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PMC:7574920 / 20540-21711 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T102 571-574 Body_part denotes DNA http://purl.org/sig/ont/fma/fma74412
T103 1114-1117 Body_part denotes DNA http://purl.org/sig/ont/fma/fma74412

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T202 114-115 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T203 635-636 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T204 883-884 http://purl.obolibrary.org/obo/CLO_0001020 denotes A

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T57 571-574 Chemical denotes DNA http://purl.obolibrary.org/obo/CHEBI_16991
T58 1114-1117 Chemical denotes DNA http://purl.obolibrary.org/obo/CHEBI_16991

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T122 44-46 http://purl.obolibrary.org/obo/GO_0001171 denotes RT
T123 222-224 http://purl.obolibrary.org/obo/GO_0001171 denotes RT
T124 317-319 http://purl.obolibrary.org/obo/GO_0001171 denotes RT
T125 385-387 http://purl.obolibrary.org/obo/GO_0001171 denotes RT
T126 697-699 http://purl.obolibrary.org/obo/GO_0001171 denotes RT
T127 976-978 http://purl.obolibrary.org/obo/GO_0001171 denotes RT

LitCovid-PD-GlycoEpitope

Id Subject Object Predicate Lexical cue glyco_epitope_db_id
T2 449-452 GlycoEpitope denotes Tn5 http://www.glycoepitope.jp/epitopes/AN0083

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T139 0-149 Sentence denotes Our results indicated that the colorimetric RT-LAMP assay enabled robust identification of positive samples after a 25- to 30-min incubation at 65°C.
T140 150-283 Sentence denotes Validation of positive results, however, required confirmation that the RT-LAMP reaction led to the amplification of viral sequences.
T141 284-420 Sentence denotes To analyze the sequences of many RT-LAMP reaction products, we established multiplexed sequencing of RT-LAMP products (LAMP-sequencing).
T142 421-504 Sentence denotes LAMP-sequencing is based on Tn5 transposase tagmentation (17) and sample barcoding.
T143 505-626 Sentence denotes Tagmentation enables fragmentation and direct adapter ligation of DNA samples for analysis by next-generation sequencing.
T144 627-745 Sentence denotes We used a set of 96 barcoded adapters for tagmentation to barcode the RT-LAMP reaction products in each 96-well plate.
T145 746-882 Sentence denotes After tagmentation, all barcoded fragments from each plate were pooled and size-selected by bead purification to remove excess adapters.
T146 883-994 Sentence denotes A second set of barcoded primers, one per plate-pool, was then used to amplify the tagmented RT-LAMP fragments.
T147 995-1171 Sentence denotes Last, all amplified pools were combined for analysis using one next-generation sequencing run where the origin of each DNA fragment was specified by the two barcodes (Fig. 4A).