SYBR Green Assay:Article Title: Complex human gut microbiome cultured in an anaerobic human gut-on-a-chip
Article Snippet: Bacterial swimming was quantified at 12 hours, imaging the plates using a FluorChem M imaging system (ProteinSimple). .. Diagnostoc com Rneasy Mini Kit Qiagen Cat74104 PowerUp SYBR Green Master Mix Thermo Fisher Cat#A25742 Scientific SuperScript IV VILO Master Mix Thermo Fisher Cat#11756500 Scientific Shiga Toxin 1 ELISA Abraxis Cat#542000 Deposited data RNA-seq data Sequence Read Archive (accession: PRJNA497914]) Oligonucleotides Primer: fliC 1259 Forward (Morgan et al., 2014) Primer for fliC 1355 Reverse (Morgan et al., 2014) Primer for rpoA Forward (Yin et al., 2011) Primer for rpoA Reverse (Yin et al., 2011) Primer for arcA Forward (Jandu et al., 2009) Primer for arcA Reverse (Jandu et al., 2009) Primer for Keio Flic knockout Forward This study Primer for Keio Flic knockout Reverse This study Recombinant DNA pGEN-GFP(LVA) CbR plasmid (Wiles et al., 2009) F primer FliC 2 R promer FliC 2 fli C-lux s28 flagellin gene Mobley Lab promoter fusion (AmpR) Software and algorithms Fiji (Schindelin et al., https://fiji.sc/ 2012) StackReg plugin (Thevenaz et al., https://imagej .net/S tack 1998) Reg TrackMate plugin (Tinevez et al., 2017) https://imagej.net/Track Mate R language and environment for statistical https://www.r- computing project.org/ Linear Models for Microarray Data (limma) (Ritchie et al., 2015) 10.18129/B9.bioc.limm package a R metabolomics package (Bowne JB, 2014) https://cran.r- project.org/web/packag es/metabolomics/index. html DEseq package (Love et al., 2014) 10.18129/B 9.bioc .DES eq ClusterProfiler (Yu et al., 2012) 10.18129/B9.bioc.clust erProfiler IMARIS Bitplane Each of these embodiments and obvious variations thereof is contemplated as falling within the spirit and scope of the claimed invention, which is set forth in the following claims. ..
Enzyme-linked Immunosorbent Assay:Article Title: Complex human gut microbiome cultured in an anaerobic human gut-on-a-chip
Article Snippet: Bacterial swimming was quantified at 12 hours, imaging the plates using a FluorChem M imaging system (ProteinSimple). .. Diagnostoc com Rneasy Mini Kit Qiagen Cat74104 PowerUp SYBR Green Master Mix Thermo Fisher Cat#A25742 Scientific SuperScript IV VILO Master Mix Thermo Fisher Cat#11756500 Scientific Shiga Toxin 1 ELISA Abraxis Cat#542000 Deposited data RNA-seq data Sequence Read Archive (accession: PRJNA497914]) Oligonucleotides Primer: fliC 1259 Forward (Morgan et al., 2014) Primer for fliC 1355 Reverse (Morgan et al., 2014) Primer for rpoA Forward (Yin et al., 2011) Primer for rpoA Reverse (Yin et al., 2011) Primer for arcA Forward (Jandu et al., 2009) Primer for arcA Reverse (Jandu et al., 2009) Primer for Keio Flic knockout Forward This study Primer for Keio Flic knockout Reverse This study Recombinant DNA pGEN-GFP(LVA) CbR plasmid (Wiles et al., 2009) F primer FliC 2 R promer FliC 2 fli C-lux s28 flagellin gene Mobley Lab promoter fusion (AmpR) Software and algorithms Fiji (Schindelin et al., https://fiji.sc/ 2012) StackReg plugin (Thevenaz et al., https://imagej .net/S tack 1998) Reg TrackMate plugin (Tinevez et al., 2017) https://imagej.net/Track Mate R language and environment for statistical https://www.r- computing project.org/ Linear Models for Microarray Data (limma) (Ritchie et al., 2015) 10.18129/B9.bioc.limm package a R metabolomics package (Bowne JB, 2014) https://cran.r- project.org/web/packag es/metabolomics/index. html DEseq package (Love et al., 2014) 10.18129/B 9.bioc .DES eq ClusterProfiler (Yu et al., 2012) 10.18129/B9.bioc.clust erProfiler IMARIS Bitplane Each of these embodiments and obvious variations thereof is contemplated as falling within the spirit and scope of the claimed invention, which is set forth in the following claims. ..
RNA Sequencing:Article Title: Complex human gut microbiome cultured in an anaerobic human gut-on-a-chip
Article Snippet: Bacterial swimming was quantified at 12 hours, imaging the plates using a FluorChem M imaging system (ProteinSimple). .. Diagnostoc com Rneasy Mini Kit Qiagen Cat74104 PowerUp SYBR Green Master Mix Thermo Fisher Cat#A25742 Scientific SuperScript IV VILO Master Mix Thermo Fisher Cat#11756500 Scientific Shiga Toxin 1 ELISA Abraxis Cat#542000 Deposited data RNA-seq data Sequence Read Archive (accession: PRJNA497914]) Oligonucleotides Primer: fliC 1259 Forward (Morgan et al., 2014) Primer for fliC 1355 Reverse (Morgan et al., 2014) Primer for rpoA Forward (Yin et al., 2011) Primer for rpoA Reverse (Yin et al., 2011) Primer for arcA Forward (Jandu et al., 2009) Primer for arcA Reverse (Jandu et al., 2009) Primer for Keio Flic knockout Forward This study Primer for Keio Flic knockout Reverse This study Recombinant DNA pGEN-GFP(LVA) CbR plasmid (Wiles et al., 2009) F primer FliC 2 R promer FliC 2 fli C-lux s28 flagellin gene Mobley Lab promoter fusion (AmpR) Software and algorithms Fiji (Schindelin et al., https://fiji.sc/ 2012) StackReg plugin (Thevenaz et al., https://imagej .net/S tack 1998) Reg TrackMate plugin (Tinevez et al., 2017) https://imagej.net/Track Mate R language and environment for statistical https://www.r- computing project.org/ Linear Models for Microarray Data (limma) (Ritchie et al., 2015) 10.18129/B9.bioc.limm package a R metabolomics package (Bowne JB, 2014) https://cran.r- project.org/web/packag es/metabolomics/index. html DEseq package (Love et al., 2014) 10.18129/B 9.bioc .DES eq ClusterProfiler (Yu et al., 2012) 10.18129/B9.bioc.clust erProfiler IMARIS Bitplane Each of these embodiments and obvious variations thereof is contemplated as falling within the spirit and scope of the claimed invention, which is set forth in the following claims. ..
Sequencing:Article Title: Complex human gut microbiome cultured in an anaerobic human gut-on-a-chip
Article Snippet: Bacterial swimming was quantified at 12 hours, imaging the plates using a FluorChem M imaging system (ProteinSimple). .. Diagnostoc com Rneasy Mini Kit Qiagen Cat74104 PowerUp SYBR Green Master Mix Thermo Fisher Cat#A25742 Scientific SuperScript IV VILO Master Mix Thermo Fisher Cat#11756500 Scientific Shiga Toxin 1 ELISA Abraxis Cat#542000 Deposited data RNA-seq data Sequence Read Archive (accession: PRJNA497914]) Oligonucleotides Primer: fliC 1259 Forward (Morgan et al., 2014) Primer for fliC 1355 Reverse (Morgan et al., 2014) Primer for rpoA Forward (Yin et al., 2011) Primer for rpoA Reverse (Yin et al., 2011) Primer for arcA Forward (Jandu et al., 2009) Primer for arcA Reverse (Jandu et al., 2009) Primer for Keio Flic knockout Forward This study Primer for Keio Flic knockout Reverse This study Recombinant DNA pGEN-GFP(LVA) CbR plasmid (Wiles et al., 2009) F primer FliC 2 R promer FliC 2 fli C-lux s28 flagellin gene Mobley Lab promoter fusion (AmpR) Software and algorithms Fiji (Schindelin et al., https://fiji.sc/ 2012) StackReg plugin (Thevenaz et al., https://imagej .net/S tack 1998) Reg TrackMate plugin (Tinevez et al., 2017) https://imagej.net/Track Mate R language and environment for statistical https://www.r- computing project.org/ Linear Models for Microarray Data (limma) (Ritchie et al., 2015) 10.18129/B9.bioc.limm package a R metabolomics package (Bowne JB, 2014) https://cran.r- project.org/web/packag es/metabolomics/index. html DEseq package (Love et al., 2014) 10.18129/B 9.bioc .DES eq ClusterProfiler (Yu et al., 2012) 10.18129/B9.bioc.clust erProfiler IMARIS Bitplane Each of these embodiments and obvious variations thereof is contemplated as falling within the spirit and scope of the claimed invention, which is set forth in the following claims. ..
Knock-Out:Article Title: Complex human gut microbiome cultured in an anaerobic human gut-on-a-chip
Article Snippet: Bacterial swimming was quantified at 12 hours, imaging the plates using a FluorChem M imaging system (ProteinSimple). .. Diagnostoc com Rneasy Mini Kit Qiagen Cat74104 PowerUp SYBR Green Master Mix Thermo Fisher Cat#A25742 Scientific SuperScript IV VILO Master Mix Thermo Fisher Cat#11756500 Scientific Shiga Toxin 1 ELISA Abraxis Cat#542000 Deposited data RNA-seq data Sequence Read Archive (accession: PRJNA497914]) Oligonucleotides Primer: fliC 1259 Forward (Morgan et al., 2014) Primer for fliC 1355 Reverse (Morgan et al., 2014) Primer for rpoA Forward (Yin et al., 2011) Primer for rpoA Reverse (Yin et al., 2011) Primer for arcA Forward (Jandu et al., 2009) Primer for arcA Reverse (Jandu et al., 2009) Primer for Keio Flic knockout Forward This study Primer for Keio Flic knockout Reverse This study Recombinant DNA pGEN-GFP(LVA) CbR plasmid (Wiles et al., 2009) F primer FliC 2 R promer FliC 2 fli C-lux s28 flagellin gene Mobley Lab promoter fusion (AmpR) Software and algorithms Fiji (Schindelin et al., https://fiji.sc/ 2012) StackReg plugin (Thevenaz et al., https://imagej .net/S tack 1998) Reg TrackMate plugin (Tinevez et al., 2017) https://imagej.net/Track Mate R language and environment for statistical https://www.r- computing project.org/ Linear Models for Microarray Data (limma) (Ritchie et al., 2015) 10.18129/B9.bioc.limm package a R metabolomics package (Bowne JB, 2014) https://cran.r- project.org/web/packag es/metabolomics/index. html DEseq package (Love et al., 2014) 10.18129/B 9.bioc .DES eq ClusterProfiler (Yu et al., 2012) 10.18129/B9.bioc.clust erProfiler IMARIS Bitplane Each of these embodiments and obvious variations thereof is contemplated as falling within the spirit and scope of the claimed invention, which is set forth in the following claims. ..
Recombinant:Article Title: Complex human gut microbiome cultured in an anaerobic human gut-on-a-chip
Article Snippet: Bacterial swimming was quantified at 12 hours, imaging the plates using a FluorChem M imaging system (ProteinSimple). .. Diagnostoc com Rneasy Mini Kit Qiagen Cat74104 PowerUp SYBR Green Master Mix Thermo Fisher Cat#A25742 Scientific SuperScript IV VILO Master Mix Thermo Fisher Cat#11756500 Scientific Shiga Toxin 1 ELISA Abraxis Cat#542000 Deposited data RNA-seq data Sequence Read Archive (accession: PRJNA497914]) Oligonucleotides Primer: fliC 1259 Forward (Morgan et al., 2014) Primer for fliC 1355 Reverse (Morgan et al., 2014) Primer for rpoA Forward (Yin et al., 2011) Primer for rpoA Reverse (Yin et al., 2011) Primer for arcA Forward (Jandu et al., 2009) Primer for arcA Reverse (Jandu et al., 2009) Primer for Keio Flic knockout Forward This study Primer for Keio Flic knockout Reverse This study Recombinant DNA pGEN-GFP(LVA) CbR plasmid (Wiles et al., 2009) F primer FliC 2 R promer FliC 2 fli C-lux s28 flagellin gene Mobley Lab promoter fusion (AmpR) Software and algorithms Fiji (Schindelin et al., https://fiji.sc/ 2012) StackReg plugin (Thevenaz et al., https://imagej .net/S tack 1998) Reg TrackMate plugin (Tinevez et al., 2017) https://imagej.net/Track Mate R language and environment for statistical https://www.r- computing project.org/ Linear Models for Microarray Data (limma) (Ritchie et al., 2015) 10.18129/B9.bioc.limm package a R metabolomics package (Bowne JB, 2014) https://cran.r- project.org/web/packag es/metabolomics/index. html DEseq package (Love et al., 2014) 10.18129/B 9.bioc .DES eq ClusterProfiler (Yu et al., 2012) 10.18129/B9.bioc.clust erProfiler IMARIS Bitplane Each of these embodiments and obvious variations thereof is contemplated as falling within the spirit and scope of the claimed invention, which is set forth in the following claims. ..
Plasmid Preparation:Article Title: Complex human gut microbiome cultured in an anaerobic human gut-on-a-chip
Article Snippet: Bacterial swimming was quantified at 12 hours, imaging the plates using a FluorChem M imaging system (ProteinSimple). .. Diagnostoc com Rneasy Mini Kit Qiagen Cat74104 PowerUp SYBR Green Master Mix Thermo Fisher Cat#A25742 Scientific SuperScript IV VILO Master Mix Thermo Fisher Cat#11756500 Scientific Shiga Toxin 1 ELISA Abraxis Cat#542000 Deposited data RNA-seq data Sequence Read Archive (accession: PRJNA497914]) Oligonucleotides Primer: fliC 1259 Forward (Morgan et al., 2014) Primer for fliC 1355 Reverse (Morgan et al., 2014) Primer for rpoA Forward (Yin et al., 2011) Primer for rpoA Reverse (Yin et al., 2011) Primer for arcA Forward (Jandu et al., 2009) Primer for arcA Reverse (Jandu et al., 2009) Primer for Keio Flic knockout Forward This study Primer for Keio Flic knockout Reverse This study Recombinant DNA pGEN-GFP(LVA) CbR plasmid (Wiles et al., 2009) F primer FliC 2 R promer FliC 2 fli C-lux s28 flagellin gene Mobley Lab promoter fusion (AmpR) Software and algorithms Fiji (Schindelin et al., https://fiji.sc/ 2012) StackReg plugin (Thevenaz et al., https://imagej .net/S tack 1998) Reg TrackMate plugin (Tinevez et al., 2017) https://imagej.net/Track Mate R language and environment for statistical https://www.r- computing project.org/ Linear Models for Microarray Data (limma) (Ritchie et al., 2015) 10.18129/B9.bioc.limm package a R metabolomics package (Bowne JB, 2014) https://cran.r- project.org/web/packag es/metabolomics/index. html DEseq package (Love et al., 2014) 10.18129/B 9.bioc .DES eq ClusterProfiler (Yu et al., 2012) 10.18129/B9.bioc.clust erProfiler IMARIS Bitplane Each of these embodiments and obvious variations thereof is contemplated as falling within the spirit and scope of the claimed invention, which is set forth in the following claims. ..
Software:Article Title: Complex human gut microbiome cultured in an anaerobic human gut-on-a-chip
Article Snippet: Bacterial swimming was quantified at 12 hours, imaging the plates using a FluorChem M imaging system (ProteinSimple). .. Diagnostoc com Rneasy Mini Kit Qiagen Cat74104 PowerUp SYBR Green Master Mix Thermo Fisher Cat#A25742 Scientific SuperScript IV VILO Master Mix Thermo Fisher Cat#11756500 Scientific Shiga Toxin 1 ELISA Abraxis Cat#542000 Deposited data RNA-seq data Sequence Read Archive (accession: PRJNA497914]) Oligonucleotides Primer: fliC 1259 Forward (Morgan et al., 2014) Primer for fliC 1355 Reverse (Morgan et al., 2014) Primer for rpoA Forward (Yin et al., 2011) Primer for rpoA Reverse (Yin et al., 2011) Primer for arcA Forward (Jandu et al., 2009) Primer for arcA Reverse (Jandu et al., 2009) Primer for Keio Flic knockout Forward This study Primer for Keio Flic knockout Reverse This study Recombinant DNA pGEN-GFP(LVA) CbR plasmid (Wiles et al., 2009) F primer FliC 2 R promer FliC 2 fli C-lux s28 flagellin gene Mobley Lab promoter fusion (AmpR) Software and algorithms Fiji (Schindelin et al., https://fiji.sc/ 2012) StackReg plugin (Thevenaz et al., https://imagej .net/S tack 1998) Reg TrackMate plugin (Tinevez et al., 2017) https://imagej.net/Track Mate R language and environment for statistical https://www.r- computing project.org/ Linear Models for Microarray Data (limma) (Ritchie et al., 2015) 10.18129/B9.bioc.limm package a R metabolomics package (Bowne JB, 2014) https://cran.r- project.org/web/packag es/metabolomics/index. html DEseq package (Love et al., 2014) 10.18129/B 9.bioc .DES eq ClusterProfiler (Yu et al., 2012) 10.18129/B9.bioc.clust erProfiler IMARIS Bitplane Each of these embodiments and obvious variations thereof is contemplated as falling within the spirit and scope of the claimed invention, which is set forth in the following claims. ..
Microarray:Article Title: Complex human gut microbiome cultured in an anaerobic human gut-on-a-chip
Article Snippet: Bacterial swimming was quantified at 12 hours, imaging the plates using a FluorChem M imaging system (ProteinSimple). .. Diagnostoc com Rneasy Mini Kit Qiagen Cat74104 PowerUp SYBR Green Master Mix Thermo Fisher Cat#A25742 Scientific SuperScript IV VILO Master Mix Thermo Fisher Cat#11756500 Scientific Shiga Toxin 1 ELISA Abraxis Cat#542000 Deposited data RNA-seq data Sequence Read Archive (accession: PRJNA497914]) Oligonucleotides Primer: fliC 1259 Forward (Morgan et al., 2014) Primer for fliC 1355 Reverse (Morgan et al., 2014) Primer for rpoA Forward (Yin et al., 2011) Primer for rpoA Reverse (Yin et al., 2011) Primer for arcA Forward (Jandu et al., 2009) Primer for arcA Reverse (Jandu et al., 2009) Primer for Keio Flic knockout Forward This study Primer for Keio Flic knockout Reverse This study Recombinant DNA pGEN-GFP(LVA) CbR plasmid (Wiles et al., 2009) F primer FliC 2 R promer FliC 2 fli C-lux s28 flagellin gene Mobley Lab promoter fusion (AmpR) Software and algorithms Fiji (Schindelin et al., https://fiji.sc/ 2012) StackReg plugin (Thevenaz et al., https://imagej .net/S tack 1998) Reg TrackMate plugin (Tinevez et al., 2017) https://imagej.net/Track Mate R language and environment for statistical https://www.r- computing project.org/ Linear Models for Microarray Data (limma) (Ritchie et al., 2015) 10.18129/B9.bioc.limm package a R metabolomics package (Bowne JB, 2014) https://cran.r- project.org/web/packag es/metabolomics/index. html DEseq package (Love et al., 2014) 10.18129/B 9.bioc .DES eq ClusterProfiler (Yu et al., 2012) 10.18129/B9.bioc.clust erProfiler IMARIS Bitplane Each of these embodiments and obvious variations thereof is contemplated as falling within the spirit and scope of the claimed invention, which is set forth in the following claims. ..
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