.org/obo/CLO_0001021 | denotes | B |
| T210 | 791-792 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T211 | 1100-1101 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T212 | 1429-1430 | http://purl.obolibrary.org/obo/CLO_0001021 | denotes | B |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 209 | 846-856 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
LitCovid-PD-GO-BP
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T128 | 26-28 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | RT |
| T129 | 266-268 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | RT |
| T130 | 691-693 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | RT |
| T131 | 738-740 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | RT |
| T132 | 1069-1071 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | RT |
| T133 | 1272-1274 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | RT |
| T134 | 1354-1356 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | RT |
LitCovid-PD-GlycoEpitope
| Id | Subject | Object | Predicate | Lexical cue | glyco_epitope_db_id |
|---|---|---|---|---|---|
| T3 | 242-245 | GlycoEpitope | denotes | Tn5 | http://www.glycoepitope.jp/epitopes/AN0083 |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T149 | 71-113 | Sentence | denotes | (A) Workflow for LAMP-sequencing is shown. |
| T150 | 114-292 | Sentence | denotes | A plate of 96 barcoded (BC) adapters with unique molecular identifiers (UMIs) and mosaic ends (ME) was used as a seed plate for Tn5 tagmentation of all RT-LAMP reaction products. |
| T151 | 293-409 | Sentence | denotes | After tagmentation, each plate was pooled individually, followed by removal of excess adapters using size selection. |
| T152 | 410-755 | Sentence | denotes | Each pool of tagmentation products was then amplified using primers with plate-specific barcodes, and the PCR products were analyzed by Illumina sequencing. (B) Comparison of the outcome of the three assays: LAMP-sequencing (purple, negative; green, positive; gray, too few UMIs), RT-LAMP (after 30-min incubation, y axis), and RT-qPCR (x axis). |
| T153 | 756-787 | Sentence | denotes | Each dot represents one sample. |
| T154 | 788-947 | Sentence | denotes | If a substantial number of the sequencing reads contained SARS-CoV-2 RNA, the sample was called positive (green), if not, then it was called negative (purple). |
| T155 | 948-1250 | Sentence | denotes | For some samples (gray), no LAMP-sequencing call could be made due to too few UMIs. (See also Table 2). (C) Although the RT-LAMP assay was scored after a 30-min incubation at 65°C (left), LAMP-sequencing was performed only after the samples had been incubated for another 10 min (15 min for one plate). |
| T156 | 1251-1432 | Sentence | denotes | This panel shows the RT-LAMP assay outcome (y axis) scored after the full incubation time, whereas the RT-qPCR CT values (x axis) and LAMP-sequencing results are the same as in (B). |