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PMC:7640975 / 17407-19151 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T114 73-77 Body_part denotes mRNA http://purl.org/sig/ont/fma/fma67122
T115 196-199 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T116 241-246 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T117 297-300 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T118 394-397 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T119 633-638 Body_part denotes actin http://purl.org/sig/ont/fma/fma67843
T120 657-661 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T121 775-780 Body_part denotes actin http://purl.org/sig/ont/fma/fma67843
T122 1104-1109 Body_part denotes actin http://purl.org/sig/ont/fma/fma67843
T123 1576-1581 Body_part denotes actin http://purl.org/sig/ont/fma/fma67843
T124 1721-1726 Body_part denotes actin http://purl.org/sig/ont/fma/fma67843
T125 1737-1741 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T232 241-246 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T233 407-408 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T234 551-552 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T235 642-643 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T236 657-661 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T237 781-786 http://purl.obolibrary.org/obo/OGG_0000000002 denotes genes
T238 1222-1226 http://purl.obolibrary.org/obo/CLO_0001564 denotes a 20
T239 1222-1226 http://purl.obolibrary.org/obo/CLO_0050194 denotes a 20
T240 1443-1444 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T241 1737-1741 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T133 1367-1372 Chemical denotes water http://purl.obolibrary.org/obo/CHEBI_15377

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T32 46-61 http://purl.obolibrary.org/obo/GO_0006351 denotes transcriptional
T33 437-446 http://purl.obolibrary.org/obo/GO_0009058 denotes Synthesis

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T92 0-180 Sentence denotes To verify the DEPs identified by iTRAQ at the transcriptional level, the mRNA of two representative DEPs, the downregulated ANAPC7 and the upregulated IFIT1, were detected by qPCR.
T93 181-332 Sentence denotes Total cellular RNA of both PDCoV- and mock-infected IPEC-J2 cells was extracted using the TaKaRa MiniBEST universal RNA extraction kit (Dalian, China).
T94 333-513 Sentence denotes The first strand cDNA was synthesized using 2 μg of cellular RNA and with a RevertAid First Strand cDNA Synthesis Kit (Thermo Scientific) following the manufacturer’s instructions.
T95 514-662 Sentence denotes The qPCR assays were conducted using a TaKaRa SYBR Premix Ex Taq kit on an ABI 7500 real-time PCR machine along with β-actin as a housekeeping gene.
T96 663-867 Sentence denotes The primers used for the qPCR assay were designed based on the NCBI reference sequences for ANAPC7, IFIT1 and β-actin genes under GenBank accession numbers NM_016238, HQ679904 and NM_001101, respectively.
T97 868-943 Sentence denotes The information for the designed primers was as following: ANAPC7 (Forward:
T98 944-980 Sentence denotes 5′-CTTTGCTGAGGAACGCACTG-3′, Reverse:
T99 981-1025 Sentence denotes 5′-TCCATGTCGTCCACATCCTC-3′); IFIT1 (Forward:
T100 1026-1067 Sentence denotes 5′-GAAGATTTAACCCAACAAGAACATA-3′, Reverse:
T101 1068-1119 Sentence denotes 5′-CTTTCGATACGTAAGGTAATACAGC-3′); β-actin (Forward:
T102 1120-1156 Sentence denotes 5′-TCCCTGGAGAAGAGCTACGA-3′, Reverse:
T103 1157-1185 Sentence denotes 5′-AGCACTGTGTTGGCGTACAG-3′).
T104 1186-1395 Sentence denotes The qPCR assays were carried out in a 20-μL reaction volume comprised 10 μL of TaKaRa SYBR Premix Ex Taq, 0.4 μL of each forward and reverse primer (10 μM), 7.2 μL of nuclease-free water, and 2 μL of template.
T105 1396-1632 Sentence denotes The qPCR amplifications were carried out using a thermal profile with an initial step at 95 °C for 2 min, followed by 40 cycles of 95 °C for 10 s, 60 °C for 10 s (for ANAPC7 and β-actin) or 55 °C for 10 s (for IFIT1) and 72 °C for 40 s.
T106 1633-1744 Sentence denotes Fold-change values were calculated in term of the 2–ΔΔCt method and normalized to the β-actin reference gene.33

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
293 124-130 Gene denotes ANAPC7 Gene:51434
294 151-156 Gene denotes IFIT1 Gene:3434
295 631-638 Gene denotes β-actin Gene:728378
296 755-761 Gene denotes ANAPC7 Gene:51434
297 763-768 Gene denotes IFIT1 Gene:3434
298 773-780 Gene denotes β-actin Gene:728378
299 927-933 Gene denotes ANAPC7 Gene:51434
300 1010-1015 Gene denotes IFIT1 Gene:3434
301 1102-1109 Gene denotes β-actin Gene:728378
302 1563-1569 Gene denotes ANAPC7 Gene:51434
303 1574-1581 Gene denotes β-actin Gene:728378
304 1606-1611 Gene denotes IFIT1 Gene:3434
305 447-450 Gene denotes Kit Gene:396810
306 579-582 Gene denotes kit Gene:396810
307 312-315 Gene denotes kit Gene:396810
308 1719-1726 Gene denotes β-actin Gene:728378
309 1367-1372 Chemical denotes water MESH:D014867
310 224-232 Disease denotes infected MESH:D007239
311 233-240 CellLine denotes IPEC-J2 CVCL:2246