Gentle:Article Title: An in vitro chronic damage model impairs inflammatory and regenerative responses in human colonoid monolayers.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-human MUC2 (clone JA 10-92), Thermo Fisher Scientific Cat#MA5-32654; RRID:AB_2809931 Rabbit anti-human SLC26a3 (DRA)(pAb), Thermo Fisher Scientific Cat#PA5-68530; RRID:AB_2688605 Mouse anti-human CHGA (clone LK2H10), Thermo Fisher Scientific Cat#MA5-13096; RRID:AB_10987033 Mouse anti-human OLFM4 (clone 12) Thermo Fisher Scientific Cat#MA5-29457; RRID:AB_2785318 Goat anti-rabbit Alexa 488 Thermo Fisher Scientific Cat#A-11008; RRID:AB_143165 Goat anti-mouse Alexa 568 Thermo Fisher Scientific Cat#A-11031; RRID:AB_144696 IntesticultTM Organoid Growth Medium StemCell 06010 Matrigel VWR 356231 Advanced DMEM/F-12 Gibco 12634-010 GlutaMAX Gibco 35050062 HEPES Gibco 15630-080 Penicillin-Streptomycin Gibco 15140122 Cultrex Organoid Harvesting solution Biotechne 3700-100-01 Y-27632 StemCell 72304 Gentle Cell Dissociation Reagent StemCell 07174 Corning Transwell inserts #3470 (0.4um, 6.5mm) TC Treated - 12/plate, 4 plates VWR 29442-082 Biological samples Healthy colon tissue (colonoids) Johns Hopkins Conte Digestive Disease Basic and Translational Research Core Center NIH NIDDK P30-DK089502 Chemicals, peptides, and recombinant proteins E. coli H18 flagellin (FliC) Produced in-house Donnelly and Steiner, 2002 Critical commercial assays Human IL-8 ELISA BD Biosciences #Cat555244 Deposited data RNAseq data set from colonoids This paper GEO: GSE178698 DNAm data set form colonoids This paper GEO: GSE178700 Oligonucleotides Primers for RT-PCR This paper Table S4 Recombinant DNA Software and algorithms Graphpad Graph Pad https://www.graphpad.com/ ImageJ NIH https://imagej.nih.gov/ij/download.html Huygens Essential 18.04 1p0 Huygens https://svi.nl/Huygens-Professional Leica LAS AF 2.7.3.
Clinical Proteomics:Article Title: An in vitro chronic damage model impairs inflammatory and regenerative responses in human colonoid monolayers.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-human MUC2 (clone JA 10-92), Thermo Fisher Scientific Cat#MA5-32654; RRID:AB_2809931 Rabbit anti-human SLC26a3 (DRA)(pAb), Thermo Fisher Scientific Cat#PA5-68530; RRID:AB_2688605 Mouse anti-human CHGA (clone LK2H10), Thermo Fisher Scientific Cat#MA5-13096; RRID:AB_10987033 Mouse anti-human OLFM4 (clone 12) Thermo Fisher Scientific Cat#MA5-29457; RRID:AB_2785318 Goat anti-rabbit Alexa 488 Thermo Fisher Scientific Cat#A-11008; RRID:AB_143165 Goat anti-mouse Alexa 568 Thermo Fisher Scientific Cat#A-11031; RRID:AB_144696 IntesticultTM Organoid Growth Medium StemCell 06010 Matrigel VWR 356231 Advanced DMEM/F-12 Gibco 12634-010 GlutaMAX Gibco 35050062 HEPES Gibco 15630-080 Penicillin-Streptomycin Gibco 15140122 Cultrex Organoid Harvesting solution Biotechne 3700-100-01 Y-27632 StemCell 72304 Gentle Cell Dissociation Reagent StemCell 07174 Corning Transwell inserts #3470 (0.4um, 6.5mm) TC Treated - 12/plate, 4 plates VWR 29442-082 Biological samples Healthy colon tissue (colonoids) Johns Hopkins Conte Digestive Disease Basic and Translational Research Core Center NIH NIDDK P30-DK089502 Chemicals, peptides, and recombinant proteins E. coli H18 flagellin (FliC) Produced in-house Donnelly and Steiner, 2002 Critical commercial assays Human IL-8 ELISA BD Biosciences #Cat555244 Deposited data RNAseq data set from colonoids This paper GEO: GSE178698 DNAm data set form colonoids This paper GEO: GSE178700 Oligonucleotides Primers for RT-PCR This paper Table S4 Recombinant DNA Software and algorithms Graphpad Graph Pad https://www.graphpad.com/ ImageJ NIH https://imagej.nih.gov/ij/download.html Huygens Essential 18.04 1p0 Huygens https://svi.nl/Huygens-Professional Leica LAS AF 2.7.3.
Recombinant:Article Title: An in vitro chronic damage model impairs inflammatory and regenerative responses in human colonoid monolayers.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-human MUC2 (clone JA 10-92), Thermo Fisher Scientific Cat#MA5-32654; RRID:AB_2809931 Rabbit anti-human SLC26a3 (DRA)(pAb), Thermo Fisher Scientific Cat#PA5-68530; RRID:AB_2688605 Mouse anti-human CHGA (clone LK2H10), Thermo Fisher Scientific Cat#MA5-13096; RRID:AB_10987033 Mouse anti-human OLFM4 (clone 12) Thermo Fisher Scientific Cat#MA5-29457; RRID:AB_2785318 Goat anti-rabbit Alexa 488 Thermo Fisher Scientific Cat#A-11008; RRID:AB_143165 Goat anti-mouse Alexa 568 Thermo Fisher Scientific Cat#A-11031; RRID:AB_144696 IntesticultTM Organoid Growth Medium StemCell 06010 Matrigel VWR 356231 Advanced DMEM/F-12 Gibco 12634-010 GlutaMAX Gibco 35050062 HEPES Gibco 15630-080 Penicillin-Streptomycin Gibco 15140122 Cultrex Organoid Harvesting solution Biotechne 3700-100-01 Y-27632 StemCell 72304 Gentle Cell Dissociation Reagent StemCell 07174 Corning Transwell inserts #3470 (0.4um, 6.5mm) TC Treated - 12/plate, 4 plates VWR 29442-082 Biological samples Healthy colon tissue (colonoids) Johns Hopkins Conte Digestive Disease Basic and Translational Research Core Center NIH NIDDK P30-DK089502 Chemicals, peptides, and recombinant proteins E. coli H18 flagellin (FliC) Produced in-house Donnelly and Steiner, 2002 Critical commercial assays Human IL-8 ELISA BD Biosciences #Cat555244 Deposited data RNAseq data set from colonoids This paper GEO: GSE178698 DNAm data set form colonoids This paper GEO: GSE178700 Oligonucleotides Primers for RT-PCR This paper Table S4 Recombinant DNA Software and algorithms Graphpad Graph Pad https://www.graphpad.com/ ImageJ NIH https://imagej.nih.gov/ij/download.html Huygens Essential 18.04 1p0 Huygens https://svi.nl/Huygens-Professional Leica LAS AF 2.7.3.
Produced:Article Title: An in vitro chronic damage model impairs inflammatory and regenerative responses in human colonoid monolayers.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-human MUC2 (clone JA 10-92), Thermo Fisher Scientific Cat#MA5-32654; RRID:AB_2809931 Rabbit anti-human SLC26a3 (DRA)(pAb), Thermo Fisher Scientific Cat#PA5-68530; RRID:AB_2688605 Mouse anti-human CHGA (clone LK2H10), Thermo Fisher Scientific Cat#MA5-13096; RRID:AB_10987033 Mouse anti-human OLFM4 (clone 12) Thermo Fisher Scientific Cat#MA5-29457; RRID:AB_2785318 Goat anti-rabbit Alexa 488 Thermo Fisher Scientific Cat#A-11008; RRID:AB_143165 Goat anti-mouse Alexa 568 Thermo Fisher Scientific Cat#A-11031; RRID:AB_144696 IntesticultTM Organoid Growth Medium StemCell 06010 Matrigel VWR 356231 Advanced DMEM/F-12 Gibco 12634-010 GlutaMAX Gibco 35050062 HEPES Gibco 15630-080 Penicillin-Streptomycin Gibco 15140122 Cultrex Organoid Harvesting solution Biotechne 3700-100-01 Y-27632 StemCell 72304 Gentle Cell Dissociation Reagent StemCell 07174 Corning Transwell inserts #3470 (0.4um, 6.5mm) TC Treated - 12/plate, 4 plates VWR 29442-082 Biological samples Healthy colon tissue (colonoids) Johns Hopkins Conte Digestive Disease Basic and Translational Research Core Center NIH NIDDK P30-DK089502 Chemicals, peptides, and recombinant proteins E. coli H18 flagellin (FliC) Produced in-house Donnelly and Steiner, 2002 Critical commercial assays Human IL-8 ELISA BD Biosciences #Cat555244 Deposited data RNAseq data set from colonoids This paper GEO: GSE178698 DNAm data set form colonoids This paper GEO: GSE178700 Oligonucleotides Primers for RT-PCR This paper Table S4 Recombinant DNA Software and algorithms Graphpad Graph Pad https://www.graphpad.com/ ImageJ NIH https://imagej.nih.gov/ij/download.html Huygens Essential 18.04 1p0 Huygens https://svi.nl/Huygens-Professional Leica LAS AF 2.7.3.
Enzyme-linked Immunosorbent Assay:Article Title: An in vitro chronic damage model impairs inflammatory and regenerative responses in human colonoid monolayers.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-human MUC2 (clone JA 10-92), Thermo Fisher Scientific Cat#MA5-32654; RRID:AB_2809931 Rabbit anti-human SLC26a3 (DRA)(pAb), Thermo Fisher Scientific Cat#PA5-68530; RRID:AB_2688605 Mouse anti-human CHGA (clone LK2H10), Thermo Fisher Scientific Cat#MA5-13096; RRID:AB_10987033 Mouse anti-human OLFM4 (clone 12) Thermo Fisher Scientific Cat#MA5-29457; RRID:AB_2785318 Goat anti-rabbit Alexa 488 Thermo Fisher Scientific Cat#A-11008; RRID:AB_143165 Goat anti-mouse Alexa 568 Thermo Fisher Scientific Cat#A-11031; RRID:AB_144696 IntesticultTM Organoid Growth Medium StemCell 06010 Matrigel VWR 356231 Advanced DMEM/F-12 Gibco 12634-010 GlutaMAX Gibco 35050062 HEPES Gibco 15630-080 Penicillin-Streptomycin Gibco 15140122 Cultrex Organoid Harvesting solution Biotechne 3700-100-01 Y-27632 StemCell 72304 Gentle Cell Dissociation Reagent StemCell 07174 Corning Transwell inserts #3470 (0.4um, 6.5mm) TC Treated - 12/plate, 4 plates VWR 29442-082 Biological samples Healthy colon tissue (colonoids) Johns Hopkins Conte Digestive Disease Basic and Translational Research Core Center NIH NIDDK P30-DK089502 Chemicals, peptides, and recombinant proteins E. coli H18 flagellin (FliC) Produced in-house Donnelly and Steiner, 2002 Critical commercial assays Human IL-8 ELISA BD Biosciences #Cat555244 Deposited data RNAseq data set from colonoids This paper GEO: GSE178698 DNAm data set form colonoids This paper GEO: GSE178700 Oligonucleotides Primers for RT-PCR This paper Table S4 Recombinant DNA Software and algorithms Graphpad Graph Pad https://www.graphpad.com/ ImageJ NIH https://imagej.nih.gov/ij/download.html Huygens Essential 18.04 1p0 Huygens https://svi.nl/Huygens-Professional Leica LAS AF 2.7.3.
Reverse Transcription Polymerase Chain Reaction:Article Title: An in vitro chronic damage model impairs inflammatory and regenerative responses in human colonoid monolayers.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-human MUC2 (clone JA 10-92), Thermo Fisher Scientific Cat#MA5-32654; RRID:AB_2809931 Rabbit anti-human SLC26a3 (DRA)(pAb), Thermo Fisher Scientific Cat#PA5-68530; RRID:AB_2688605 Mouse anti-human CHGA (clone LK2H10), Thermo Fisher Scientific Cat#MA5-13096; RRID:AB_10987033 Mouse anti-human OLFM4 (clone 12) Thermo Fisher Scientific Cat#MA5-29457; RRID:AB_2785318 Goat anti-rabbit Alexa 488 Thermo Fisher Scientific Cat#A-11008; RRID:AB_143165 Goat anti-mouse Alexa 568 Thermo Fisher Scientific Cat#A-11031; RRID:AB_144696 IntesticultTM Organoid Growth Medium StemCell 06010 Matrigel VWR 356231 Advanced DMEM/F-12 Gibco 12634-010 GlutaMAX Gibco 35050062 HEPES Gibco 15630-080 Penicillin-Streptomycin Gibco 15140122 Cultrex Organoid Harvesting solution Biotechne 3700-100-01 Y-27632 StemCell 72304 Gentle Cell Dissociation Reagent StemCell 07174 Corning Transwell inserts #3470 (0.4um, 6.5mm) TC Treated - 12/plate, 4 plates VWR 29442-082 Biological samples Healthy colon tissue (colonoids) Johns Hopkins Conte Digestive Disease Basic and Translational Research Core Center NIH NIDDK P30-DK089502 Chemicals, peptides, and recombinant proteins E. coli H18 flagellin (FliC) Produced in-house Donnelly and Steiner, 2002 Critical commercial assays Human IL-8 ELISA BD Biosciences #Cat555244 Deposited data RNAseq data set from colonoids This paper GEO: GSE178698 DNAm data set form colonoids This paper GEO: GSE178700 Oligonucleotides Primers for RT-PCR This paper Table S4 Recombinant DNA Software and algorithms Graphpad Graph Pad https://www.graphpad.com/ ImageJ NIH https://imagej.nih.gov/ij/download.html Huygens Essential 18.04 1p0 Huygens https://svi.nl/Huygens-Professional Leica LAS AF 2.7.3.
Software:Article Title: An in vitro chronic damage model impairs inflammatory and regenerative responses in human colonoid monolayers.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-human MUC2 (clone JA 10-92), Thermo Fisher Scientific Cat#MA5-32654; RRID:AB_2809931 Rabbit anti-human SLC26a3 (DRA)(pAb), Thermo Fisher Scientific Cat#PA5-68530; RRID:AB_2688605 Mouse anti-human CHGA (clone LK2H10), Thermo Fisher Scientific Cat#MA5-13096; RRID:AB_10987033 Mouse anti-human OLFM4 (clone 12) Thermo Fisher Scientific Cat#MA5-29457; RRID:AB_2785318 Goat anti-rabbit Alexa 488 Thermo Fisher Scientific Cat#A-11008; RRID:AB_143165 Goat anti-mouse Alexa 568 Thermo Fisher Scientific Cat#A-11031; RRID:AB_144696 IntesticultTM Organoid Growth Medium StemCell 06010 Matrigel VWR 356231 Advanced DMEM/F-12 Gibco 12634-010 GlutaMAX Gibco 35050062 HEPES Gibco 15630-080 Penicillin-Streptomycin Gibco 15140122 Cultrex Organoid Harvesting solution Biotechne 3700-100-01 Y-27632 StemCell 72304 Gentle Cell Dissociation Reagent StemCell 07174 Corning Transwell inserts #3470 (0.4um, 6.5mm) TC Treated - 12/plate, 4 plates VWR 29442-082 Biological samples Healthy colon tissue (colonoids) Johns Hopkins Conte Digestive Disease Basic and Translational Research Core Center NIH NIDDK P30-DK089502 Chemicals, peptides, and recombinant proteins E. coli H18 flagellin (FliC) Produced in-house Donnelly and Steiner, 2002 Critical commercial assays Human IL-8 ELISA BD Biosciences #Cat555244 Deposited data RNAseq data set from colonoids This paper GEO: GSE178698 DNAm data set form colonoids This paper GEO: GSE178700 Oligonucleotides Primers for RT-PCR This paper Table S4 Recombinant DNA Software and algorithms Graphpad Graph Pad https://www.graphpad.com/ ImageJ NIH https://imagej.nih.gov/ij/download.html Huygens Essential 18.04 1p0 Huygens https://svi.nl/Huygens-Professional Leica LAS AF 2.7.3.
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