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specifically examine the functional impact of NF-κB and NFAT5 binding site usage in MDM, which are efficiently infected by both pathogens, we next isolated MDM from four normal donors and infected these cells with 1000 TCID50 of wild-type HIV-1Lai/Bal-env or with the mutant viral clones HIV-1Lai/Bal-env-κB I-Mut, HIV-1Lai/Bal-env-κB II-Mut, HIV-1Lai/Bal-env-κB I+II-Mut, or HIV-1Lai/Bal-env-N5-Mut. After overnight incubation, cell cultures were co-infected with MTb (CDC1551) or left infected with virus alone. Supernatants were collected at days 4, 7, and 12 post-HIV-1 infection and virus replication was measured. As shown in Figures 5A and 5C, in the absence of MTb co-infection, replication of mutant viral molecular clones (HIV-1Lai/Bal-env-κB I-Mut (p\u003c0.05), HIV-1Lai/Bal-env-κB II-Mut (p\u003c0.01), and HIV-1Lai/Bal-env-κB I+II-Mut (p\u003c0.01) as well as HIV-1Lai/Bal-env-N5-Mut (p\u003c0.01) were significantly reduced in comparison to the wild-type virus (Figures 5A–5C)."}

{"project":"bionlp-st-ge-2016-test-proteins","denotations":[{"id":"T13076","span":{"begin":826,"end":829},"obj":"Protein"},{"id":"T13075","span":{"begin":785,"end":788},"obj":"Protein"},{"id":"T13074","span":{"begin":749,"end":752},"obj":"Protein"},{"id":"T13073","span":{"begin":392,"end":395},"obj":"Protein"},{"id":"T13072","span":{"begin":359,"end":362},"obj":"Protein"},{"id":"T13071","span":{"begin":331,"end":334},"obj":"Protein"},{"id":"T13070","span":{"begin":304,"end":307},"obj":"Protein"},{"id":"T13069","span":{"begin":255,"end":258},"obj":"Protein"},{"id":"T13077","span":{"begin":875,"end":878},"obj":"Protein"}],"namespaces":[{"prefix":"_base","uri":"http://bionlp.dbcls.jp/ontology/ge.owl#"}],"text":"To specifically examine the functional impact of NF-κB and NFAT5 binding site usage in MDM, which are efficiently infected by both pathogens, we next isolated MDM from four normal donors and infected these cells with 1000 TCID50 of wild-type HIV-1Lai/Bal-env or with the mutant viral clones HIV-1Lai/Bal-env-κB I-Mut, HIV-1Lai/Bal-env-κB II-Mut, HIV-1Lai/Bal-env-κB I+II-Mut, or HIV-1Lai/Bal-env-N5-Mut. After overnight incubation, cell cultures were co-infected with MTb (CDC1551) or left infected with virus alone. Supernatants were collected at days 4, 7, and 12 post-HIV-1 infection and virus replication was measured. As shown in Figures 5A and 5C, in the absence of MTb co-infection, replication of mutant viral molecular clones (HIV-1Lai/Bal-env-κB I-Mut (p\u003c0.05), HIV-1Lai/Bal-env-κB II-Mut (p\u003c0.01), and HIV-1Lai/Bal-env-κB I+II-Mut (p\u003c0.01) as well as HIV-1Lai/Bal-env-N5-Mut (p\u003c0.01) were significantly reduced in comparison to the wild-type virus (Figures 5A–5C)."}

{"project":"bionlp-st-ge-2016-uniprot","denotations":[{"id":"T13176","span":{"begin":59,"end":64},"obj":"http://www.uniprot.org/uniprot/O94916"},{"id":"T13198","span":{"begin":875,"end":878},"obj":"http://www.uniprot.org/uniprot/P04578"},{"id":"T13197","span":{"begin":826,"end":829},"obj":"http://www.uniprot.org/uniprot/P04578"},{"id":"T13196","span":{"begin":785,"end":788},"obj":"http://www.uniprot.org/uniprot/P04578"},{"id":"T13195","span":{"begin":749,"end":752},"obj":"http://www.uniprot.org/uniprot/P04578"},{"id":"T13194","span":{"begin":392,"end":395},"obj":"http://www.uniprot.org/uniprot/P04578"},{"id":"T13193","span":{"begin":359,"end":362},"obj":"http://www.uniprot.org/uniprot/P04578"},{"id":"T13192","span":{"begin":331,"end":334},"obj":"http://www.uniprot.org/uniprot/P04578"},{"id":"T13191","span":{"begin":304,"end":307},"obj":"http://www.uniprot.org/uniprot/P04578"},{"id":"T13190","span":{"begin":255,"end":258},"obj":"http://www.uniprot.org/uniprot/P04578"}],"namespaces":[{"prefix":"_base","uri":"http://www.uniprot.org/uniprot/"}],"text":"To specifically examine the functional impact of NF-κB and NFAT5 binding site usage in MDM, which are efficiently infected by both pathogens, we next isolated MDM from four normal donors and infected these cells with 1000 TCID50 of wild-type HIV-1Lai/Bal-env or with the mutant viral clones HIV-1Lai/Bal-env-κB I-Mut, HIV-1Lai/Bal-env-κB II-Mut, HIV-1Lai/Bal-env-κB I+II-Mut, or HIV-1Lai/Bal-env-N5-Mut. After overnight incubation, cell cultures were co-infected with MTb (CDC1551) or left infected with virus alone. Supernatants were collected at days 4, 7, and 12 post-HIV-1 infection and virus replication was measured. As shown in Figures 5A and 5C, in the absence of MTb co-infection, replication of mutant viral molecular clones (HIV-1Lai/Bal-env-κB I-Mut (p\u003c0.05), HIV-1Lai/Bal-env-κB II-Mut (p\u003c0.01), and HIV-1Lai/Bal-env-κB I+II-Mut (p\u003c0.01) as well as HIV-1Lai/Bal-env-N5-Mut (p\u003c0.01) were significantly reduced in comparison to the wild-type virus (Figures 5A–5C)."}

{"project":"GO-MF","denotations":[{"id":"T13097","span":{"begin":65,"end":72},"obj":"http://purl.obolibrary.org/obo/GO_0005488"}],"text":"To specifically examine the functional impact of NF-κB and NFAT5 binding site usage in MDM, which are efficiently infected by both pathogens, we next isolated MDM from four normal donors and infected these cells with 1000 TCID50 of wild-type HIV-1Lai/Bal-env or with the mutant viral clones HIV-1Lai/Bal-env-κB I-Mut, HIV-1Lai/Bal-env-κB II-Mut, HIV-1Lai/Bal-env-κB I+II-Mut, or HIV-1Lai/Bal-env-N5-Mut. After overnight incubation, cell cultures were co-infected with MTb (CDC1551) or left infected with virus alone. Supernatants were collected at days 4, 7, and 12 post-HIV-1 infection and virus replication was measured. As shown in Figures 5A and 5C, in the absence of MTb co-infection, replication of mutant viral molecular clones (HIV-1Lai/Bal-env-κB I-Mut (p\u003c0.05), HIV-1Lai/Bal-env-κB II-Mut (p\u003c0.01), and HIV-1Lai/Bal-env-κB I+II-Mut (p\u003c0.01) as well as HIV-1Lai/Bal-env-N5-Mut (p\u003c0.01) were significantly reduced in comparison to the wild-type virus (Figures 5A–5C)."}

{"project":"GO-CC","denotations":[{"id":"T13105","span":{"begin":206,"end":211},"obj":"http://purl.obolibrary.org/obo/GO_0005623"}],"text":"To specifically examine the functional impact of NF-κB and NFAT5 binding site usage in MDM, which are efficiently infected by both pathogens, we next isolated MDM from four normal donors and infected these cells with 1000 TCID50 of wild-type HIV-1Lai/Bal-env or with the mutant viral clones HIV-1Lai/Bal-env-κB I-Mut, HIV-1Lai/Bal-env-κB II-Mut, HIV-1Lai/Bal-env-κB I+II-Mut, or HIV-1Lai/Bal-env-N5-Mut. After overnight incubation, cell cultures were co-infected with MTb (CDC1551) or left infected with virus alone. Supernatants were collected at days 4, 7, and 12 post-HIV-1 infection and virus replication was measured. As shown in Figures 5A and 5C, in the absence of MTb co-infection, replication of mutant viral molecular clones (HIV-1Lai/Bal-env-κB I-Mut (p\u003c0.05), HIV-1Lai/Bal-env-κB II-Mut (p\u003c0.01), and HIV-1Lai/Bal-env-κB I+II-Mut (p\u003c0.01) as well as HIV-1Lai/Bal-env-N5-Mut (p\u003c0.01) were significantly reduced in comparison to the wild-type virus (Figures 5A–5C)."}

{"project":"sentences","denotations":[{"id":"T12307","span":{"begin":623,"end":975},"obj":"Sentence"},{"id":"T12306","span":{"begin":517,"end":622},"obj":"Sentence"},{"id":"T12305","span":{"begin":0,"end":516},"obj":"Sentence"},{"id":"T202","span":{"begin":0,"end":403},"obj":"Sentence"},{"id":"T203","span":{"begin":404,"end":516},"obj":"Sentence"},{"id":"T204","span":{"begin":517,"end":622},"obj":"Sentence"},{"id":"T205","span":{"begin":623,"end":975},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"To specifically examine the functional impact of NF-κB and NFAT5 binding site usage in MDM, which are efficiently infected by both pathogens, we next isolated MDM from four normal donors and infected these cells with 1000 TCID50 of wild-type HIV-1Lai/Bal-env or with the mutant viral clones HIV-1Lai/Bal-env-κB I-Mut, HIV-1Lai/Bal-env-κB II-Mut, HIV-1Lai/Bal-env-κB I+II-Mut, or HIV-1Lai/Bal-env-N5-Mut. After overnight incubation, cell cultures were co-infected with MTb (CDC1551) or left infected with virus alone. Supernatants were collected at days 4, 7, and 12 post-HIV-1 infection and virus replication was measured. As shown in Figures 5A and 5C, in the absence of MTb co-infection, replication of mutant viral molecular clones (HIV-1Lai/Bal-env-κB I-Mut (p\u003c0.05), HIV-1Lai/Bal-env-κB II-Mut (p\u003c0.01), and HIV-1Lai/Bal-env-κB I+II-Mut (p\u003c0.01) as well as HIV-1Lai/Bal-env-N5-Mut (p\u003c0.01) were significantly reduced in comparison to the wild-type virus (Figures 5A–5C)."}

{"project":"simple1","denotations":[{"id":"T13140","span":{"begin":875,"end":878},"obj":"Protein"},{"id":"T13139","span":{"begin":826,"end":829},"obj":"Protein"},{"id":"T13138","span":{"begin":785,"end":788},"obj":"Protein"},{"id":"T13137","span":{"begin":749,"end":752},"obj":"Protein"},{"id":"T13136","span":{"begin":392,"end":395},"obj":"Protein"},{"id":"T13135","span":{"begin":359,"end":362},"obj":"Protein"},{"id":"T13134","span":{"begin":331,"end":334},"obj":"Protein"},{"id":"T13133","span":{"begin":304,"end":307},"obj":"Protein"},{"id":"T13132","span":{"begin":255,"end":258},"obj":"Protein"}],"text":"To specifically examine the functional impact of NF-κB and NFAT5 binding site usage in MDM, which are efficiently infected by both pathogens, we next isolated MDM from four normal donors and infected these cells with 1000 TCID50 of wild-type HIV-1Lai/Bal-env or with the mutant viral clones HIV-1Lai/Bal-env-κB I-Mut, HIV-1Lai/Bal-env-κB II-Mut, HIV-1Lai/Bal-env-κB I+II-Mut, or HIV-1Lai/Bal-env-N5-Mut. After overnight incubation, cell cultures were co-infected with MTb (CDC1551) or left infected with virus alone. Supernatants were collected at days 4, 7, and 12 post-HIV-1 infection and virus replication was measured. As shown in Figures 5A and 5C, in the absence of MTb co-infection, replication of mutant viral molecular clones (HIV-1Lai/Bal-env-κB I-Mut (p\u003c0.05), HIV-1Lai/Bal-env-κB II-Mut (p\u003c0.01), and HIV-1Lai/Bal-env-κB I+II-Mut (p\u003c0.01) as well as HIV-1Lai/Bal-env-N5-Mut (p\u003c0.01) were significantly reduced in comparison to the wild-type virus (Figures 5A–5C)."}

{"project":"BioNLP16_DUT","denotations":[{"id":"T13555","span":{"begin":875,"end":878},"obj":"Protein"},{"id":"T13554","span":{"begin":826,"end":829},"obj":"Protein"},{"id":"T13553","span":{"begin":785,"end":788},"obj":"Protein"},{"id":"T13552","span":{"begin":749,"end":752},"obj":"Protein"},{"id":"T13551","span":{"begin":392,"end":395},"obj":"Protein"},{"id":"T13550","span":{"begin":359,"end":362},"obj":"Protein"},{"id":"T13549","span":{"begin":331,"end":334},"obj":"Protein"},{"id":"T13548","span":{"begin":304,"end":307},"obj":"Protein"},{"id":"T13547","span":{"begin":255,"end":258},"obj":"Protein"}],"text":"To specifically examine the functional impact of NF-κB and NFAT5 binding site usage in MDM, which are efficiently infected by both pathogens, we next isolated MDM from four normal donors and infected these cells with 1000 TCID50 of wild-type HIV-1Lai/Bal-env or with the mutant viral clones HIV-1Lai/Bal-env-κB I-Mut, HIV-1Lai/Bal-env-κB II-Mut, HIV-1Lai/Bal-env-κB I+II-Mut, or HIV-1Lai/Bal-env-N5-Mut. After overnight incubation, cell cultures were co-infected with MTb (CDC1551) or left infected with virus alone. Supernatants were collected at days 4, 7, and 12 post-HIV-1 infection and virus replication was measured. As shown in Figures 5A and 5C, in the absence of MTb co-infection, replication of mutant viral molecular clones (HIV-1Lai/Bal-env-κB I-Mut (p\u003c0.05), HIV-1Lai/Bal-env-κB II-Mut (p\u003c0.01), and HIV-1Lai/Bal-env-κB I+II-Mut (p\u003c0.01) as well as HIV-1Lai/Bal-env-N5-Mut (p\u003c0.01) were significantly reduced in comparison to the wild-type virus (Figures 5A–5C)."}

{"project":"BioNLP16_Messiy","denotations":[{"id":"T13290","span":{"begin":826,"end":829},"obj":"Protein"},{"id":"T13289","span":{"begin":785,"end":788},"obj":"Protein"},{"id":"T13288","span":{"begin":749,"end":752},"obj":"Protein"},{"id":"T13287","span":{"begin":392,"end":395},"obj":"Protein"},{"id":"T13286","span":{"begin":359,"end":362},"obj":"Protein"},{"id":"T13285","span":{"begin":331,"end":334},"obj":"Protein"},{"id":"T13284","span":{"begin":304,"end":307},"obj":"Protein"},{"id":"T13283","span":{"begin":255,"end":258},"obj":"Protein"},{"id":"T13291","span":{"begin":875,"end":878},"obj":"Protein"}],"text":"To specifically examine the functional impact of NF-κB and NFAT5 binding site usage in MDM, which are efficiently infected by both pathogens, we next isolated MDM from four normal donors and infected these cells with 1000 TCID50 of wild-type HIV-1Lai/Bal-env or with the mutant viral clones HIV-1Lai/Bal-env-κB I-Mut, HIV-1Lai/Bal-env-κB II-Mut, HIV-1Lai/Bal-env-κB I+II-Mut, or HIV-1Lai/Bal-env-N5-Mut. After overnight incubation, cell cultures were co-infected with MTb (CDC1551) or left infected with virus alone. Supernatants were collected at days 4, 7, and 12 post-HIV-1 infection and virus replication was measured. As shown in Figures 5A and 5C, in the absence of MTb co-infection, replication of mutant viral molecular clones (HIV-1Lai/Bal-env-κB I-Mut (p\u003c0.05), HIV-1Lai/Bal-env-κB II-Mut (p\u003c0.01), and HIV-1Lai/Bal-env-κB I+II-Mut (p\u003c0.01) as well as HIV-1Lai/Bal-env-N5-Mut (p\u003c0.01) were significantly reduced in comparison to the wild-type virus (Figures 5A–5C)."}

{"project":"DLUT931","denotations":[{"id":"T13249","span":{"begin":875,"end":878},"obj":"Protein"},{"id":"T13248","span":{"begin":826,"end":829},"obj":"Protein"},{"id":"T13247","span":{"begin":785,"end":788},"obj":"Protein"},{"id":"T13246","span":{"begin":749,"end":752},"obj":"Protein"},{"id":"T13245","span":{"begin":392,"end":395},"obj":"Protein"},{"id":"T13244","span":{"begin":359,"end":362},"obj":"Protein"},{"id":"T13243","span":{"begin":331,"end":334},"obj":"Protein"},{"id":"T13242","span":{"begin":304,"end":307},"obj":"Protein"},{"id":"T13241","span":{"begin":255,"end":258},"obj":"Protein"}],"text":"To specifically examine the functional impact of NF-κB and NFAT5 binding site usage in MDM, which are efficiently infected by both pathogens, we next isolated MDM from four normal donors and infected these cells with 1000 TCID50 of wild-type HIV-1Lai/Bal-env or with the mutant viral clones HIV-1Lai/Bal-env-κB I-Mut, HIV-1Lai/Bal-env-κB II-Mut, HIV-1Lai/Bal-env-κB I+II-Mut, or HIV-1Lai/Bal-env-N5-Mut. After overnight incubation, cell cultures were co-infected with MTb (CDC1551) or left infected with virus alone. Supernatants were collected at days 4, 7, and 12 post-HIV-1 infection and virus replication was measured. As shown in Figures 5A and 5C, in the absence of MTb co-infection, replication of mutant viral molecular clones (HIV-1Lai/Bal-env-κB I-Mut (p\u003c0.05), HIV-1Lai/Bal-env-κB II-Mut (p\u003c0.01), and HIV-1Lai/Bal-env-κB I+II-Mut (p\u003c0.01) as well as HIV-1Lai/Bal-env-N5-Mut (p\u003c0.01) were significantly reduced in comparison to the wild-type virus (Figures 5A–5C)."}

{"project":"bionlp-st-ge-2016-test-ihmc","denotations":[{"id":"T13655","span":{"begin":669,"end":688},"obj":"Regulation"},{"id":"T13643","span":{"begin":468,"end":481},"obj":"Protein"},{"id":"T13637","span":{"begin":800,"end":801},"obj":"Entity"},{"id":"T13636","span":{"begin":46,"end":54},"obj":"Protein"},{"id":"T13634","span":{"begin":763,"end":764},"obj":"Entity"},{"id":"T13621","span":{"begin":313,"end":316},"obj":"Protein"},{"id":"T13619","span":{"begin":341,"end":344},"obj":"Protein"},{"id":"T13618","span":{"begin":517,"end":529},"obj":"Entity"},{"id":"T13615","span":{"begin":59,"end":64},"obj":"Protein"},{"id":"T13613","span":{"begin":73,"end":77},"obj":"Entity"},{"id":"T13605","span":{"begin":159,"end":162},"obj":"Protein"},{"id":"T13604","span":{"begin":887,"end":888},"obj":"Entity"},{"id":"T13597","span":{"begin":200,"end":211},"obj":"Entity"},{"id":"T13585","span":{"begin":87,"end":91},"obj":"Protein"},{"id":"T13584","span":{"begin":672,"end":675},"obj":"Protein"},{"id":"T13576","span":{"begin":843,"end":844},"obj":"Entity"}],"relations":[{"id":"R10132","pred":"themeOf","subj":"T13584","obj":"T13655"}],"text":"To specifically examine the functional impact of NF-κB and NFAT5 binding site usage in MDM, which are efficiently infected by both pathogens, we next isolated MDM from four normal donors and infected these cells with 1000 TCID50 of wild-type HIV-1Lai/Bal-env or with the mutant viral clones HIV-1Lai/Bal-env-κB I-Mut, HIV-1Lai/Bal-env-κB II-Mut, HIV-1Lai/Bal-env-κB I+II-Mut, or HIV-1Lai/Bal-env-N5-Mut. After overnight incubation, cell cultures were co-infected with MTb (CDC1551) or left infected with virus alone. Supernatants were collected at days 4, 7, and 12 post-HIV-1 infection and virus replication was measured. As shown in Figures 5A and 5C, in the absence of MTb co-infection, replication of mutant viral molecular clones (HIV-1Lai/Bal-env-κB I-Mut (p\u003c0.05), HIV-1Lai/Bal-env-κB II-Mut (p\u003c0.01), and HIV-1Lai/Bal-env-κB I+II-Mut (p\u003c0.01) as well as HIV-1Lai/Bal-env-N5-Mut (p\u003c0.01) were significantly reduced in comparison to the wild-type virus (Figures 5A–5C)."}

{"project":"bionlp-st-ge-2016-test-tees","denotations":[{"id":"T13408","span":{"begin":826,"end":829},"obj":"Protein"},{"id":"T13407","span":{"begin":795,"end":798},"obj":"Protein"},{"id":"T13406","span":{"begin":789,"end":794},"obj":"Protein"},{"id":"T13405","span":{"begin":785,"end":788},"obj":"Protein"},{"id":"T13404","span":{"begin":758,"end":761},"obj":"Protein"},{"id":"T13403","span":{"begin":753,"end":757},"obj":"Protein"},{"id":"T13402","span":{"begin":749,"end":752},"obj":"Protein"},{"id":"T13401","span":{"begin":399,"end":402},"obj":"Protein"},{"id":"T13400","span":{"begin":396,"end":398},"obj":"Protein"},{"id":"T13399","span":{"begin":392,"end":395},"obj":"Protein"},{"id":"T13398","span":{"begin":371,"end":374},"obj":"Protein"},{"id":"T13397","span":{"begin":363,"end":370},"obj":"Protein"},{"id":"T13396","span":{"begin":359,"end":362},"obj":"Protein"},{"id":"T13395","span":{"begin":341,"end":344},"obj":"Protein"},{"id":"T13394","span":{"begin":335,"end":340},"obj":"Protein"},{"id":"T13393","span":{"begin":331,"end":334},"obj":"Protein"},{"id":"T13392","span":{"begin":313,"end":316},"obj":"Protein"},{"id":"T13409","span":{"begin":830,"end":832},"obj":"Protein"},{"id":"T13391","span":{"begin":308,"end":312},"obj":"Protein"},{"id":"T13390","span":{"begin":304,"end":307},"obj":"Protein"},{"id":"T13389","span":{"begin":59,"end":64},"obj":"Protein"},{"id":"T13388","span":{"begin":49,"end":54},"obj":"Protein"}],"text":"To specifically examine the functional impact of NF-κB and NFAT5 binding site usage in MDM, which are efficiently infected by both pathogens, we next isolated MDM from four normal donors and infected these cells with 1000 TCID50 of wild-type HIV-1Lai/Bal-env or with the mutant viral clones HIV-1Lai/Bal-env-κB I-Mut, HIV-1Lai/Bal-env-κB II-Mut, HIV-1Lai/Bal-env-κB I+II-Mut, or HIV-1Lai/Bal-env-N5-Mut. After overnight incubation, cell cultures were co-infected with MTb (CDC1551) or left infected with virus alone. Supernatants were collected at days 4, 7, and 12 post-HIV-1 infection and virus replication was measured. As shown in Figures 5A and 5C, in the absence of MTb co-infection, replication of mutant viral molecular clones (HIV-1Lai/Bal-env-κB I-Mut (p\u003c0.05), HIV-1Lai/Bal-env-κB II-Mut (p\u003c0.01), and HIV-1Lai/Bal-env-κB I+II-Mut (p\u003c0.01) as well as HIV-1Lai/Bal-env-N5-Mut (p\u003c0.01) were significantly reduced in comparison to the wild-type virus (Figures 5A–5C)."}

{"project":"testone","denotations":[{"id":"T12224","span":{"begin":914,"end":921},"obj":"Negative_regulation"},{"id":"T12213","span":{"begin":875,"end":878},"obj":"Protein"},{"id":"T12212","span":{"begin":826,"end":829},"obj":"Protein"},{"id":"T12211","span":{"begin":785,"end":788},"obj":"Protein"},{"id":"T12210","span":{"begin":749,"end":752},"obj":"Protein"},{"id":"T12209","span":{"begin":392,"end":395},"obj":"Protein"},{"id":"T12208","span":{"begin":359,"end":362},"obj":"Protein"},{"id":"T12207","span":{"begin":331,"end":334},"obj":"Protein"},{"id":"T12206","span":{"begin":304,"end":307},"obj":"Protein"},{"id":"T12205","span":{"begin":255,"end":258},"obj":"Protein"}],"text":"To specifically examine the functional impact of NF-κB and NFAT5 binding site usage in MDM, which are efficiently infected by both pathogens, we next isolated MDM from four normal donors and infected these cells with 1000 TCID50 of wild-type HIV-1Lai/Bal-env or with the mutant viral clones HIV-1Lai/Bal-env-κB I-Mut, HIV-1Lai/Bal-env-κB II-Mut, HIV-1Lai/Bal-env-κB I+II-Mut, or HIV-1Lai/Bal-env-N5-Mut. After overnight incubation, cell cultures were co-infected with MTb (CDC1551) or left infected with virus alone. Supernatants were collected at days 4, 7, and 12 post-HIV-1 infection and virus replication was measured. As shown in Figures 5A and 5C, in the absence of MTb co-infection, replication of mutant viral molecular clones (HIV-1Lai/Bal-env-κB I-Mut (p\u003c0.05), HIV-1Lai/Bal-env-κB II-Mut (p\u003c0.01), and HIV-1Lai/Bal-env-κB I+II-Mut (p\u003c0.01) as well as HIV-1Lai/Bal-env-N5-Mut (p\u003c0.01) were significantly reduced in comparison to the wild-type virus (Figures 5A–5C)."}

{"project":"test3","denotations":[{"id":"T12284","span":{"begin":914,"end":921},"obj":"Negative_regulation"},{"id":"T12283","span":{"begin":875,"end":878},"obj":"Protein"},{"id":"T12282","span":{"begin":826,"end":829},"obj":"Protein"},{"id":"T12281","span":{"begin":785,"end":788},"obj":"Protein"},{"id":"T12280","span":{"begin":749,"end":752},"obj":"Protein"},{"id":"T12279","span":{"begin":392,"end":395},"obj":"Protein"},{"id":"T12278","span":{"begin":359,"end":362},"obj":"Protein"},{"id":"T12277","span":{"begin":331,"end":334},"obj":"Protein"},{"id":"T12276","span":{"begin":304,"end":307},"obj":"Protein"},{"id":"T12275","span":{"begin":255,"end":258},"obj":"Protein"},{"id":"T12251","span":{"begin":875,"end":878},"obj":"Protein"},{"id":"T12250","span":{"begin":826,"end":829},"obj":"Protein"},{"id":"T12249","span":{"begin":785,"end":788},"obj":"Protein"},{"id":"T12248","span":{"begin":749,"end":752},"obj":"Protein"},{"id":"T12247","span":{"begin":392,"end":395},"obj":"Protein"},{"id":"T12246","span":{"begin":359,"end":362},"obj":"Protein"},{"id":"T12245","span":{"begin":331,"end":334},"obj":"Protein"},{"id":"T12244","span":{"begin":304,"end":307},"obj":"Protein"},{"id":"T12243","span":{"begin":255,"end":258},"obj":"Protein"}],"text":"To specifically examine the functional impact of NF-κB and NFAT5 binding site usage in MDM, which are efficiently infected by both pathogens, we next isolated MDM from four normal donors and infected these cells with 1000 TCID50 of wild-type HIV-1Lai/Bal-env or with the mutant viral clones HIV-1Lai/Bal-env-κB I-Mut, HIV-1Lai/Bal-env-κB II-Mut, HIV-1Lai/Bal-env-κB I+II-Mut, or HIV-1Lai/Bal-env-N5-Mut. After overnight incubation, cell cultures were co-infected with MTb (CDC1551) or left infected with virus alone. Supernatants were collected at days 4, 7, and 12 post-HIV-1 infection and virus replication was measured. As shown in Figures 5A and 5C, in the absence of MTb co-infection, replication of mutant viral molecular clones (HIV-1Lai/Bal-env-κB I-Mut (p\u003c0.05), HIV-1Lai/Bal-env-κB II-Mut (p\u003c0.01), and HIV-1Lai/Bal-env-κB I+II-Mut (p\u003c0.01) as well as HIV-1Lai/Bal-env-N5-Mut (p\u003c0.01) were significantly reduced in comparison to the wild-type virus (Figures 5A–5C)."}