PMC:3320587 / 24192-25398 JSONTXT

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extend the results we obtained in the reporter assays to a physiological TB/HIV co-infection model, we next tested the effect of siRNA-mediated ablation of NFAT5 mRNA levels in MDM co-infected with a subtype B HIV-1Lai infectious molecular clone and a clinical isolate of MTb. To perform this experiment, we first constructed an HIV-1Lai clone bearing the CCR5-tropic envelope region of HIV-1Bal (HIV-1Lai/Bal-env) so that it would efficiently infect primary MDM. We used this approach to ensure that our analysis of the roles of NF-κB and NFAT5 in MTb-induced HIV-1 replication could be interpreted in the proper context of previous research findings that examined LTR regulation in the context of full-length viral replication [41]–[46]. The HIV-1Lai/Bal-Env infectious clone is isogenic for the entire sequence of the parental HIV-1Lai infectious clone except for the substitution of the HIV-1Bal envelope co-receptor binding region in place of the HIV-1Lai envelope co-receptor binding region. We note that we confirmed that HIV-1Lai/Bal-Env grew in PBMC at a similar rate to wild-type HIV-1Bal, indicating proper co-receptor engagement and internalization of this infectious clone (data not shown)."}

{"project":"bionlp-st-ge-2016-test-proteins","denotations":[{"id":"T8908","span":{"begin":1045,"end":1048},"obj":"Protein"},{"id":"T8907","span":{"begin":964,"end":972},"obj":"Protein"},{"id":"T8906","span":{"begin":903,"end":911},"obj":"Protein"},{"id":"T8905","span":{"begin":760,"end":763},"obj":"Protein"},{"id":"T8904","span":{"begin":543,"end":548},"obj":"Protein"},{"id":"T8903","span":{"begin":413,"end":416},"obj":"Protein"},{"id":"T8902","span":{"begin":359,"end":363},"obj":"Protein"},{"id":"T8901","span":{"begin":159,"end":164},"obj":"Protein"}],"namespaces":[{"prefix":"_base","uri":"http://bionlp.dbcls.jp/ontology/ge.owl#"}],"text":"To extend the results we obtained in the reporter assays to a physiological TB/HIV co-infection model, we next tested the effect of siRNA-mediated ablation of NFAT5 mRNA levels in MDM co-infected with a subtype B HIV-1Lai infectious molecular clone and a clinical isolate of MTb. To perform this experiment, we first constructed an HIV-1Lai clone bearing the CCR5-tropic envelope region of HIV-1Bal (HIV-1Lai/Bal-env) so that it would efficiently infect primary MDM. We used this approach to ensure that our analysis of the roles of NF-κB and NFAT5 in MTb-induced HIV-1 replication could be interpreted in the proper context of previous research findings that examined LTR regulation in the context of full-length viral replication [41]–[46]. The HIV-1Lai/Bal-Env infectious clone is isogenic for the entire sequence of the parental HIV-1Lai infectious clone except for the substitution of the HIV-1Bal envelope co-receptor binding region in place of the HIV-1Lai envelope co-receptor binding region. We note that we confirmed that HIV-1Lai/Bal-Env grew in PBMC at a similar rate to wild-type HIV-1Bal, indicating proper co-receptor engagement and internalization of this infectious clone (data not shown)."}

{"project":"bionlp-st-ge-2016-uniprot","denotations":[{"id":"T9460","span":{"begin":543,"end":548},"obj":"http://www.uniprot.org/uniprot/O94916"},{"id":"T9459","span":{"begin":159,"end":164},"obj":"http://www.uniprot.org/uniprot/O94916"},{"id":"T9473","span":{"begin":413,"end":416},"obj":"http://www.uniprot.org/uniprot/P04578"},{"id":"T9472","span":{"begin":359,"end":363},"obj":"http://www.uniprot.org/uniprot/P51681"}],"namespaces":[{"prefix":"_base","uri":"http://www.uniprot.org/uniprot/"}],"text":"To extend the results we obtained in the reporter assays to a physiological TB/HIV co-infection model, we next tested the effect of siRNA-mediated ablation of NFAT5 mRNA levels in MDM co-infected with a subtype B HIV-1Lai infectious molecular clone and a clinical isolate of MTb. To perform this experiment, we first constructed an HIV-1Lai clone bearing the CCR5-tropic envelope region of HIV-1Bal (HIV-1Lai/Bal-env) so that it would efficiently infect primary MDM. We used this approach to ensure that our analysis of the roles of NF-κB and NFAT5 in MTb-induced HIV-1 replication could be interpreted in the proper context of previous research findings that examined LTR regulation in the context of full-length viral replication [41]–[46]. The HIV-1Lai/Bal-Env infectious clone is isogenic for the entire sequence of the parental HIV-1Lai infectious clone except for the substitution of the HIV-1Bal envelope co-receptor binding region in place of the HIV-1Lai envelope co-receptor binding region. We note that we confirmed that HIV-1Lai/Bal-Env grew in PBMC at a similar rate to wild-type HIV-1Bal, indicating proper co-receptor engagement and internalization of this infectious clone (data not shown)."}

{"project":"GO-BP","denotations":[{"id":"T8927","span":{"begin":714,"end":731},"obj":"http://purl.obolibrary.org/obo/GO_0019079"},{"id":"T8926","span":{"begin":714,"end":731},"obj":"http://purl.obolibrary.org/obo/GO_0019058"},{"id":"T8925","span":{"begin":673,"end":683},"obj":"http://purl.obolibrary.org/obo/GO_0065007"}],"text":"To extend the results we obtained in the reporter assays to a physiological TB/HIV co-infection model, we next tested the effect of siRNA-mediated ablation of NFAT5 mRNA levels in MDM co-infected with a subtype B HIV-1Lai infectious molecular clone and a clinical isolate of MTb. To perform this experiment, we first constructed an HIV-1Lai clone bearing the CCR5-tropic envelope region of HIV-1Bal (HIV-1Lai/Bal-env) so that it would efficiently infect primary MDM. We used this approach to ensure that our analysis of the roles of NF-κB and NFAT5 in MTb-induced HIV-1 replication could be interpreted in the proper context of previous research findings that examined LTR regulation in the context of full-length viral replication [41]–[46]. The HIV-1Lai/Bal-Env infectious clone is isogenic for the entire sequence of the parental HIV-1Lai infectious clone except for the substitution of the HIV-1Bal envelope co-receptor binding region in place of the HIV-1Lai envelope co-receptor binding region. We note that we confirmed that HIV-1Lai/Bal-Env grew in PBMC at a similar rate to wild-type HIV-1Bal, indicating proper co-receptor engagement and internalization of this infectious clone (data not shown)."}

{"project":"GO-MF","denotations":[{"id":"T8933","span":{"begin":985,"end":992},"obj":"http://purl.obolibrary.org/obo/GO_0005488"},{"id":"T8932","span":{"begin":924,"end":931},"obj":"http://purl.obolibrary.org/obo/GO_0005488"},{"id":"T8931","span":{"begin":976,"end":992},"obj":"http://purl.obolibrary.org/obo/GO_0005102"},{"id":"T8930","span":{"begin":915,"end":931},"obj":"http://purl.obolibrary.org/obo/GO_0005102"},{"id":"T8929","span":{"begin":973,"end":992},"obj":"http://purl.obolibrary.org/obo/GO_0039706"},{"id":"T8928","span":{"begin":912,"end":931},"obj":"http://purl.obolibrary.org/obo/GO_0039706"}],"text":"To extend the results we obtained in the reporter assays to a physiological TB/HIV co-infection model, we next tested the effect of siRNA-mediated ablation of NFAT5 mRNA levels in MDM co-infected with a subtype B HIV-1Lai infectious molecular clone and a clinical isolate of MTb. To perform this experiment, we first constructed an HIV-1Lai clone bearing the CCR5-tropic envelope region of HIV-1Bal (HIV-1Lai/Bal-env) so that it would efficiently infect primary MDM. We used this approach to ensure that our analysis of the roles of NF-κB and NFAT5 in MTb-induced HIV-1 replication could be interpreted in the proper context of previous research findings that examined LTR regulation in the context of full-length viral replication [41]–[46]. The HIV-1Lai/Bal-Env infectious clone is isogenic for the entire sequence of the parental HIV-1Lai infectious clone except for the substitution of the HIV-1Bal envelope co-receptor binding region in place of the HIV-1Lai envelope co-receptor binding region. We note that we confirmed that HIV-1Lai/Bal-Env grew in PBMC at a similar rate to wild-type HIV-1Bal, indicating proper co-receptor engagement and internalization of this infectious clone (data not shown)."}

{"project":"GO-CC","denotations":[{"id":"T8936","span":{"begin":964,"end":972},"obj":"http://purl.obolibrary.org/obo/GO_0009274"},{"id":"T8935","span":{"begin":903,"end":911},"obj":"http://purl.obolibrary.org/obo/GO_0009274"},{"id":"T8934","span":{"begin":371,"end":379},"obj":"http://purl.obolibrary.org/obo/GO_0009274"}],"text":"To extend the results we obtained in the reporter assays to a physiological TB/HIV co-infection model, we next tested the effect of siRNA-mediated ablation of NFAT5 mRNA levels in MDM co-infected with a subtype B HIV-1Lai infectious molecular clone and a clinical isolate of MTb. To perform this experiment, we first constructed an HIV-1Lai clone bearing the CCR5-tropic envelope region of HIV-1Bal (HIV-1Lai/Bal-env) so that it would efficiently infect primary MDM. We used this approach to ensure that our analysis of the roles of NF-κB and NFAT5 in MTb-induced HIV-1 replication could be interpreted in the proper context of previous research findings that examined LTR regulation in the context of full-length viral replication [41]–[46]. The HIV-1Lai/Bal-Env infectious clone is isogenic for the entire sequence of the parental HIV-1Lai infectious clone except for the substitution of the HIV-1Bal envelope co-receptor binding region in place of the HIV-1Lai envelope co-receptor binding region. We note that we confirmed that HIV-1Lai/Bal-Env grew in PBMC at a similar rate to wild-type HIV-1Bal, indicating proper co-receptor engagement and internalization of this infectious clone (data not shown)."}

{"project":"sentences","denotations":[{"id":"T8856","span":{"begin":1001,"end":1206},"obj":"Sentence"},{"id":"T8855","span":{"begin":743,"end":1000},"obj":"Sentence"},{"id":"T8854","span":{"begin":467,"end":742},"obj":"Sentence"},{"id":"T8853","span":{"begin":280,"end":466},"obj":"Sentence"},{"id":"T8852","span":{"begin":0,"end":279},"obj":"Sentence"},{"id":"T152","span":{"begin":0,"end":279},"obj":"Sentence"},{"id":"T153","span":{"begin":280,"end":466},"obj":"Sentence"},{"id":"T154","span":{"begin":467,"end":742},"obj":"Sentence"},{"id":"T155","span":{"begin":743,"end":1000},"obj":"Sentence"},{"id":"T156","span":{"begin":1001,"end":1206},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"To extend the results we obtained in the reporter assays to a physiological TB/HIV co-infection model, we next tested the effect of siRNA-mediated ablation of NFAT5 mRNA levels in MDM co-infected with a subtype B HIV-1Lai infectious molecular clone and a clinical isolate of MTb. To perform this experiment, we first constructed an HIV-1Lai clone bearing the CCR5-tropic envelope region of HIV-1Bal (HIV-1Lai/Bal-env) so that it would efficiently infect primary MDM. We used this approach to ensure that our analysis of the roles of NF-κB and NFAT5 in MTb-induced HIV-1 replication could be interpreted in the proper context of previous research findings that examined LTR regulation in the context of full-length viral replication [41]–[46]. The HIV-1Lai/Bal-Env infectious clone is isogenic for the entire sequence of the parental HIV-1Lai infectious clone except for the substitution of the HIV-1Bal envelope co-receptor binding region in place of the HIV-1Lai envelope co-receptor binding region. We note that we confirmed that HIV-1Lai/Bal-Env grew in PBMC at a similar rate to wild-type HIV-1Bal, indicating proper co-receptor engagement and internalization of this infectious clone (data not shown)."}

{"project":"simple1","denotations":[{"id":"T8975","span":{"begin":1045,"end":1048},"obj":"Protein"},{"id":"T8974","span":{"begin":964,"end":972},"obj":"Protein"},{"id":"T8973","span":{"begin":903,"end":911},"obj":"Protein"},{"id":"T8972","span":{"begin":760,"end":763},"obj":"Protein"},{"id":"T8971","span":{"begin":543,"end":548},"obj":"Protein"},{"id":"T8970","span":{"begin":413,"end":416},"obj":"Protein"},{"id":"T8969","span":{"begin":359,"end":363},"obj":"Protein"},{"id":"T8968","span":{"begin":159,"end":164},"obj":"Protein"}],"text":"To extend the results we obtained in the reporter assays to a physiological TB/HIV co-infection model, we next tested the effect of siRNA-mediated ablation of NFAT5 mRNA levels in MDM co-infected with a subtype B HIV-1Lai infectious molecular clone and a clinical isolate of MTb. To perform this experiment, we first constructed an HIV-1Lai clone bearing the CCR5-tropic envelope region of HIV-1Bal (HIV-1Lai/Bal-env) so that it would efficiently infect primary MDM. We used this approach to ensure that our analysis of the roles of NF-κB and NFAT5 in MTb-induced HIV-1 replication could be interpreted in the proper context of previous research findings that examined LTR regulation in the context of full-length viral replication [41]–[46]. The HIV-1Lai/Bal-Env infectious clone is isogenic for the entire sequence of the parental HIV-1Lai infectious clone except for the substitution of the HIV-1Bal envelope co-receptor binding region in place of the HIV-1Lai envelope co-receptor binding region. We note that we confirmed that HIV-1Lai/Bal-Env grew in PBMC at a similar rate to wild-type HIV-1Bal, indicating proper co-receptor engagement and internalization of this infectious clone (data not shown)."}

{"project":"BioNLP16_DUT","denotations":[{"id":"T10179","span":{"begin":170,"end":176},"obj":"Transcription"},{"id":"T10178","span":{"begin":147,"end":155},"obj":"Negative_regulation"},{"id":"T10162","span":{"begin":1045,"end":1048},"obj":"Protein"},{"id":"T10161","span":{"begin":964,"end":972},"obj":"Protein"},{"id":"T10160","span":{"begin":903,"end":911},"obj":"Protein"},{"id":"T10159","span":{"begin":760,"end":763},"obj":"Protein"},{"id":"T10158","span":{"begin":543,"end":548},"obj":"Protein"},{"id":"T10157","span":{"begin":413,"end":416},"obj":"Protein"},{"id":"T10156","span":{"begin":359,"end":363},"obj":"Protein"},{"id":"T10155","span":{"begin":159,"end":164},"obj":"Protein"}],"relations":[{"id":"R8043","pred":"themeOf","subj":"T10155","obj":"T10178"},{"id":"R8044","pred":"themeOf","subj":"T10155","obj":"T10179"}],"text":"To extend the results we obtained in the reporter assays to a physiological TB/HIV co-infection model, we next tested the effect of siRNA-mediated ablation of NFAT5 mRNA levels in MDM co-infected with a subtype B HIV-1Lai infectious molecular clone and a clinical isolate of MTb. To perform this experiment, we first constructed an HIV-1Lai clone bearing the CCR5-tropic envelope region of HIV-1Bal (HIV-1Lai/Bal-env) so that it would efficiently infect primary MDM. We used this approach to ensure that our analysis of the roles of NF-κB and NFAT5 in MTb-induced HIV-1 replication could be interpreted in the proper context of previous research findings that examined LTR regulation in the context of full-length viral replication [41]–[46]. The HIV-1Lai/Bal-Env infectious clone is isogenic for the entire sequence of the parental HIV-1Lai infectious clone except for the substitution of the HIV-1Bal envelope co-receptor binding region in place of the HIV-1Lai envelope co-receptor binding region. We note that we confirmed that HIV-1Lai/Bal-Env grew in PBMC at a similar rate to wild-type HIV-1Bal, indicating proper co-receptor engagement and internalization of this infectious clone (data not shown)."}

{"project":"BioNLP16_Messiy","denotations":[{"id":"T9559","span":{"begin":1045,"end":1048},"obj":"Protein"},{"id":"T9558","span":{"begin":964,"end":972},"obj":"Protein"},{"id":"T9557","span":{"begin":903,"end":911},"obj":"Protein"},{"id":"T9556","span":{"begin":760,"end":763},"obj":"Protein"},{"id":"T9555","span":{"begin":543,"end":548},"obj":"Protein"},{"id":"T9554","span":{"begin":413,"end":416},"obj":"Protein"},{"id":"T9553","span":{"begin":359,"end":363},"obj":"Protein"},{"id":"T9552","span":{"begin":159,"end":164},"obj":"Protein"},{"id":"T9579","span":{"begin":985,"end":992},"obj":"Binding"},{"id":"T9578","span":{"begin":924,"end":931},"obj":"Binding"},{"id":"T9577","span":{"begin":122,"end":128},"obj":"Regulation"},{"id":"T9576","span":{"begin":147,"end":155},"obj":"Negative_regulation"},{"id":"T9575","span":{"begin":132,"end":146},"obj":"Positive_regulation"}],"relations":[{"id":"R7516","pred":"themeOf","subj":"T9552","obj":"T9576"},{"id":"R7517","pred":"themeOf","subj":"T9557","obj":"T9578"},{"id":"R7518","pred":"themeOf","subj":"T9558","obj":"T9579"},{"id":"R7526","pred":"themeOf","subj":"T9576","obj":"T9577"},{"id":"R7527","pred":"themeOf","subj":"T9576","obj":"T9575"}],"text":"To extend the results we obtained in the reporter assays to a physiological TB/HIV co-infection model, we next tested the effect of siRNA-mediated ablation of NFAT5 mRNA levels in MDM co-infected with a subtype B HIV-1Lai infectious molecular clone and a clinical isolate of MTb. To perform this experiment, we first constructed an HIV-1Lai clone bearing the CCR5-tropic envelope region of HIV-1Bal (HIV-1Lai/Bal-env) so that it would efficiently infect primary MDM. We used this approach to ensure that our analysis of the roles of NF-κB and NFAT5 in MTb-induced HIV-1 replication could be interpreted in the proper context of previous research findings that examined LTR regulation in the context of full-length viral replication [41]–[46]. The HIV-1Lai/Bal-Env infectious clone is isogenic for the entire sequence of the parental HIV-1Lai infectious clone except for the substitution of the HIV-1Bal envelope co-receptor binding region in place of the HIV-1Lai envelope co-receptor binding region. We note that we confirmed that HIV-1Lai/Bal-Env grew in PBMC at a similar rate to wild-type HIV-1Bal, indicating proper co-receptor engagement and internalization of this infectious clone (data not shown)."}

{"project":"DLUT931","denotations":[{"id":"T9537","span":{"begin":985,"end":992},"obj":"Binding"},{"id":"T9536","span":{"begin":924,"end":931},"obj":"Binding"},{"id":"T9535","span":{"begin":874,"end":886},"obj":"Negative_regulation"},{"id":"T9534","span":{"begin":132,"end":146},"obj":"Positive_regulation"},{"id":"T9533","span":{"begin":122,"end":128},"obj":"Regulation"},{"id":"T9532","span":{"begin":147,"end":155},"obj":"Negative_regulation"},{"id":"T9514","span":{"begin":1045,"end":1048},"obj":"Protein"},{"id":"T9513","span":{"begin":964,"end":972},"obj":"Protein"},{"id":"T9512","span":{"begin":903,"end":911},"obj":"Protein"},{"id":"T9511","span":{"begin":760,"end":763},"obj":"Protein"},{"id":"T9510","span":{"begin":543,"end":548},"obj":"Protein"},{"id":"T9509","span":{"begin":413,"end":416},"obj":"Protein"},{"id":"T9508","span":{"begin":359,"end":363},"obj":"Protein"},{"id":"T9507","span":{"begin":159,"end":164},"obj":"Protein"}],"relations":[{"id":"R7492","pred":"themeOf","subj":"T9513","obj":"T9537"},{"id":"R7493","pred":"themeOf","subj":"T9513","obj":"T9536"},{"id":"R7494","pred":"themeOf","subj":"T9513","obj":"T9536"},{"id":"R7507","pred":"themeOf","subj":"T9534","obj":"T9532"},{"id":"R7508","pred":"themeOf","subj":"T9536","obj":"T9535"},{"id":"R7509","pred":"themeOf","subj":"T9536","obj":"T9535"},{"id":"R7510","pred":"themeOf","subj":"T9536","obj":"T9535"},{"id":"R7485","pred":"themeOf","subj":"T9507","obj":"T9532"},{"id":"R7486","pred":"themeOf","subj":"T9511","obj":"T9536"},{"id":"R7488","pred":"themeOf","subj":"T9512","obj":"T9535"},{"id":"R7505","pred":"themeOf","subj":"T9532","obj":"T9533"},{"id":"R7506","pred":"themeOf","subj":"T9532","obj":"T9534"},{"id":"R7487","pred":"themeOf","subj":"T9511","obj":"T9536"},{"id":"R7489","pred":"themeOf","subj":"T9512","obj":"T9536"},{"id":"R7490","pred":"themeOf","subj":"T9512","obj":"T9537"},{"id":"R7491","pred":"themeOf","subj":"T9512","obj":"T9536"}],"text":"To extend the results we obtained in the reporter assays to a physiological TB/HIV co-infection model, we next tested the effect of siRNA-mediated ablation of NFAT5 mRNA levels in MDM co-infected with a subtype B HIV-1Lai infectious molecular clone and a clinical isolate of MTb. To perform this experiment, we first constructed an HIV-1Lai clone bearing the CCR5-tropic envelope region of HIV-1Bal (HIV-1Lai/Bal-env) so that it would efficiently infect primary MDM. We used this approach to ensure that our analysis of the roles of NF-κB and NFAT5 in MTb-induced HIV-1 replication could be interpreted in the proper context of previous research findings that examined LTR regulation in the context of full-length viral replication [41]–[46]. The HIV-1Lai/Bal-Env infectious clone is isogenic for the entire sequence of the parental HIV-1Lai infectious clone except for the substitution of the HIV-1Bal envelope co-receptor binding region in place of the HIV-1Lai envelope co-receptor binding region. We note that we confirmed that HIV-1Lai/Bal-Env grew in PBMC at a similar rate to wild-type HIV-1Bal, indicating proper co-receptor engagement and internalization of this infectious clone (data not shown)."}

{"project":"bionlp-st-ge-2016-test-ihmc","denotations":[{"id":"T10254","span":{"begin":180,"end":212},"obj":"Regulation"},{"id":"T10252","span":{"begin":1057,"end":1061},"obj":"Entity"},{"id":"T10251","span":{"begin":165,"end":169},"obj":"Protein"},{"id":"T10249","span":{"begin":912,"end":923},"obj":"Protein"},{"id":"T10243","span":{"begin":756,"end":774},"obj":"Protein"},{"id":"T10242","span":{"begin":159,"end":164},"obj":"Protein"},{"id":"T10238","span":{"begin":1114,"end":1143},"obj":"Protein"},{"id":"T10237","span":{"begin":533,"end":538},"obj":"Protein"},{"id":"T10235","span":{"begin":355,"end":417},"obj":"Protein"},{"id":"T10226","span":{"begin":454,"end":465},"obj":"Protein"},{"id":"T10222","span":{"begin":275,"end":278},"obj":"Protein"},{"id":"T10215","span":{"begin":973,"end":984},"obj":"Protein"},{"id":"T10214","span":{"begin":552,"end":563},"obj":"Protein"},{"id":"T10213","span":{"begin":887,"end":911},"obj":"Protein"},{"id":"T10212","span":{"begin":951,"end":992},"obj":"Protein"},{"id":"T10211","span":{"begin":543,"end":548},"obj":"Protein"},{"id":"T10208","span":{"begin":756,"end":774},"obj":"Protein"},{"id":"T10198","span":{"begin":180,"end":212},"obj":"Protein"},{"id":"T10196","span":{"begin":37,"end":56},"obj":"Entity"}],"relations":[{"id":"R8060","pred":"themeOf","subj":"T10198","obj":"T10254"}],"text":"To extend the results we obtained in the reporter assays to a physiological TB/HIV co-infection model, we next tested the effect of siRNA-mediated ablation of NFAT5 mRNA levels in MDM co-infected with a subtype B HIV-1Lai infectious molecular clone and a clinical isolate of MTb. To perform this experiment, we first constructed an HIV-1Lai clone bearing the CCR5-tropic envelope region of HIV-1Bal (HIV-1Lai/Bal-env) so that it would efficiently infect primary MDM. We used this approach to ensure that our analysis of the roles of NF-κB and NFAT5 in MTb-induced HIV-1 replication could be interpreted in the proper context of previous research findings that examined LTR regulation in the context of full-length viral replication [41]–[46]. The HIV-1Lai/Bal-Env infectious clone is isogenic for the entire sequence of the parental HIV-1Lai infectious clone except for the substitution of the HIV-1Bal envelope co-receptor binding region in place of the HIV-1Lai envelope co-receptor binding region. We note that we confirmed that HIV-1Lai/Bal-Env grew in PBMC at a similar rate to wild-type HIV-1Bal, indicating proper co-receptor engagement and internalization of this infectious clone (data not shown)."}

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extend the results we obtained in the reporter assays to a physiological TB/HIV co-infection model, we next tested the effect of siRNA-mediated ablation of NFAT5 mRNA levels in MDM co-infected with a subtype B HIV-1Lai infectious molecular clone and a clinical isolate of MTb. To perform this experiment, we first constructed an HIV-1Lai clone bearing the CCR5-tropic envelope region of HIV-1Bal (HIV-1Lai/Bal-env) so that it would efficiently infect primary MDM. We used this approach to ensure that our analysis of the roles of NF-κB and NFAT5 in MTb-induced HIV-1 replication could be interpreted in the proper context of previous research findings that examined LTR regulation in the context of full-length viral replication [41]–[46]. The HIV-1Lai/Bal-Env infectious clone is isogenic for the entire sequence of the parental HIV-1Lai infectious clone except for the substitution of the HIV-1Bal envelope co-receptor binding region in place of the HIV-1Lai envelope co-receptor binding region. We note that we confirmed that HIV-1Lai/Bal-Env grew in PBMC at a similar rate to wild-type HIV-1Bal, indicating proper co-receptor engagement and internalization of this infectious clone (data not shown)."}

{"project":"bionlp-st-ge-2016-test-tees","denotations":[{"id":"T9598","span":{"begin":1045,"end":1048},"obj":"Protein"},{"id":"T9597","span":{"begin":955,"end":984},"obj":"Protein"},{"id":"T9596","span":{"begin":894,"end":938},"obj":"Protein"},{"id":"T9595","span":{"begin":552,"end":555},"obj":"Protein"},{"id":"T9594","span":{"begin":543,"end":548},"obj":"Protein"},{"id":"T9593","span":{"begin":533,"end":538},"obj":"Protein"},{"id":"T9592","span":{"begin":413,"end":416},"obj":"Protein"},{"id":"T9591","span":{"begin":359,"end":386},"obj":"Protein"},{"id":"T9590","span":{"begin":159,"end":169},"obj":"Protein"}],"text":"To extend the results we obtained in the reporter assays to a physiological TB/HIV co-infection model, we next tested the effect of siRNA-mediated ablation of NFAT5 mRNA levels in MDM co-infected with a subtype B HIV-1Lai infectious molecular clone and a clinical isolate of MTb. To perform this experiment, we first constructed an HIV-1Lai clone bearing the CCR5-tropic envelope region of HIV-1Bal (HIV-1Lai/Bal-env) so that it would efficiently infect primary MDM. We used this approach to ensure that our analysis of the roles of NF-κB and NFAT5 in MTb-induced HIV-1 replication could be interpreted in the proper context of previous research findings that examined LTR regulation in the context of full-length viral replication [41]–[46]. The HIV-1Lai/Bal-Env infectious clone is isogenic for the entire sequence of the parental HIV-1Lai infectious clone except for the substitution of the HIV-1Bal envelope co-receptor binding region in place of the HIV-1Lai envelope co-receptor binding region. We note that we confirmed that HIV-1Lai/Bal-Env grew in PBMC at a similar rate to wild-type HIV-1Bal, indicating proper co-receptor engagement and internalization of this infectious clone (data not shown)."}

{"project":"testone","denotations":[{"id":"T8783","span":{"begin":1045,"end":1048},"obj":"Protein"},{"id":"T8782","span":{"begin":964,"end":972},"obj":"Protein"},{"id":"T8781","span":{"begin":903,"end":911},"obj":"Protein"},{"id":"T8780","span":{"begin":760,"end":763},"obj":"Protein"},{"id":"T8779","span":{"begin":543,"end":548},"obj":"Protein"},{"id":"T8778","span":{"begin":413,"end":416},"obj":"Protein"},{"id":"T8777","span":{"begin":359,"end":363},"obj":"Protein"},{"id":"T8776","span":{"begin":159,"end":164},"obj":"Protein"}],"text":"To extend the results we obtained in the reporter assays to a physiological TB/HIV co-infection model, we next tested the effect of siRNA-mediated ablation of NFAT5 mRNA levels in MDM co-infected with a subtype B HIV-1Lai infectious molecular clone and a clinical isolate of MTb. To perform this experiment, we first constructed an HIV-1Lai clone bearing the CCR5-tropic envelope region of HIV-1Bal (HIV-1Lai/Bal-env) so that it would efficiently infect primary MDM. We used this approach to ensure that our analysis of the roles of NF-κB and NFAT5 in MTb-induced HIV-1 replication could be interpreted in the proper context of previous research findings that examined LTR regulation in the context of full-length viral replication [41]–[46]. The HIV-1Lai/Bal-Env infectious clone is isogenic for the entire sequence of the parental HIV-1Lai infectious clone except for the substitution of the HIV-1Bal envelope co-receptor binding region in place of the HIV-1Lai envelope co-receptor binding region. We note that we confirmed that HIV-1Lai/Bal-Env grew in PBMC at a similar rate to wild-type HIV-1Bal, indicating proper co-receptor engagement and internalization of this infectious clone (data not shown)."}

{"project":"test3","denotations":[{"id":"T8835","span":{"begin":1045,"end":1048},"obj":"Protein"},{"id":"T8834","span":{"begin":964,"end":972},"obj":"Protein"},{"id":"T8833","span":{"begin":903,"end":911},"obj":"Protein"},{"id":"T8832","span":{"begin":760,"end":763},"obj":"Protein"},{"id":"T8831","span":{"begin":543,"end":548},"obj":"Protein"},{"id":"T8830","span":{"begin":413,"end":416},"obj":"Protein"},{"id":"T8829","span":{"begin":359,"end":363},"obj":"Protein"},{"id":"T8828","span":{"begin":159,"end":164},"obj":"Protein"},{"id":"T8811","span":{"begin":1045,"end":1048},"obj":"Protein"},{"id":"T8810","span":{"begin":964,"end":972},"obj":"Protein"},{"id":"T8809","span":{"begin":903,"end":911},"obj":"Protein"},{"id":"T8808","span":{"begin":760,"end":763},"obj":"Protein"},{"id":"T8807","span":{"begin":543,"end":548},"obj":"Protein"},{"id":"T8806","span":{"begin":413,"end":416},"obj":"Protein"},{"id":"T8805","span":{"begin":359,"end":363},"obj":"Protein"},{"id":"T8804","span":{"begin":159,"end":164},"obj":"Protein"}],"text":"To extend the results we obtained in the reporter assays to a physiological TB/HIV co-infection model, we next tested the effect of siRNA-mediated ablation of NFAT5 mRNA levels in MDM co-infected with a subtype B HIV-1Lai infectious molecular clone and a clinical isolate of MTb. To perform this experiment, we first constructed an HIV-1Lai clone bearing the CCR5-tropic envelope region of HIV-1Bal (HIV-1Lai/Bal-env) so that it would efficiently infect primary MDM. We used this approach to ensure that our analysis of the roles of NF-κB and NFAT5 in MTb-induced HIV-1 replication could be interpreted in the proper context of previous research findings that examined LTR regulation in the context of full-length viral replication [41]–[46]. The HIV-1Lai/Bal-Env infectious clone is isogenic for the entire sequence of the parental HIV-1Lai infectious clone except for the substitution of the HIV-1Bal envelope co-receptor binding region in place of the HIV-1Lai envelope co-receptor binding region. We note that we confirmed that HIV-1Lai/Bal-Env grew in PBMC at a similar rate to wild-type HIV-1Bal, indicating proper co-receptor engagement and internalization of this infectious clone (data not shown)."}