> top > docs > PMC:7253482 > spans > 34380-35483 > annotations

PMC:7253482 / 34380-35483 JSONTXT

Annnotations TAB JSON ListView MergeView

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
1015 145-153 Species denotes SARS-CoV Tax:694009

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T103 145-153 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T104 145-149 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T243 537-538 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T244 606-607 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T245 608-610 http://purl.obolibrary.org/obo/CLO_0037127 denotes K2
T246 846-849 http://purl.obolibrary.org/obo/CLO_0001320 denotes 381
T247 846-849 http://purl.obolibrary.org/obo/CLO_0001321 denotes 381
T248 885-886 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T249 937-938 http://purl.obolibrary.org/obo/CLO_0001020 denotes A

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T366 21-23 Chemical denotes EM http://purl.obolibrary.org/obo/CHEBI_73507
T367 543-548 Chemical denotes Titan http://purl.obolibrary.org/obo/CHEBI_33341

LitCovid-sample-MedDRA

Id Subject Object Predicate Lexical cue meddra_id
T14 692-700 http://purl.bioontology.org/ontology/MEDDRA/10022891 denotes weighted http://purl.bioontology.org/ontology/MEDDRA/10047890

LitCovid-sample-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T254 543-548 Chemical denotes Titan http://purl.obolibrary.org/obo/CHEBI_33341

LitCovid-sample-PD-NCBITaxon

Id Subject Object Predicate Lexical cue ncbi_taxonomy_id
T215 145-153 Species denotes SARS-CoV NCBItxid:694009
T216 145-149 Species denotes SARS NCBItxid:694009
T217 563-569 Species denotes Fisher NCBItxid:76720

LitCovid-sample-sentences

Id Subject Object Predicate Lexical cue
T207 0-131 Sentence denotes Single-particle cryo-EM data analysis of BG505 SOSIP.664 in complex with RM20A3 Fab was reproduced directly from Berndsen et al.51.
T208 132-358 Sentence denotes Data for the SARS-CoV S 2P ectodomain was previously published52 and the final particle stack and alignment parameters from the published reconstruction were used for 3D variability analysis in the SPARX software package76,77.
T209 359-493 Sentence denotes All metadata for these reconstructions along with raw data images and FSC resolution curves can be found in the original publications.
T210 494-651 Sentence denotes In summary, both datasets were acquired on a FEI Titan Krios (Thermo Fisher) operating at 300 KeV equipped with a K2 Summit Direct Electron Detector (Gatan).
T211 652-764 Sentence denotes Movie micrographs were aligned and dose weighted with MotionCor278 and CTF estimation was performed with Gctf79.
T212 765-850 Sentence denotes Single-particle data processing was performed using CryoSparc v.280 and Relion v.381.
T213 851-936 Sentence denotes Maps were low-pass filtered using a Gaussian kernel and visualized in UCSF chimera82.
T214 937-1103 Sentence denotes A detailed description of the auto-thresholding method used to set the isosurface value for visualisation of low-pass filtered maps can be found in Berndsen et al.51.

LitCovid-sample-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T98 145-153 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T99 145-149 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-sample-Pubtator

Id Subject Object Predicate Lexical cue pubann:denotes
1015 145-153 Species denotes SARS-CoV Tax:694009

LitCovid-sample-UniProt

Id Subject Object Predicate Lexical cue uniprot_id
T6450 723-726 Protein denotes CTF https://www.uniprot.org/uniprot/Q9Y6R8|https://www.uniprot.org/uniprot/Q9UPK1|https://www.uniprot.org/uniprot/Q9UPK0|https://www.uniprot.org/uniprot/Q9UPJ9|https://www.uniprot.org/uniprot/Q9UPJ3|https://www.uniprot.org/uniprot/Q9UPH1|https://www.uniprot.org/uniprot/Q9R1G5|https://www.uniprot.org/uniprot/Q9R1G4|https://www.uniprot.org/uniprot/Q9R1G3|https://www.uniprot.org/uniprot/Q9R1G2|https://www.uniprot.org/uniprot/Q9P2A9|https://www.uniprot.org/uniprot/Q9H3X9|https://www.uniprot.org/uniprot/Q99MA8|https://www.uniprot.org/uniprot/Q99MA7|https://www.uniprot.org/uniprot/Q99MA6|https://www.uniprot.org/uniprot/Q99MA5|https://www.uniprot.org/uniprot/Q99MA4|https://www.uniprot.org/uniprot/Q99MA3|https://www.uniprot.org/uniprot/Q99L78|https://www.uniprot.org/uniprot/Q96J45|https://www.uniprot.org/uniprot/Q90932|https://www.uniprot.org/uniprot/Q8VBT5|https://www.uniprot.org/uniprot/Q8TA97|https://www.uniprot.org/uniprot/Q6ZNF9|https://www.uniprot.org/uniprot/Q64192|https://www.uniprot.org/uniprot/Q63HM5|https://www.uniprot.org/uniprot/Q63782|https://www.uniprot.org/uniprot/Q61960|https://www.uniprot.org/uniprot/Q5VW29|https://www.uniprot.org/uniprot/Q5U094|https://www.uniprot.org/uniprot/Q54A99|https://www.uniprot.org/uniprot/Q3UUZ2|https://www.uniprot.org/uniprot/Q3U2I9|https://www.uniprot.org/uniprot/Q14938|https://www.uniprot.org/uniprot/Q14932|https://www.uniprot.org/uniprot/Q13052|https://www.uniprot.org/uniprot/Q13050|https://www.uniprot.org/uniprot/Q12859|https://www.uniprot.org/uniprot/Q12858|https://www.uniprot.org/uniprot/Q12857|https://www.uniprot.org/uniprot/Q0VG09|https://www.uniprot.org/uniprot/Q02780|https://www.uniprot.org/uniprot/P97863|https://www.uniprot.org/uniprot/P70258|https://www.uniprot.org/uniprot/P70257|https://www.uniprot.org/uniprot/P70256|https://www.uniprot.org/uniprot/P70255|https://www.uniprot.org/uniprot/P70254|https://www.uniprot.org/uniprot/P70253|https://www.uniprot.org/uniprot/P70252|https://www.uniprot.org/uniprot/P70251|https://www.uniprot.org/uniprot/P70250|https://www.uniprot.org/uniprot/P21999|https://www.uniprot.org/uniprot/P17926|https://www.uniprot.org/uniprot/P17925|https://www.uniprot.org/uniprot/P17924|https://www.uniprot.org/uniprot/P17923|https://www.uniprot.org/uniprot/P14057|https://www.uniprot.org/uniprot/P13623|https://www.uniprot.org/uniprot/P13622|https://www.uniprot.org/uniprot/P09414|https://www.uniprot.org/uniprot/P08652|https://www.uniprot.org/uniprot/P08651|https://www.uniprot.org/uniprot/O60413|https://www.uniprot.org/uniprot/O09072|https://www.uniprot.org/uniprot/O08519|https://www.uniprot.org/uniprot/O00712|https://www.uniprot.org/uniprot/O00166|https://www.uniprot.org/uniprot/K7EMU1|https://www.uniprot.org/uniprot/H7BYE8|https://www.uniprot.org/uniprot/G3V1P1|https://www.uniprot.org/uniprot/F8W8W3|https://www.uniprot.org/uniprot/F5H0R0|https://www.uniprot.org/uniprot/B7Z9C3|https://www.uniprot.org/uniprot/B7Z4U5|https://www.uniprot.org/uniprot/B4DS53|https://www.uniprot.org/uniprot/B4DRJ3|https://www.uniprot.org/uniprot/B4DM25|https://www.uniprot.org/uniprot/A8K1H0

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T207 0-131 Sentence denotes Single-particle cryo-EM data analysis of BG505 SOSIP.664 in complex with RM20A3 Fab was reproduced directly from Berndsen et al.51.
T208 132-358 Sentence denotes Data for the SARS-CoV S 2P ectodomain was previously published52 and the final particle stack and alignment parameters from the published reconstruction were used for 3D variability analysis in the SPARX software package76,77.
T209 359-493 Sentence denotes All metadata for these reconstructions along with raw data images and FSC resolution curves can be found in the original publications.
T210 494-651 Sentence denotes In summary, both datasets were acquired on a FEI Titan Krios (Thermo Fisher) operating at 300 KeV equipped with a K2 Summit Direct Electron Detector (Gatan).
T211 652-764 Sentence denotes Movie micrographs were aligned and dose weighted with MotionCor278 and CTF estimation was performed with Gctf79.
T212 765-850 Sentence denotes Single-particle data processing was performed using CryoSparc v.280 and Relion v.381.
T213 851-936 Sentence denotes Maps were low-pass filtered using a Gaussian kernel and visualized in UCSF chimera82.
T214 937-1103 Sentence denotes A detailed description of the auto-thresholding method used to set the isosurface value for visualisation of low-pass filtered maps can be found in Berndsen et al.51.

LitCovid-sample-Glycan

Id Subject Object Predicate Lexical cue
T50 359-362 https://glytoucan.org/Structures/Glycans/G05518TD denotes All