PMC:7640975 / 45015-46504 JSONTXT

{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T388","span":{"begin":25,"end":32},"obj":"Body_part"},{"id":"T389","span":{"begin":124,"end":131},"obj":"Body_part"},{"id":"T390","span":{"begin":132,"end":139},"obj":"Body_part"},{"id":"T391","span":{"begin":301,"end":308},"obj":"Body_part"},{"id":"T392","span":{"begin":480,"end":488},"obj":"Body_part"},{"id":"T393","span":{"begin":696,"end":700},"obj":"Body_part"},{"id":"T394","span":{"begin":755,"end":763},"obj":"Body_part"},{"id":"T395","span":{"begin":775,"end":783},"obj":"Body_part"},{"id":"T396","span":{"begin":1028,"end":1036},"obj":"Body_part"},{"id":"T397","span":{"begin":1165,"end":1169},"obj":"Body_part"},{"id":"T398","span":{"begin":1276,"end":1284},"obj":"Body_part"},{"id":"T399","span":{"begin":1332,"end":1339},"obj":"Body_part"},{"id":"T400","span":{"begin":1397,"end":1402},"obj":"Body_part"}],"attributes":[{"id":"A388","pred":"fma_id","subj":"T388","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A389","pred":"fma_id","subj":"T389","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A390","pred":"fma_id","subj":"T390","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A391","pred":"fma_id","subj":"T391","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A392","pred":"fma_id","subj":"T392","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A393","pred":"fma_id","subj":"T393","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A394","pred":"fma_id","subj":"T394","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A395","pred":"fma_id","subj":"T395","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A396","pred":"fma_id","subj":"T396","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A397","pred":"fma_id","subj":"T397","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A398","pred":"fma_id","subj":"T398","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A399","pred":"fma_id","subj":"T399","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A400","pred":"fma_id","subj":"T400","obj":"http://purl.org/sig/ont/fma/fma68646"}],"text":"To explore the potential protein network connections between the identified DEPs, the web-tool STRING was applied to depict protein–protein interaction networks. As shown in Figure 6, the DEPs were mapped to three major functional interaction networks, among which two were tightly connected by a hub protein, ENSSSCG00000000860 (namely NUP37), while the third exists independently. For the two tightly connected networks, they were comprised of two groups of strongly interacted proteins, including SCGN-ISG15-OAS1-IFIT1-IFIT3-ANAPC7-NME7, which are associated with innate immunity, and POLDIP3-NUP37-ERCC6L-DDX55-SMARCA2-NFRB-BAZ2A-HLTF-CHAF1A-CDK9-MNAT1-CTDP1-INTS4, which are associated with cell cycle and cellular components. Of note, at least five proteins act as hub proteins in these two networks tightly connected, including IFIT1, IFIT3, NUP37, SMARCA2, and CDK9. Interestingly, MNAT1 interacted highly with CTDP1 and CDK9, and INTS4 was also well connected to CDK9 (Figure 6). For the third network, there were five proteins with strong interaction in response to PDCoV infection, including MEF2D, VLDLR, LOC780439, PDK1, and AKT2, which are related to cell death and survival. Taken together, these findings further indicate that various functional types of host proteins, various biological functions, and complicated protein networks were affected during PDCoV infection of IPEC-J2 cells, which should provide valuable clues for a better understanding of PDCoV pathogenesis."}

{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T74","span":{"begin":1082,"end":1091},"obj":"Disease"},{"id":"T75","span":{"begin":1376,"end":1385},"obj":"Disease"}],"attributes":[{"id":"A74","pred":"mondo_id","subj":"T74","obj":"http://purl.obolibrary.org/obo/MONDO_0005550"},{"id":"A75","pred":"mondo_id","subj":"T75","obj":"http://purl.obolibrary.org/obo/MONDO_0005550"}],"text":"To explore the potential protein network connections between the identified DEPs, the web-tool STRING was applied to depict protein–protein interaction networks. As shown in Figure 6, the DEPs were mapped to three major functional interaction networks, among which two were tightly connected by a hub protein, ENSSSCG00000000860 (namely NUP37), while the third exists independently. For the two tightly connected networks, they were comprised of two groups of strongly interacted proteins, including SCGN-ISG15-OAS1-IFIT1-IFIT3-ANAPC7-NME7, which are associated with innate immunity, and POLDIP3-NUP37-ERCC6L-DDX55-SMARCA2-NFRB-BAZ2A-HLTF-CHAF1A-CDK9-MNAT1-CTDP1-INTS4, which are associated with cell cycle and cellular components. Of note, at least five proteins act as hub proteins in these two networks tightly connected, including IFIT1, IFIT3, NUP37, SMARCA2, and CDK9. Interestingly, MNAT1 interacted highly with CTDP1 and CDK9, and INTS4 was also well connected to CDK9 (Figure 6). For the third network, there were five proteins with strong interaction in response to PDCoV infection, including MEF2D, VLDLR, LOC780439, PDK1, and AKT2, which are related to cell death and survival. Taken together, these findings further indicate that various functional types of host proteins, various biological functions, and complicated protein networks were affected during PDCoV infection of IPEC-J2 cells, which should provide valuable clues for a better understanding of PDCoV pathogenesis."}

{"project":"LitCovid-PD-CLO","denotations":[{"id":"T504","span":{"begin":295,"end":296},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T505","span":{"begin":696,"end":700},"obj":"http://purl.obolibrary.org/obo/GO_0005623"},{"id":"T506","span":{"begin":711,"end":730},"obj":"http://purl.obolibrary.org/obo/GO_0005575"},{"id":"T507","span":{"begin":1165,"end":1169},"obj":"http://purl.obolibrary.org/obo/GO_0005623"},{"id":"T508","span":{"begin":1397,"end":1402},"obj":"http://purl.obolibrary.org/obo/GO_0005623"},{"id":"T509","span":{"begin":1444,"end":1445},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"}],"text":"To explore the potential protein network connections between the identified DEPs, the web-tool STRING was applied to depict protein–protein interaction networks. As shown in Figure 6, the DEPs were mapped to three major functional interaction networks, among which two were tightly connected by a hub protein, ENSSSCG00000000860 (namely NUP37), while the third exists independently. For the two tightly connected networks, they were comprised of two groups of strongly interacted proteins, including SCGN-ISG15-OAS1-IFIT1-IFIT3-ANAPC7-NME7, which are associated with innate immunity, and POLDIP3-NUP37-ERCC6L-DDX55-SMARCA2-NFRB-BAZ2A-HLTF-CHAF1A-CDK9-MNAT1-CTDP1-INTS4, which are associated with cell cycle and cellular components. Of note, at least five proteins act as hub proteins in these two networks tightly connected, including IFIT1, IFIT3, NUP37, SMARCA2, and CDK9. Interestingly, MNAT1 interacted highly with CTDP1 and CDK9, and INTS4 was also well connected to CDK9 (Figure 6). For the third network, there were five proteins with strong interaction in response to PDCoV infection, including MEF2D, VLDLR, LOC780439, PDK1, and AKT2, which are related to cell death and survival. Taken together, these findings further indicate that various functional types of host proteins, various biological functions, and complicated protein networks were affected during PDCoV infection of IPEC-J2 cells, which should provide valuable clues for a better understanding of PDCoV pathogenesis."}

{"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T415","span":{"begin":25,"end":32},"obj":"Chemical"},{"id":"T416","span":{"begin":124,"end":131},"obj":"Chemical"},{"id":"T417","span":{"begin":132,"end":139},"obj":"Chemical"},{"id":"T418","span":{"begin":301,"end":308},"obj":"Chemical"},{"id":"T419","span":{"begin":480,"end":488},"obj":"Chemical"},{"id":"T420","span":{"begin":755,"end":763},"obj":"Chemical"},{"id":"T421","span":{"begin":775,"end":783},"obj":"Chemical"},{"id":"T422","span":{"begin":1028,"end":1036},"obj":"Chemical"},{"id":"T423","span":{"begin":1276,"end":1284},"obj":"Chemical"},{"id":"T424","span":{"begin":1332,"end":1339},"obj":"Chemical"}],"attributes":[{"id":"A415","pred":"chebi_id","subj":"T415","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A416","pred":"chebi_id","subj":"T416","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A417","pred":"chebi_id","subj":"T417","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A418","pred":"chebi_id","subj":"T418","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A419","pred":"chebi_id","subj":"T419","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A420","pred":"chebi_id","subj":"T420","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A421","pred":"chebi_id","subj":"T421","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A422","pred":"chebi_id","subj":"T422","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A423","pred":"chebi_id","subj":"T423","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A424","pred":"chebi_id","subj":"T424","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"}],"text":"To explore the potential protein network connections between the identified DEPs, the web-tool STRING was applied to depict protein–protein interaction networks. As shown in Figure 6, the DEPs were mapped to three major functional interaction networks, among which two were tightly connected by a hub protein, ENSSSCG00000000860 (namely NUP37), while the third exists independently. For the two tightly connected networks, they were comprised of two groups of strongly interacted proteins, including SCGN-ISG15-OAS1-IFIT1-IFIT3-ANAPC7-NME7, which are associated with innate immunity, and POLDIP3-NUP37-ERCC6L-DDX55-SMARCA2-NFRB-BAZ2A-HLTF-CHAF1A-CDK9-MNAT1-CTDP1-INTS4, which are associated with cell cycle and cellular components. Of note, at least five proteins act as hub proteins in these two networks tightly connected, including IFIT1, IFIT3, NUP37, SMARCA2, and CDK9. Interestingly, MNAT1 interacted highly with CTDP1 and CDK9, and INTS4 was also well connected to CDK9 (Figure 6). For the third network, there were five proteins with strong interaction in response to PDCoV infection, including MEF2D, VLDLR, LOC780439, PDK1, and AKT2, which are related to cell death and survival. Taken together, these findings further indicate that various functional types of host proteins, various biological functions, and complicated protein networks were affected during PDCoV infection of IPEC-J2 cells, which should provide valuable clues for a better understanding of PDCoV pathogenesis."}

{"project":"LitCovid-PD-GO-BP","denotations":[{"id":"T214","span":{"begin":567,"end":582},"obj":"http://purl.obolibrary.org/obo/GO_0045087"},{"id":"T215","span":{"begin":696,"end":706},"obj":"http://purl.obolibrary.org/obo/GO_0007049"},{"id":"T216","span":{"begin":1128,"end":1132},"obj":"http://purl.obolibrary.org/obo/GO_0004740"},{"id":"T217","span":{"begin":1165,"end":1175},"obj":"http://purl.obolibrary.org/obo/GO_0008219"},{"id":"T218","span":{"begin":1476,"end":1488},"obj":"http://purl.obolibrary.org/obo/GO_0009405"}],"text":"To explore the potential protein network connections between the identified DEPs, the web-tool STRING was applied to depict protein–protein interaction networks. As shown in Figure 6, the DEPs were mapped to three major functional interaction networks, among which two were tightly connected by a hub protein, ENSSSCG00000000860 (namely NUP37), while the third exists independently. For the two tightly connected networks, they were comprised of two groups of strongly interacted proteins, including SCGN-ISG15-OAS1-IFIT1-IFIT3-ANAPC7-NME7, which are associated with innate immunity, and POLDIP3-NUP37-ERCC6L-DDX55-SMARCA2-NFRB-BAZ2A-HLTF-CHAF1A-CDK9-MNAT1-CTDP1-INTS4, which are associated with cell cycle and cellular components. Of note, at least five proteins act as hub proteins in these two networks tightly connected, including IFIT1, IFIT3, NUP37, SMARCA2, and CDK9. Interestingly, MNAT1 interacted highly with CTDP1 and CDK9, and INTS4 was also well connected to CDK9 (Figure 6). For the third network, there were five proteins with strong interaction in response to PDCoV infection, including MEF2D, VLDLR, LOC780439, PDK1, and AKT2, which are related to cell death and survival. Taken together, these findings further indicate that various functional types of host proteins, various biological functions, and complicated protein networks were affected during PDCoV infection of IPEC-J2 cells, which should provide valuable clues for a better understanding of PDCoV pathogenesis."}

{"project":"LitCovid-sentences","denotations":[{"id":"T291","span":{"begin":0,"end":161},"obj":"Sentence"},{"id":"T292","span":{"begin":162,"end":382},"obj":"Sentence"},{"id":"T293","span":{"begin":383,"end":731},"obj":"Sentence"},{"id":"T294","span":{"begin":732,"end":874},"obj":"Sentence"},{"id":"T295","span":{"begin":875,"end":988},"obj":"Sentence"},{"id":"T296","span":{"begin":989,"end":1189},"obj":"Sentence"},{"id":"T297","span":{"begin":1190,"end":1489},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"To explore the potential protein network connections between the identified DEPs, the web-tool STRING was applied to depict protein–protein interaction networks. As shown in Figure 6, the DEPs were mapped to three major functional interaction networks, among which two were tightly connected by a hub protein, ENSSSCG00000000860 (namely NUP37), while the third exists independently. For the two tightly connected networks, they were comprised of two groups of strongly interacted proteins, including SCGN-ISG15-OAS1-IFIT1-IFIT3-ANAPC7-NME7, which are associated with innate immunity, and POLDIP3-NUP37-ERCC6L-DDX55-SMARCA2-NFRB-BAZ2A-HLTF-CHAF1A-CDK9-MNAT1-CTDP1-INTS4, which are associated with cell cycle and cellular components. Of note, at least five proteins act as hub proteins in these two networks tightly connected, including IFIT1, IFIT3, NUP37, SMARCA2, and CDK9. Interestingly, MNAT1 interacted highly with CTDP1 and CDK9, and INTS4 was also well connected to CDK9 (Figure 6). For the third network, there were five proteins with strong interaction in response to PDCoV infection, including MEF2D, VLDLR, LOC780439, PDK1, and AKT2, which are related to cell death and survival. Taken together, these findings further indicate that various functional types of host proteins, various biological functions, and complicated protein networks were affected during PDCoV infection of IPEC-J2 cells, which should provide valuable clues for a better understanding of PDCoV pathogenesis."}

{"project":"LitCovid-PubTator","denotations":[{"id":"794","span":{"begin":337,"end":342},"obj":"Gene"},{"id":"795","span":{"begin":500,"end":504},"obj":"Gene"},{"id":"796","span":{"begin":505,"end":510},"obj":"Gene"},{"id":"797","span":{"begin":511,"end":515},"obj":"Gene"},{"id":"798","span":{"begin":516,"end":521},"obj":"Gene"},{"id":"799","span":{"begin":522,"end":527},"obj":"Gene"},{"id":"800","span":{"begin":528,"end":534},"obj":"Gene"},{"id":"801","span":{"begin":535,"end":539},"obj":"Gene"},{"id":"802","span":{"begin":588,"end":595},"obj":"Gene"},{"id":"803","span":{"begin":596,"end":601},"obj":"Gene"},{"id":"804","span":{"begin":602,"end":608},"obj":"Gene"},{"id":"805","span":{"begin":609,"end":614},"obj":"Gene"},{"id":"806","span":{"begin":615,"end":622},"obj":"Gene"},{"id":"807","span":{"begin":628,"end":633},"obj":"Gene"},{"id":"808","span":{"begin":634,"end":638},"obj":"Gene"},{"id":"809","span":{"begin":639,"end":645},"obj":"Gene"},{"id":"810","span":{"begin":646,"end":650},"obj":"Gene"},{"id":"811","span":{"begin":651,"end":656},"obj":"Gene"},{"id":"812","span":{"begin":657,"end":662},"obj":"Gene"},{"id":"813","span":{"begin":663,"end":668},"obj":"Gene"},{"id":"814","span":{"begin":835,"end":840},"obj":"Gene"},{"id":"815","span":{"begin":842,"end":847},"obj":"Gene"},{"id":"816","span":{"begin":849,"end":854},"obj":"Gene"},{"id":"817","span":{"begin":856,"end":863},"obj":"Gene"},{"id":"818","span":{"begin":869,"end":873},"obj":"Gene"},{"id":"819","span":{"begin":890,"end":895},"obj":"Gene"},{"id":"820","span":{"begin":919,"end":924},"obj":"Gene"},{"id":"821","span":{"begin":929,"end":933},"obj":"Gene"},{"id":"822","span":{"begin":939,"end":944},"obj":"Gene"},{"id":"823","span":{"begin":972,"end":976},"obj":"Gene"},{"id":"824","span":{"begin":1103,"end":1108},"obj":"Gene"},{"id":"825","span":{"begin":1110,"end":1115},"obj":"Gene"},{"id":"826","span":{"begin":1128,"end":1132},"obj":"Gene"},{"id":"827","span":{"begin":1138,"end":1142},"obj":"Gene"},{"id":"828","span":{"begin":1082,"end":1091},"obj":"Disease"},{"id":"829","span":{"begin":1170,"end":1175},"obj":"Disease"},{"id":"830","span":{"begin":1370,"end":1385},"obj":"Disease"},{"id":"831","span":{"begin":1389,"end":1396},"obj":"CellLine"}],"attributes":[{"id":"A794","pred":"tao:has_database_id","subj":"794","obj":"Gene:79023"},{"id":"A795","pred":"tao:has_database_id","subj":"795","obj":"Gene:10590"},{"id":"A796","pred":"tao:has_database_id","subj":"796","obj":"Gene:9636"},{"id":"A797","pred":"tao:has_database_id","subj":"797","obj":"Gene:4938"},{"id":"A798","pred":"tao:has_database_id","subj":"798","obj":"Gene:3434"},{"id":"A799","pred":"tao:has_database_id","subj":"799","obj":"Gene:3437"},{"id":"A800","pred":"tao:has_database_id","subj":"800","obj":"Gene:51434"},{"id":"A801","pred":"tao:has_database_id","subj":"801","obj":"Gene:29922"},{"id":"A802","pred":"tao:has_database_id","subj":"802","obj":"Gene:84271"},{"id":"A803","pred":"tao:has_database_id","subj":"803","obj":"Gene:79023"},{"id":"A804","pred":"tao:has_database_id","subj":"804","obj":"Gene:54821"},{"id":"A805","pred":"tao:has_database_id","subj":"805","obj":"Gene:57696"},{"id":"A806","pred":"tao:has_database_id","subj":"806","obj":"Gene:6595"},{"id":"A807","pred":"tao:has_database_id","subj":"807","obj":"Gene:11176"},{"id":"A808","pred":"tao:has_database_id","subj":"808","obj":"Gene:6596"},{"id":"A809","pred":"tao:has_database_id","subj":"809","obj":"Gene:10036"},{"id":"A810","pred":"tao:has_database_id","subj":"810","obj":"Gene:1025"},{"id":"A811","pred":"tao:has_database_id","subj":"811","obj":"Gene:4331"},{"id":"A812","pred":"tao:has_database_id","subj":"812","obj":"Gene:9150"},{"id":"A813","pred":"tao:has_database_id","subj":"813","obj":"Gene:92105"},{"id":"A814","pred":"tao:has_database_id","subj":"814","obj":"Gene:3434"},{"id":"A815","pred":"tao:has_database_id","subj":"815","obj":"Gene:3437"},{"id":"A816","pred":"tao:has_database_id","subj":"816","obj":"Gene:79023"},{"id":"A817","pred":"tao:has_database_id","subj":"817","obj":"Gene:6595"},{"id":"A818","pred":"tao:has_database_id","subj":"818","obj":"Gene:1025"},{"id":"A819","pred":"tao:has_database_id","subj":"819","obj":"Gene:4331"},{"id":"A820","pred":"tao:has_database_id","subj":"820","obj":"Gene:9150"},{"id":"A821","pred":"tao:has_database_id","subj":"821","obj":"Gene:1025"},{"id":"A822","pred":"tao:has_database_id","subj":"822","obj":"Gene:92105"},{"id":"A823","pred":"tao:has_database_id","subj":"823","obj":"Gene:1025"},{"id":"A824","pred":"tao:has_database_id","subj":"824","obj":"Gene:4209"},{"id":"A825","pred":"tao:has_database_id","subj":"825","obj":"Gene:7436"},{"id":"A826","pred":"tao:has_database_id","subj":"826","obj":"Gene:5163"},{"id":"A827","pred":"tao:has_database_id","subj":"827","obj":"Gene:208"},{"id":"A828","pred":"tao:has_database_id","subj":"828","obj":"MESH:D007239"},{"id":"A829","pred":"tao:has_database_id","subj":"829","obj":"MESH:D003643"},{"id":"A830","pred":"tao:has_database_id","subj":"830","obj":"MESH:D007239"},{"id":"A831","pred":"tao:has_database_id","subj":"831","obj":"CVCL:2246"}],"namespaces":[{"prefix":"Tax","uri":"https://www.ncbi.nlm.nih.gov/taxonomy/"},{"prefix":"MESH","uri":"https://id.nlm.nih.gov/mesh/"},{"prefix":"Gene","uri":"https://www.ncbi.nlm.nih.gov/gene/"},{"prefix":"CVCL","uri":"https://web.expasy.org/cellosaurus/CVCL_"}],"text":"To explore the potential protein network connections between the identified DEPs, the web-tool STRING was applied to depict protein–protein interaction networks. As shown in Figure 6, the DEPs were mapped to three major functional interaction networks, among which two were tightly connected by a hub protein, ENSSSCG00000000860 (namely NUP37), while the third exists independently. For the two tightly connected networks, they were comprised of two groups of strongly interacted proteins, including SCGN-ISG15-OAS1-IFIT1-IFIT3-ANAPC7-NME7, which are associated with innate immunity, and POLDIP3-NUP37-ERCC6L-DDX55-SMARCA2-NFRB-BAZ2A-HLTF-CHAF1A-CDK9-MNAT1-CTDP1-INTS4, which are associated with cell cycle and cellular components. Of note, at least five proteins act as hub proteins in these two networks tightly connected, including IFIT1, IFIT3, NUP37, SMARCA2, and CDK9. Interestingly, MNAT1 interacted highly with CTDP1 and CDK9, and INTS4 was also well connected to CDK9 (Figure 6). For the third network, there were five proteins with strong interaction in response to PDCoV infection, including MEF2D, VLDLR, LOC780439, PDK1, and AKT2, which are related to cell death and survival. Taken together, these findings further indicate that various functional types of host proteins, various biological functions, and complicated protein networks were affected during PDCoV infection of IPEC-J2 cells, which should provide valuable clues for a better understanding of PDCoV pathogenesis."}