PMC:7299399 / 49393-53465
Annnotations
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T226 | 428-436 | Body_part | denotes | proteins | http://purl.org/sig/ont/fma/fma67257 |
| T227 | 444-447 | Body_part | denotes | HIV | http://purl.org/sig/ont/fma/fma278683 |
| T228 | 721-729 | Body_part | denotes | antibody | http://purl.org/sig/ont/fma/fma62871 |
| T229 | 1111-1119 | Body_part | denotes | antibody | http://purl.org/sig/ont/fma/fma62871 |
| T230 | 1145-1152 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T231 | 1453-1456 | Body_part | denotes | DNA | http://purl.org/sig/ont/fma/fma74412 |
| T232 | 1864-1869 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T233 | 1884-1889 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T234 | 1988-1992 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T235 | 2036-2048 | Body_part | denotes | cell surface | http://purl.org/sig/ont/fma/fma67653 |
| T236 | 2036-2040 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T237 | 2049-2057 | Body_part | denotes | proteins | http://purl.org/sig/ont/fma/fma67257 |
| T238 | 2345-2353 | Body_part | denotes | antibody | http://purl.org/sig/ont/fma/fma62871 |
| T239 | 2379-2386 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T240 | 2738-2741 | Body_part | denotes | DNA | http://purl.org/sig/ont/fma/fma74412 |
| T241 | 2855-2859 | Body_part | denotes | gene | http://purl.org/sig/ont/fma/fma74402 |
| T242 | 3170-3173 | Body_part | denotes | DNA | http://purl.org/sig/ont/fma/fma74412 |
| T243 | 3440-3443 | Body_part | denotes | eye | http://purl.org/sig/ont/fma/fma54448 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T54 | 3440-3443 | Body_part | denotes | eye | http://purl.obolibrary.org/obo/UBERON_0000970 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T150 | 31-39 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T151 | 361-369 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T152 | 451-460 | Disease | denotes | influenza | http://purl.obolibrary.org/obo/MONDO_0005812 |
| T153 | 1128-1136 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T154 | 1505-1513 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T155 | 1877-1883 | Disease | denotes | cancer | http://purl.obolibrary.org/obo/MONDO_0004992 |
| T156 | 2362-2370 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T157 | 2410-2418 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T158 | 3541-3549 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T159 | 3986-3994 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T441 | 80-85 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T442 | 373-374 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T443 | 386-390 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | test |
| T444 | 461-466 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T445 | 665-666 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T446 | 711-712 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T447 | 1040-1045 | http://purl.obolibrary.org/obo/UBERON_0007688 | denotes | field |
| T448 | 1081-1088 | http://purl.obolibrary.org/obo/OBI_0000968 | denotes | devices |
| T449 | 1100-1101 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T450 | 1356-1357 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T451 | 1539-1540 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T452 | 1864-1869 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T453 | 1884-1889 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T454 | 1961-1964 | http://purl.obolibrary.org/obo/CLO_0051582 | denotes | has |
| T455 | 1988-1992 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cell |
| T456 | 2001-2007 | http://purl.obolibrary.org/obo/OBI_0000968 | denotes | device |
| T457 | 2036-2040 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cell |
| T458 | 2174-2181 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | viruses |
| T459 | 2279-2280 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T460 | 2334-2335 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T461 | 2517-2520 | http://purl.obolibrary.org/obo/CLO_0054060 | denotes | 102 |
| T462 | 2674-2679 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T463 | 2855-2859 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | gene |
| T464 | 2923-2924 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T465 | 3121-3126 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T466 | 3377-3379 | http://purl.obolibrary.org/obo/CLO_0008192 | denotes | NP |
| T467 | 3399-3406 | http://purl.obolibrary.org/obo/OBI_0000968 | denotes | devices |
| T468 | 3440-3443 | http://www.ebi.ac.uk/efo/EFO_0000827 | denotes | eye |
| T469 | 3464-3465 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T470 | 3503-3510 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | testing |
| T471 | 3569-3572 | http://purl.obolibrary.org/obo/CLO_0001079 | denotes | 148 |
| T472 | 3666-3673 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | viruses |
| T473 | 3778-3783 | http://purl.obolibrary.org/obo/UBERON_0007688 | denotes | field |
| T474 | 3860-3861 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T28760 | 428-436 | Chemical | denotes | proteins | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T35823 | 541-543 | Chemical | denotes | Au | http://purl.obolibrary.org/obo/CHEBI_29287 |
| T57261 | 648-650 | Chemical | denotes | Au | http://purl.obolibrary.org/obo/CHEBI_29287 |
| T11589 | 699-706 | Chemical | denotes | antigen | http://purl.obolibrary.org/obo/CHEBI_59132 |
| T58909 | 1025-1033 | Chemical | denotes | graphene | http://purl.obolibrary.org/obo/CHEBI_36973 |
| T41827 | 1145-1152 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T30757 | 1254-1257 | Chemical | denotes | PPT | http://purl.obolibrary.org/obo/CHEBI_50305|http://purl.obolibrary.org/obo/CHEBI_53257|http://purl.obolibrary.org/obo/CHEBI_61453 |
| T87399 | 1411-1413 | Chemical | denotes | Au | http://purl.obolibrary.org/obo/CHEBI_29287 |
| T20958 | 1453-1456 | Chemical | denotes | DNA | http://purl.obolibrary.org/obo/CHEBI_16991 |
| T15223 | 1770-1779 | Chemical | denotes | molecules | http://purl.obolibrary.org/obo/CHEBI_25367 |
| T51146 | 1928-1930 | Chemical | denotes | Au | http://purl.obolibrary.org/obo/CHEBI_29287 |
| T33931 | 1942-1950 | Chemical | denotes | hydrogen | http://purl.obolibrary.org/obo/CHEBI_49637 |
| T46609 | 2049-2057 | Chemical | denotes | proteins | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T84915 | 2097-2099 | Chemical | denotes | Au | http://purl.obolibrary.org/obo/CHEBI_29287 |
| T20376 | 2214-2222 | Chemical | denotes | antigens | http://purl.obolibrary.org/obo/CHEBI_59132 |
| T79099 | 2307-2315 | Chemical | denotes | graphene | http://purl.obolibrary.org/obo/CHEBI_36973 |
| T83739 | 2379-2386 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T82394 | 2717-2721 | Chemical | denotes | Gold | http://purl.obolibrary.org/obo/CHEBI_29287 |
| T72683 | 2738-2741 | Chemical | denotes | DNA | http://purl.obolibrary.org/obo/CHEBI_16991 |
| T96293 | 2915-2918 | Chemical | denotes | EIS | http://purl.obolibrary.org/obo/CHEBI_73498 |
| T65120 | 2925-2927 | Chemical | denotes | Fe | http://purl.obolibrary.org/obo/CHEBI_18248 |
| T55802 | 2935-2937 | Chemical | denotes | Fe | http://purl.obolibrary.org/obo/CHEBI_18248 |
| T79719 | 2996-3008 | Chemical | denotes | nucleic acid | http://purl.obolibrary.org/obo/CHEBI_33696 |
| T43839 | 3004-3008 | Chemical | denotes | acid | http://purl.obolibrary.org/obo/CHEBI_37527 |
| T27 | 3143-3147 | Chemical | denotes | gold | http://purl.obolibrary.org/obo/CHEBI_29287|http://purl.obolibrary.org/obo/CHEBI_30050 |
| T62452 | 3148-3160 | Chemical | denotes | nanoparticle | http://purl.obolibrary.org/obo/CHEBI_50803 |
| T62071 | 3170-3173 | Chemical | denotes | DNA | http://purl.obolibrary.org/obo/CHEBI_16991 |
| T52875 | 3377-3379 | Chemical | denotes | NP | http://purl.obolibrary.org/obo/CHEBI_50803|http://purl.obolibrary.org/obo/CHEBI_53793|http://purl.obolibrary.org/obo/CHEBI_73425 |
LitCovid-PD-HP
| Id | Subject | Object | Predicate | Lexical cue | hp_id |
|---|---|---|---|---|---|
| T40 | 1877-1883 | Phenotype | denotes | cancer | http://purl.obolibrary.org/obo/HP_0002664 |
LitCovid-PD-GO-BP
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T64 | 188-209 | http://purl.obolibrary.org/obo/GO_0001171 | denotes | reverse transcription |
| T65 | 196-209 | http://purl.obolibrary.org/obo/GO_0006351 | denotes | transcription |
| T66 | 2161-2181 | http://purl.obolibrary.org/obo/GO_0009597 | denotes | detection of viruses |
| T67 | 3653-3673 | http://purl.obolibrary.org/obo/GO_0009597 | denotes | detection of viruses |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T191 | 0-41 | Sentence | denotes | Nanotechnology Tools to Detect SARS-CoV-2 |
| T192 | 42-372 | Sentence | denotes | Standard procedures for detecting the virus from nasopharyngeal and/or oropharyngeal swabs have been reviewed recently and are primarily based on reverse transcription polymerase chain reaction (RT-PCR).140 Here, we would like to mention some preliminary ideas on nanotechnology-based assays to monitor the presence of SARS-CoV-2. |
| T193 | 373-568 | Sentence | denotes | A simplified test and variants thereof to detect viral proteins (e.g., HIV or influenza virus) without the need for expensive equipment is based on the color change of Au NPs bound to antibodies. |
| T194 | 569-975 | Sentence | denotes | Similar to the enzyme-linked immunosorbent assay (ELISA) antibodies coupled to Au NPs will form a tertiary complex with the viral antigen and a capture antibody, thereby leading to the immobilization and agglomeration of NPs, which shifts the color from red to blue.32 Such simple, low-cost procedures could be of value in regions with low-resource medical infrastructure, as found in developing countries. |
| T195 | 976-1404 | Sentence | denotes | For rapid, on-site detection, the development of graphene-based field-effect transistor (FET) biosensing devices coupled to a specific antibody against SARS-CoV-2 spike protein was recently reported.141 Dual-functional plasmonic biosensors combining the plasmonic photothermal (PPT) effect and localized surface plasmon resonance were also recently developed and could be used as a cost-effective and fast alternative to RT-PCR. |
| T196 | 1405-1519 | Sentence | denotes | Here, Au nanomaterials coupled to complementary DNA sequences are used to sense hybridized cDNAs of SARS-CoV-2.142 |
| T197 | 1520-1840 | Sentence | denotes | Nanobiosensors are a valuable alternative to conventional laboratory equipments for clinical and environmental analyses.143 Usually, nanobiosensors combine the excellent electrical and optical properties of nanomaterials with biological or synthetic molecules used as receptors to detect selectively any kind of analyte. |
| T198 | 1841-2104 | Sentence | denotes | The detection of whole cells (e.g., cancer cells) using electrocatalytic properties of Au NPs toward hydrogen evolution has been reported.144 This cell-sensing device is based on the reaction of cell surface proteins with specific antibodies conjugated to Au NPs. |
| T199 | 2105-2248 | Sentence | denotes | The same detection technique can also be applied to the detection of viruses, taking advantages of the known antigens and available antibodies. |
| T200 | 2249-2464 | Sentence | denotes | Recently, as mentioned above, a FET sensor (modified with graphene sheets) that uses a specific antibody against SARS-CoV-2 spike protein was reported to detect SARS-CoV-2 in culture medium (limit of detection, LOD: |
| T201 | 2465-2509 | Sentence | denotes | 1.6 × 101 pfu/mL) and clinical samples (LOD: |
| T202 | 2510-2535 | Sentence | denotes | 2.42 × 102 copies/mL).141 |
| T203 | 2536-2716 | Sentence | denotes | Researchers have also demonstrated solid-phase isothermal recombinase polymerase amplification (RPA) for the detection of Citrus tristeza virus (CTV) for plant disease diagnostics. |
| T204 | 2717-3038 | Sentence | denotes | Gold NPs linked with DNA strands on top of an electrode were used to detect in situ amplified CTV (RPA assay for amplification of the P20 gene, 387 bp) using electrochemical impedance spectroscopy (EIS) in a Fe(CN6)4–/Fe(CN6)3– redox system, being able to detect 1000 fg μL–1 of nucleic acid quantitatively (Figure 4).145 |
| T205 | 3039-3236 | Sentence | denotes | Figure 4 Schematic of recombinase polymerase amplification-based Citrus tristeza virus detection using gold-nanoparticle-modified DNA strands and electrochemical impedance spectroscopic detection. |
| T206 | 3237-3262 | Sentence | denotes | Reprinted from ref (145). |
| T207 | 3263-3304 | Sentence | denotes | Copyright 2019 American Chemical Society. |
| T208 | 3305-3697 | Sentence | denotes | Paper/nanomaterial-based sensors,146,147 in general, and, particularly, NP-based lateral-flow devices that are observed with the naked eye or operated through a smartphone are now the most reported testing platforms for the analysis of COVID-19-related biomarkers.148 Nanopaper147 and nanochannels149 may also offer cost-efficient alternatives for detection of viruses and related biomarkers. |
| T209 | 3698-3764 | Sentence | denotes | Nanomaterials are already being used in theranostics applications. |
| T210 | 3765-4072 | Sentence | denotes | Although the field of nanomaterial applications in nanotheranostics is still in its infancy,55 a thoughtful review of the performance characteristics of known nanomaterials may open new avenues of investigation, even for COVID-19-related applications (for both diagnostic and therapies, including vaccines). |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 714 | 1139-1144 | Gene | denotes | spike | Gene:43740568 |
| 715 | 361-371 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 716 | 451-466 | Species | denotes | influenza virus | Tax:11309 |
| 717 | 1128-1138 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 718 | 1505-1515 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 719 | 1025-1033 | Chemical | denotes | graphene | MESH:D006108 |
| 728 | 2373-2378 | Gene | denotes | spike | Gene:43740568 |
| 729 | 2362-2372 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 730 | 2410-2420 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 731 | 1928-1930 | Chemical | denotes | Au | MESH:D006046 |
| 732 | 1942-1950 | Chemical | denotes | hydrogen | MESH:D006859 |
| 733 | 2097-2099 | Chemical | denotes | Au | MESH:D006046 |
| 734 | 2307-2315 | Chemical | denotes | graphene | MESH:D006108 |
| 735 | 1877-1883 | Disease | denotes | cancer | MESH:D009369 |
| 743 | 2851-2854 | Gene | denotes | P20 | Gene:51673 |
| 744 | 2988-2992 | Gene | denotes | μL–1 | Gene:79594 |
| 745 | 2658-2679 | Species | denotes | Citrus tristeza virus | Tax:12162 |
| 746 | 2681-2684 | Species | denotes | CTV | Tax:12162 |
| 747 | 2811-2814 | Species | denotes | CTV | Tax:12162 |
| 748 | 2928-2931 | CellLine | denotes | CN6 | CVCL:B396 |
| 749 | 2938-2941 | CellLine | denotes | CN6 | CVCL:B396 |
| 751 | 3105-3126 | Species | denotes | Citrus tristeza virus | Tax:12162 |
| 754 | 3541-3549 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 755 | 3986-3994 | Disease | denotes | COVID-19 | MESH:C000657245 |
2_test
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| 32519842-32223179-158559 | 245-248 | 32223179 | denotes | 140 |
| 32519842-27575283-158560 | 835-837 | 27575283 | denotes | 32 |
| 32519842-32293168-158561 | 1175-1178 | 32293168 | denotes | 141 |
| 32519842-32281785-158562 | 1516-1519 | 32281785 | denotes | 142 |
| 32519842-29770813-158563 | 1640-1643 | 29770813 | denotes | 143 |
| 32519842-22817451-158564 | 1979-1982 | 22817451 | denotes | 144 |
| 32519842-32293168-158565 | 2532-2535 | 32293168 | denotes | 141 |
| 32519842-30843387-158566 | 3035-3038 | 30843387 | denotes | 145 |
| 32519842-30843387-158567 | 3257-3260 | 30843387 | denotes | 145 |
| 32519842-23032871-158568 | 3338-3341 | 23032871 | denotes | 146 |
| 32519842-26043315-158569 | 3342-3345 | 26043315 | denotes | 147 |
| 32519842-32223179-158570 | 3569-3572 | 32223179 | denotes | 148 |
| 32519842-26043315-158571 | 3582-3585 | 26043315 | denotes | 147 |
| 32519842-22880686-158572 | 3602-3605 | 22880686 | denotes | 149 |
| 32519842-32031781-158573 | 3857-3859 | 32031781 | denotes | 55 |