DNA Purification:Article Title: Butyrate Protects Mice from Clostridium difficile-Induced Colitis through an HIF-1-Dependent Mechanism.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Histologic historesin Leica Cat# 7592 Giemsa Stain, Modified Solution Sigma-Aldrich Cat# 32884-250ML Protease inhibitors ThermoFisher Cat# 78430 Power SYBR Green PCR Master Mix Applied Biosystems Cat# 4367659 RPMI-1640 medium Vitrocell Embriolife Cat# R0009 Deoxyribonuclease I from bovine pancreas Sigma-Aldrich Cat# DN25 Streptomycin sulfate Sigma-Aldrich Cat# S6501 Penicillin Sigma-Aldrich Cat# 1502701 HEPES HyClone Cat# SH30237.01 Fetal Bovine Serum Corning Cat# MT35016CV b-mercaptoethanol Sigma-Aldrich Cat# M6250-10ML 0.5M EDTA pH8.0 Invitrogen Cat# AM9261 DL-Dithiothreitol (DTT) Sigma-Aldrich Cat# D9779 Collagenase IV Sigma-Aldrich Cat# C5138-500MG Ionomycin calcium salt Sigma-Aldrich Cat# I0634 L-glutamine Sigma-Aldrich Cat# G3126 Sodium Pyruvate Sigma-Aldrich Cat# P2256 MEM nonessential amino acids ThermoFisher Cat# 11140050 Tissue-Tek OCT Compound O.C.T. .. Compound Cat# 25608-930 Tris-HCl Sigma-Aldrich Cat# T5941-500G NaCl Sigma-Aldrich Cat# S9888-500G sodium dodecyl sulfate Sigma-Aldrich Cat# L3771-100G DMEM medium ThermoFisher Cat# 11966-025 Dulbecco’s (D)-PBS Sigma-Aldrich Cat# D4031-1L Calcein-AM Sigma-Aldrich Cat# 17783-1MG Propidium iodide Sigma-Aldrich Cat# P4170-10MG Triton X-100 Merck Millipore Cat# 1086431000 Hanks’ Balanced Salt solution 10X Sigma-Aldrich Cat# H4641-500ML Critical Commercial Assays PureLinkTM Microbiome DNA Purification ThermoFisher Cat# A29790 Ridascreen C. difficile Toxin A/B R-Biopharm Cat# C0801 Duo Set Kit: TNF-a R & D System Cat# DY008 Duo Set Kit: IL-6 R & D System Cat# DY406 Duo Set Kit: IL-1b R & D System Cat# DY401 Duo Set Kit: IL-10 R & D System Cat# DY417 Duo Set Kit: MIP-2 (Cxcl-2) R & D System Cat# DY452 Duo Set Kit: KC (Cxcl-1) R & D System Cat# DY453 PureLinkTM RNA Mini Kit ThermoFisher Cat# 12183020 High-Capacity cDNA Reverse Transcription Applied Biosystems Cat# 4368814 Dual Luciferase Reporter Assay System Promega Corporation Cat# E1910 Deposited Data 16S rDNA amplicon sequencing This study BioProject ID PRJNA486872 IECs RNA sequencing This study BioProject ID PRJNA515618 Experimental Models: Cell Lines HCT-116 Dr. Patrick Varga-Weisz N/A Experimental Models: Organisms/Strains C57BL/6J male mice CEMIB - UNICAMP N/A Rag-1 deficient mice USP, Ribeir~ao Preto-SP, Brazil N/A (Continued on next page) Cell Reports 27, 750–761.e1–e7, April 16, 2019 e2 .. REAGENT or RESOURCE SOURCE IDENTIFIER IL-10 deficient mice Jackson Laboratories JAX# 003968 Hif-1a floxed mice Jackson Laboratories JAX# 007561 Vhl floxed mice Jackson Laboratories JAX# 012933 Villin-Cre mice Jackson Laboratories JAX# 004586 ODD-luciferase mice Jackson Laboratories JAX# 006206 Foxp3-GFP mice Jackson Laboratories JAX# 023800 Germ-free Swiss mice UFMG Belo Horizonte-MG, Brazil N/A Oligonucleotides Primers for quantitative PCR, see Table S2 This paper N/A Bacteria probes, FITC-conjugated.
Reverse Transcription:Article Title: Butyrate Protects Mice from Clostridium difficile-Induced Colitis through an HIF-1-Dependent Mechanism.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Histologic historesin Leica Cat# 7592 Giemsa Stain, Modified Solution Sigma-Aldrich Cat# 32884-250ML Protease inhibitors ThermoFisher Cat# 78430 Power SYBR Green PCR Master Mix Applied Biosystems Cat# 4367659 RPMI-1640 medium Vitrocell Embriolife Cat# R0009 Deoxyribonuclease I from bovine pancreas Sigma-Aldrich Cat# DN25 Streptomycin sulfate Sigma-Aldrich Cat# S6501 Penicillin Sigma-Aldrich Cat# 1502701 HEPES HyClone Cat# SH30237.01 Fetal Bovine Serum Corning Cat# MT35016CV b-mercaptoethanol Sigma-Aldrich Cat# M6250-10ML 0.5M EDTA pH8.0 Invitrogen Cat# AM9261 DL-Dithiothreitol (DTT) Sigma-Aldrich Cat# D9779 Collagenase IV Sigma-Aldrich Cat# C5138-500MG Ionomycin calcium salt Sigma-Aldrich Cat# I0634 L-glutamine Sigma-Aldrich Cat# G3126 Sodium Pyruvate Sigma-Aldrich Cat# P2256 MEM nonessential amino acids ThermoFisher Cat# 11140050 Tissue-Tek OCT Compound O.C.T. .. Compound Cat# 25608-930 Tris-HCl Sigma-Aldrich Cat# T5941-500G NaCl Sigma-Aldrich Cat# S9888-500G sodium dodecyl sulfate Sigma-Aldrich Cat# L3771-100G DMEM medium ThermoFisher Cat# 11966-025 Dulbecco’s (D)-PBS Sigma-Aldrich Cat# D4031-1L Calcein-AM Sigma-Aldrich Cat# 17783-1MG Propidium iodide Sigma-Aldrich Cat# P4170-10MG Triton X-100 Merck Millipore Cat# 1086431000 Hanks’ Balanced Salt solution 10X Sigma-Aldrich Cat# H4641-500ML Critical Commercial Assays PureLinkTM Microbiome DNA Purification ThermoFisher Cat# A29790 Ridascreen C. difficile Toxin A/B R-Biopharm Cat# C0801 Duo Set Kit: TNF-a R & D System Cat# DY008 Duo Set Kit: IL-6 R & D System Cat# DY406 Duo Set Kit: IL-1b R & D System Cat# DY401 Duo Set Kit: IL-10 R & D System Cat# DY417 Duo Set Kit: MIP-2 (Cxcl-2) R & D System Cat# DY452 Duo Set Kit: KC (Cxcl-1) R & D System Cat# DY453 PureLinkTM RNA Mini Kit ThermoFisher Cat# 12183020 High-Capacity cDNA Reverse Transcription Applied Biosystems Cat# 4368814 Dual Luciferase Reporter Assay System Promega Corporation Cat# E1910 Deposited Data 16S rDNA amplicon sequencing This study BioProject ID PRJNA486872 IECs RNA sequencing This study BioProject ID PRJNA515618 Experimental Models: Cell Lines HCT-116 Dr. Patrick Varga-Weisz N/A Experimental Models: Organisms/Strains C57BL/6J male mice CEMIB - UNICAMP N/A Rag-1 deficient mice USP, Ribeir~ao Preto-SP, Brazil N/A (Continued on next page) Cell Reports 27, 750–761.e1–e7, April 16, 2019 e2 .. REAGENT or RESOURCE SOURCE IDENTIFIER IL-10 deficient mice Jackson Laboratories JAX# 003968 Hif-1a floxed mice Jackson Laboratories JAX# 007561 Vhl floxed mice Jackson Laboratories JAX# 012933 Villin-Cre mice Jackson Laboratories JAX# 004586 ODD-luciferase mice Jackson Laboratories JAX# 006206 Foxp3-GFP mice Jackson Laboratories JAX# 023800 Germ-free Swiss mice UFMG Belo Horizonte-MG, Brazil N/A Oligonucleotides Primers for quantitative PCR, see Table S2 This paper N/A Bacteria probes, FITC-conjugated.
Luciferase:Article Title: Butyrate Protects Mice from Clostridium difficile-Induced Colitis through an HIF-1-Dependent Mechanism.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Histologic historesin Leica Cat# 7592 Giemsa Stain, Modified Solution Sigma-Aldrich Cat# 32884-250ML Protease inhibitors ThermoFisher Cat# 78430 Power SYBR Green PCR Master Mix Applied Biosystems Cat# 4367659 RPMI-1640 medium Vitrocell Embriolife Cat# R0009 Deoxyribonuclease I from bovine pancreas Sigma-Aldrich Cat# DN25 Streptomycin sulfate Sigma-Aldrich Cat# S6501 Penicillin Sigma-Aldrich Cat# 1502701 HEPES HyClone Cat# SH30237.01 Fetal Bovine Serum Corning Cat# MT35016CV b-mercaptoethanol Sigma-Aldrich Cat# M6250-10ML 0.5M EDTA pH8.0 Invitrogen Cat# AM9261 DL-Dithiothreitol (DTT) Sigma-Aldrich Cat# D9779 Collagenase IV Sigma-Aldrich Cat# C5138-500MG Ionomycin calcium salt Sigma-Aldrich Cat# I0634 L-glutamine Sigma-Aldrich Cat# G3126 Sodium Pyruvate Sigma-Aldrich Cat# P2256 MEM nonessential amino acids ThermoFisher Cat# 11140050 Tissue-Tek OCT Compound O.C.T. .. Compound Cat# 25608-930 Tris-HCl Sigma-Aldrich Cat# T5941-500G NaCl Sigma-Aldrich Cat# S9888-500G sodium dodecyl sulfate Sigma-Aldrich Cat# L3771-100G DMEM medium ThermoFisher Cat# 11966-025 Dulbecco’s (D)-PBS Sigma-Aldrich Cat# D4031-1L Calcein-AM Sigma-Aldrich Cat# 17783-1MG Propidium iodide Sigma-Aldrich Cat# P4170-10MG Triton X-100 Merck Millipore Cat# 1086431000 Hanks’ Balanced Salt solution 10X Sigma-Aldrich Cat# H4641-500ML Critical Commercial Assays PureLinkTM Microbiome DNA Purification ThermoFisher Cat# A29790 Ridascreen C. difficile Toxin A/B R-Biopharm Cat# C0801 Duo Set Kit: TNF-a R & D System Cat# DY008 Duo Set Kit: IL-6 R & D System Cat# DY406 Duo Set Kit: IL-1b R & D System Cat# DY401 Duo Set Kit: IL-10 R & D System Cat# DY417 Duo Set Kit: MIP-2 (Cxcl-2) R & D System Cat# DY452 Duo Set Kit: KC (Cxcl-1) R & D System Cat# DY453 PureLinkTM RNA Mini Kit ThermoFisher Cat# 12183020 High-Capacity cDNA Reverse Transcription Applied Biosystems Cat# 4368814 Dual Luciferase Reporter Assay System Promega Corporation Cat# E1910 Deposited Data 16S rDNA amplicon sequencing This study BioProject ID PRJNA486872 IECs RNA sequencing This study BioProject ID PRJNA515618 Experimental Models: Cell Lines HCT-116 Dr. Patrick Varga-Weisz N/A Experimental Models: Organisms/Strains C57BL/6J male mice CEMIB - UNICAMP N/A Rag-1 deficient mice USP, Ribeir~ao Preto-SP, Brazil N/A (Continued on next page) Cell Reports 27, 750–761.e1–e7, April 16, 2019 e2 .. REAGENT or RESOURCE SOURCE IDENTIFIER IL-10 deficient mice Jackson Laboratories JAX# 003968 Hif-1a floxed mice Jackson Laboratories JAX# 007561 Vhl floxed mice Jackson Laboratories JAX# 012933 Villin-Cre mice Jackson Laboratories JAX# 004586 ODD-luciferase mice Jackson Laboratories JAX# 006206 Foxp3-GFP mice Jackson Laboratories JAX# 023800 Germ-free Swiss mice UFMG Belo Horizonte-MG, Brazil N/A Oligonucleotides Primers for quantitative PCR, see Table S2 This paper N/A Bacteria probes, FITC-conjugated.
Reporter Assay:Article Title: Butyrate Protects Mice from Clostridium difficile-Induced Colitis through an HIF-1-Dependent Mechanism.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Histologic historesin Leica Cat# 7592 Giemsa Stain, Modified Solution Sigma-Aldrich Cat# 32884-250ML Protease inhibitors ThermoFisher Cat# 78430 Power SYBR Green PCR Master Mix Applied Biosystems Cat# 4367659 RPMI-1640 medium Vitrocell Embriolife Cat# R0009 Deoxyribonuclease I from bovine pancreas Sigma-Aldrich Cat# DN25 Streptomycin sulfate Sigma-Aldrich Cat# S6501 Penicillin Sigma-Aldrich Cat# 1502701 HEPES HyClone Cat# SH30237.01 Fetal Bovine Serum Corning Cat# MT35016CV b-mercaptoethanol Sigma-Aldrich Cat# M6250-10ML 0.5M EDTA pH8.0 Invitrogen Cat# AM9261 DL-Dithiothreitol (DTT) Sigma-Aldrich Cat# D9779 Collagenase IV Sigma-Aldrich Cat# C5138-500MG Ionomycin calcium salt Sigma-Aldrich Cat# I0634 L-glutamine Sigma-Aldrich Cat# G3126 Sodium Pyruvate Sigma-Aldrich Cat# P2256 MEM nonessential amino acids ThermoFisher Cat# 11140050 Tissue-Tek OCT Compound O.C.T. .. Compound Cat# 25608-930 Tris-HCl Sigma-Aldrich Cat# T5941-500G NaCl Sigma-Aldrich Cat# S9888-500G sodium dodecyl sulfate Sigma-Aldrich Cat# L3771-100G DMEM medium ThermoFisher Cat# 11966-025 Dulbecco’s (D)-PBS Sigma-Aldrich Cat# D4031-1L Calcein-AM Sigma-Aldrich Cat# 17783-1MG Propidium iodide Sigma-Aldrich Cat# P4170-10MG Triton X-100 Merck Millipore Cat# 1086431000 Hanks’ Balanced Salt solution 10X Sigma-Aldrich Cat# H4641-500ML Critical Commercial Assays PureLinkTM Microbiome DNA Purification ThermoFisher Cat# A29790 Ridascreen C. difficile Toxin A/B R-Biopharm Cat# C0801 Duo Set Kit: TNF-a R & D System Cat# DY008 Duo Set Kit: IL-6 R & D System Cat# DY406 Duo Set Kit: IL-1b R & D System Cat# DY401 Duo Set Kit: IL-10 R & D System Cat# DY417 Duo Set Kit: MIP-2 (Cxcl-2) R & D System Cat# DY452 Duo Set Kit: KC (Cxcl-1) R & D System Cat# DY453 PureLinkTM RNA Mini Kit ThermoFisher Cat# 12183020 High-Capacity cDNA Reverse Transcription Applied Biosystems Cat# 4368814 Dual Luciferase Reporter Assay System Promega Corporation Cat# E1910 Deposited Data 16S rDNA amplicon sequencing This study BioProject ID PRJNA486872 IECs RNA sequencing This study BioProject ID PRJNA515618 Experimental Models: Cell Lines HCT-116 Dr. Patrick Varga-Weisz N/A Experimental Models: Organisms/Strains C57BL/6J male mice CEMIB - UNICAMP N/A Rag-1 deficient mice USP, Ribeir~ao Preto-SP, Brazil N/A (Continued on next page) Cell Reports 27, 750–761.e1–e7, April 16, 2019 e2 .. REAGENT or RESOURCE SOURCE IDENTIFIER IL-10 deficient mice Jackson Laboratories JAX# 003968 Hif-1a floxed mice Jackson Laboratories JAX# 007561 Vhl floxed mice Jackson Laboratories JAX# 012933 Villin-Cre mice Jackson Laboratories JAX# 004586 ODD-luciferase mice Jackson Laboratories JAX# 006206 Foxp3-GFP mice Jackson Laboratories JAX# 023800 Germ-free Swiss mice UFMG Belo Horizonte-MG, Brazil N/A Oligonucleotides Primers for quantitative PCR, see Table S2 This paper N/A Bacteria probes, FITC-conjugated.
Amplification:Article Title: Butyrate Protects Mice from Clostridium difficile-Induced Colitis through an HIF-1-Dependent Mechanism.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Histologic historesin Leica Cat# 7592 Giemsa Stain, Modified Solution Sigma-Aldrich Cat# 32884-250ML Protease inhibitors ThermoFisher Cat# 78430 Power SYBR Green PCR Master Mix Applied Biosystems Cat# 4367659 RPMI-1640 medium Vitrocell Embriolife Cat# R0009 Deoxyribonuclease I from bovine pancreas Sigma-Aldrich Cat# DN25 Streptomycin sulfate Sigma-Aldrich Cat# S6501 Penicillin Sigma-Aldrich Cat# 1502701 HEPES HyClone Cat# SH30237.01 Fetal Bovine Serum Corning Cat# MT35016CV b-mercaptoethanol Sigma-Aldrich Cat# M6250-10ML 0.5M EDTA pH8.0 Invitrogen Cat# AM9261 DL-Dithiothreitol (DTT) Sigma-Aldrich Cat# D9779 Collagenase IV Sigma-Aldrich Cat# C5138-500MG Ionomycin calcium salt Sigma-Aldrich Cat# I0634 L-glutamine Sigma-Aldrich Cat# G3126 Sodium Pyruvate Sigma-Aldrich Cat# P2256 MEM nonessential amino acids ThermoFisher Cat# 11140050 Tissue-Tek OCT Compound O.C.T. .. Compound Cat# 25608-930 Tris-HCl Sigma-Aldrich Cat# T5941-500G NaCl Sigma-Aldrich Cat# S9888-500G sodium dodecyl sulfate Sigma-Aldrich Cat# L3771-100G DMEM medium ThermoFisher Cat# 11966-025 Dulbecco’s (D)-PBS Sigma-Aldrich Cat# D4031-1L Calcein-AM Sigma-Aldrich Cat# 17783-1MG Propidium iodide Sigma-Aldrich Cat# P4170-10MG Triton X-100 Merck Millipore Cat# 1086431000 Hanks’ Balanced Salt solution 10X Sigma-Aldrich Cat# H4641-500ML Critical Commercial Assays PureLinkTM Microbiome DNA Purification ThermoFisher Cat# A29790 Ridascreen C. difficile Toxin A/B R-Biopharm Cat# C0801 Duo Set Kit: TNF-a R & D System Cat# DY008 Duo Set Kit: IL-6 R & D System Cat# DY406 Duo Set Kit: IL-1b R & D System Cat# DY401 Duo Set Kit: IL-10 R & D System Cat# DY417 Duo Set Kit: MIP-2 (Cxcl-2) R & D System Cat# DY452 Duo Set Kit: KC (Cxcl-1) R & D System Cat# DY453 PureLinkTM RNA Mini Kit ThermoFisher Cat# 12183020 High-Capacity cDNA Reverse Transcription Applied Biosystems Cat# 4368814 Dual Luciferase Reporter Assay System Promega Corporation Cat# E1910 Deposited Data 16S rDNA amplicon sequencing This study BioProject ID PRJNA486872 IECs RNA sequencing This study BioProject ID PRJNA515618 Experimental Models: Cell Lines HCT-116 Dr. Patrick Varga-Weisz N/A Experimental Models: Organisms/Strains C57BL/6J male mice CEMIB - UNICAMP N/A Rag-1 deficient mice USP, Ribeir~ao Preto-SP, Brazil N/A (Continued on next page) Cell Reports 27, 750–761.e1–e7, April 16, 2019 e2 .. REAGENT or RESOURCE SOURCE IDENTIFIER IL-10 deficient mice Jackson Laboratories JAX# 003968 Hif-1a floxed mice Jackson Laboratories JAX# 007561 Vhl floxed mice Jackson Laboratories JAX# 012933 Villin-Cre mice Jackson Laboratories JAX# 004586 ODD-luciferase mice Jackson Laboratories JAX# 006206 Foxp3-GFP mice Jackson Laboratories JAX# 023800 Germ-free Swiss mice UFMG Belo Horizonte-MG, Brazil N/A Oligonucleotides Primers for quantitative PCR, see Table S2 This paper N/A Bacteria probes, FITC-conjugated.
Sequencing:Article Title: Butyrate Protects Mice from Clostridium difficile-Induced Colitis through an HIF-1-Dependent Mechanism.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Histologic historesin Leica Cat# 7592 Giemsa Stain, Modified Solution Sigma-Aldrich Cat# 32884-250ML Protease inhibitors ThermoFisher Cat# 78430 Power SYBR Green PCR Master Mix Applied Biosystems Cat# 4367659 RPMI-1640 medium Vitrocell Embriolife Cat# R0009 Deoxyribonuclease I from bovine pancreas Sigma-Aldrich Cat# DN25 Streptomycin sulfate Sigma-Aldrich Cat# S6501 Penicillin Sigma-Aldrich Cat# 1502701 HEPES HyClone Cat# SH30237.01 Fetal Bovine Serum Corning Cat# MT35016CV b-mercaptoethanol Sigma-Aldrich Cat# M6250-10ML 0.5M EDTA pH8.0 Invitrogen Cat# AM9261 DL-Dithiothreitol (DTT) Sigma-Aldrich Cat# D9779 Collagenase IV Sigma-Aldrich Cat# C5138-500MG Ionomycin calcium salt Sigma-Aldrich Cat# I0634 L-glutamine Sigma-Aldrich Cat# G3126 Sodium Pyruvate Sigma-Aldrich Cat# P2256 MEM nonessential amino acids ThermoFisher Cat# 11140050 Tissue-Tek OCT Compound O.C.T. .. Compound Cat# 25608-930 Tris-HCl Sigma-Aldrich Cat# T5941-500G NaCl Sigma-Aldrich Cat# S9888-500G sodium dodecyl sulfate Sigma-Aldrich Cat# L3771-100G DMEM medium ThermoFisher Cat# 11966-025 Dulbecco’s (D)-PBS Sigma-Aldrich Cat# D4031-1L Calcein-AM Sigma-Aldrich Cat# 17783-1MG Propidium iodide Sigma-Aldrich Cat# P4170-10MG Triton X-100 Merck Millipore Cat# 1086431000 Hanks’ Balanced Salt solution 10X Sigma-Aldrich Cat# H4641-500ML Critical Commercial Assays PureLinkTM Microbiome DNA Purification ThermoFisher Cat# A29790 Ridascreen C. difficile Toxin A/B R-Biopharm Cat# C0801 Duo Set Kit: TNF-a R & D System Cat# DY008 Duo Set Kit: IL-6 R & D System Cat# DY406 Duo Set Kit: IL-1b R & D System Cat# DY401 Duo Set Kit: IL-10 R & D System Cat# DY417 Duo Set Kit: MIP-2 (Cxcl-2) R & D System Cat# DY452 Duo Set Kit: KC (Cxcl-1) R & D System Cat# DY453 PureLinkTM RNA Mini Kit ThermoFisher Cat# 12183020 High-Capacity cDNA Reverse Transcription Applied Biosystems Cat# 4368814 Dual Luciferase Reporter Assay System Promega Corporation Cat# E1910 Deposited Data 16S rDNA amplicon sequencing This study BioProject ID PRJNA486872 IECs RNA sequencing This study BioProject ID PRJNA515618 Experimental Models: Cell Lines HCT-116 Dr. Patrick Varga-Weisz N/A Experimental Models: Organisms/Strains C57BL/6J male mice CEMIB - UNICAMP N/A Rag-1 deficient mice USP, Ribeir~ao Preto-SP, Brazil N/A (Continued on next page) Cell Reports 27, 750–761.e1–e7, April 16, 2019 e2 .. REAGENT or RESOURCE SOURCE IDENTIFIER IL-10 deficient mice Jackson Laboratories JAX# 003968 Hif-1a floxed mice Jackson Laboratories JAX# 007561 Vhl floxed mice Jackson Laboratories JAX# 012933 Villin-Cre mice Jackson Laboratories JAX# 004586 ODD-luciferase mice Jackson Laboratories JAX# 006206 Foxp3-GFP mice Jackson Laboratories JAX# 023800 Germ-free Swiss mice UFMG Belo Horizonte-MG, Brazil N/A Oligonucleotides Primers for quantitative PCR, see Table S2 This paper N/A Bacteria probes, FITC-conjugated.
RNA Sequencing:Article Title: Butyrate Protects Mice from Clostridium difficile-Induced Colitis through an HIF-1-Dependent Mechanism.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Histologic historesin Leica Cat# 7592 Giemsa Stain, Modified Solution Sigma-Aldrich Cat# 32884-250ML Protease inhibitors ThermoFisher Cat# 78430 Power SYBR Green PCR Master Mix Applied Biosystems Cat# 4367659 RPMI-1640 medium Vitrocell Embriolife Cat# R0009 Deoxyribonuclease I from bovine pancreas Sigma-Aldrich Cat# DN25 Streptomycin sulfate Sigma-Aldrich Cat# S6501 Penicillin Sigma-Aldrich Cat# 1502701 HEPES HyClone Cat# SH30237.01 Fetal Bovine Serum Corning Cat# MT35016CV b-mercaptoethanol Sigma-Aldrich Cat# M6250-10ML 0.5M EDTA pH8.0 Invitrogen Cat# AM9261 DL-Dithiothreitol (DTT) Sigma-Aldrich Cat# D9779 Collagenase IV Sigma-Aldrich Cat# C5138-500MG Ionomycin calcium salt Sigma-Aldrich Cat# I0634 L-glutamine Sigma-Aldrich Cat# G3126 Sodium Pyruvate Sigma-Aldrich Cat# P2256 MEM nonessential amino acids ThermoFisher Cat# 11140050 Tissue-Tek OCT Compound O.C.T. .. Compound Cat# 25608-930 Tris-HCl Sigma-Aldrich Cat# T5941-500G NaCl Sigma-Aldrich Cat# S9888-500G sodium dodecyl sulfate Sigma-Aldrich Cat# L3771-100G DMEM medium ThermoFisher Cat# 11966-025 Dulbecco’s (D)-PBS Sigma-Aldrich Cat# D4031-1L Calcein-AM Sigma-Aldrich Cat# 17783-1MG Propidium iodide Sigma-Aldrich Cat# P4170-10MG Triton X-100 Merck Millipore Cat# 1086431000 Hanks’ Balanced Salt solution 10X Sigma-Aldrich Cat# H4641-500ML Critical Commercial Assays PureLinkTM Microbiome DNA Purification ThermoFisher Cat# A29790 Ridascreen C. difficile Toxin A/B R-Biopharm Cat# C0801 Duo Set Kit: TNF-a R & D System Cat# DY008 Duo Set Kit: IL-6 R & D System Cat# DY406 Duo Set Kit: IL-1b R & D System Cat# DY401 Duo Set Kit: IL-10 R & D System Cat# DY417 Duo Set Kit: MIP-2 (Cxcl-2) R & D System Cat# DY452 Duo Set Kit: KC (Cxcl-1) R & D System Cat# DY453 PureLinkTM RNA Mini Kit ThermoFisher Cat# 12183020 High-Capacity cDNA Reverse Transcription Applied Biosystems Cat# 4368814 Dual Luciferase Reporter Assay System Promega Corporation Cat# E1910 Deposited Data 16S rDNA amplicon sequencing This study BioProject ID PRJNA486872 IECs RNA sequencing This study BioProject ID PRJNA515618 Experimental Models: Cell Lines HCT-116 Dr. Patrick Varga-Weisz N/A Experimental Models: Organisms/Strains C57BL/6J male mice CEMIB - UNICAMP N/A Rag-1 deficient mice USP, Ribeir~ao Preto-SP, Brazil N/A (Continued on next page) Cell Reports 27, 750–761.e1–e7, April 16, 2019 e2 .. REAGENT or RESOURCE SOURCE IDENTIFIER IL-10 deficient mice Jackson Laboratories JAX# 003968 Hif-1a floxed mice Jackson Laboratories JAX# 007561 Vhl floxed mice Jackson Laboratories JAX# 012933 Villin-Cre mice Jackson Laboratories JAX# 004586 ODD-luciferase mice Jackson Laboratories JAX# 006206 Foxp3-GFP mice Jackson Laboratories JAX# 023800 Germ-free Swiss mice UFMG Belo Horizonte-MG, Brazil N/A Oligonucleotides Primers for quantitative PCR, see Table S2 This paper N/A Bacteria probes, FITC-conjugated.
MTT Assay:Article Title: Balance between immunoregulatory B cells and plasma cells drives pancreatic tumor immunity.
Article Snippet: IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 .. IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 .. Breg signature Mirlekar et al., 2020 NIH GEO repository accession GSE144504 Experimental models: Cell lines KPC 4662 Bayne et al., 2012 N/A KPC 2173 Bayne et al., 2012 N/A Experimental models: Organisms/strains C57Bl/6J mice Charles River Labs stock #027 Il10-/- Jackson Labs stock #002251 p35-/- Jackson Labs stock #002692 Ebi3-/- Jackson Labs stock #008691 mMT Jackson Labs stock #002288 KPC Hingorani et al., 2005 N/A Ebi3Tom.L/L Turnis et al., 2016 N/A CD19Cre;Ebi3L/L Mirlekar et al, 2020 N/A Oligonucleotides Oligonucleotides This paper Table S6 Oligonucleotides can be found in Table S6 Software and algorithms Flowjo software Version 10.2 Tree Star https://www.flowjo.com/ GraphPad Prism Version 8.0 GraphPad https://www.graphpad.com/scientificsoftware/prism/s TFBIND N/A https://tfbind.hgc.jp/ TFSEARCH N/A http://diyhpl.us/ bryan/irc/protocol-online/ protocol-cache/TFSEARCH.html PROMO-ALGGEN N/A http://alggen.lsi.upc.es/cgi-bin/promo_v3/ promo/promoinit.cgi?dirDB=TF_8.3 Other BD Vacutainer blood collection tubes BD Biosciences Cat#367871
Article Title: Balance between immunoregulatory B cells and plasma cells drives pancreatic tumor immunity
Article Snippet: IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 Article ll OPEN ACCESS .. IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 Article ll OPEN ACCESS .. Breg signature Mirlekar et al., 2020 NIH GEO repository accession GSE144504 Experimental models: Cell lines KPC 4662 Bayne et al., 2012 N/A KPC 2173 Bayne et al., 2012 N/A Experimental models: Organisms/strains C57Bl/6J mice Charles River Labs stock #027 Il10-/- Jackson Labs stock #002251 p35-/- Jackson Labs stock #002692 Ebi3-/- Jackson Labs stock #008691 mMT Jackson Labs stock #002288 KPC Hingorani et al., 2005 N/A Ebi3Tom.L/L Turnis et al., 2016 N/A CD19Cre;Ebi3L/L Mirlekar et al, 2020 N/A Oligonucleotides Oligonucleotides This paper Table S6 Oligonucleotides can be found in Table S6 Software and algorithms Flowjo software Version 10.2 Tree Star https://www.flowjo.com/ GraphPad Prism Version 8.0 GraphPad https://www.graphpad.com/scientificsoftware/prism/s TFBIND N/A https://tfbind.hgc.jp/ TFSEARCH N/A http://diyhpl.us/ bryan/irc/protocol-online/ protocol-cache/TFSEARCH.html PROMO-ALGGEN N/A http://alggen.lsi.upc.es/cgi-bin/promo_v3/ promo/promoinit.cgi?dirDB=TF_8.3 Other BD Vacutainer blood collection tubes BD Biosciences Cat#367871 Article ll OPEN ACCESS
In Situ:Article Title: Balance between immunoregulatory B cells and plasma cells drives pancreatic tumor immunity.
Article Snippet: IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 .. IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 .. Breg signature Mirlekar et al., 2020 NIH GEO repository accession GSE144504 Experimental models: Cell lines KPC 4662 Bayne et al., 2012 N/A KPC 2173 Bayne et al., 2012 N/A Experimental models: Organisms/strains C57Bl/6J mice Charles River Labs stock #027 Il10-/- Jackson Labs stock #002251 p35-/- Jackson Labs stock #002692 Ebi3-/- Jackson Labs stock #008691 mMT Jackson Labs stock #002288 KPC Hingorani et al., 2005 N/A Ebi3Tom.L/L Turnis et al., 2016 N/A CD19Cre;Ebi3L/L Mirlekar et al, 2020 N/A Oligonucleotides Oligonucleotides This paper Table S6 Oligonucleotides can be found in Table S6 Software and algorithms Flowjo software Version 10.2 Tree Star https://www.flowjo.com/ GraphPad Prism Version 8.0 GraphPad https://www.graphpad.com/scientificsoftware/prism/s TFBIND N/A https://tfbind.hgc.jp/ TFSEARCH N/A http://diyhpl.us/ bryan/irc/protocol-online/ protocol-cache/TFSEARCH.html PROMO-ALGGEN N/A http://alggen.lsi.upc.es/cgi-bin/promo_v3/ promo/promoinit.cgi?dirDB=TF_8.3 Other BD Vacutainer blood collection tubes BD Biosciences Cat#367871
Article Title: Balance between immunoregulatory B cells and plasma cells drives pancreatic tumor immunity
Article Snippet: IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 Article ll OPEN ACCESS .. IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 Article ll OPEN ACCESS .. Breg signature Mirlekar et al., 2020 NIH GEO repository accession GSE144504 Experimental models: Cell lines KPC 4662 Bayne et al., 2012 N/A KPC 2173 Bayne et al., 2012 N/A Experimental models: Organisms/strains C57Bl/6J mice Charles River Labs stock #027 Il10-/- Jackson Labs stock #002251 p35-/- Jackson Labs stock #002692 Ebi3-/- Jackson Labs stock #008691 mMT Jackson Labs stock #002288 KPC Hingorani et al., 2005 N/A Ebi3Tom.L/L Turnis et al., 2016 N/A CD19Cre;Ebi3L/L Mirlekar et al, 2020 N/A Oligonucleotides Oligonucleotides This paper Table S6 Oligonucleotides can be found in Table S6 Software and algorithms Flowjo software Version 10.2 Tree Star https://www.flowjo.com/ GraphPad Prism Version 8.0 GraphPad https://www.graphpad.com/scientificsoftware/prism/s TFBIND N/A https://tfbind.hgc.jp/ TFSEARCH N/A http://diyhpl.us/ bryan/irc/protocol-online/ protocol-cache/TFSEARCH.html PROMO-ALGGEN N/A http://alggen.lsi.upc.es/cgi-bin/promo_v3/ promo/promoinit.cgi?dirDB=TF_8.3 Other BD Vacutainer blood collection tubes BD Biosciences Cat#367871 Article ll OPEN ACCESS
Proximity Ligation Assay:Article Title: Balance between immunoregulatory B cells and plasma cells drives pancreatic tumor immunity.
Article Snippet: IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 .. IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 .. Breg signature Mirlekar et al., 2020 NIH GEO repository accession GSE144504 Experimental models: Cell lines KPC 4662 Bayne et al., 2012 N/A KPC 2173 Bayne et al., 2012 N/A Experimental models: Organisms/strains C57Bl/6J mice Charles River Labs stock #027 Il10-/- Jackson Labs stock #002251 p35-/- Jackson Labs stock #002692 Ebi3-/- Jackson Labs stock #008691 mMT Jackson Labs stock #002288 KPC Hingorani et al., 2005 N/A Ebi3Tom.L/L Turnis et al., 2016 N/A CD19Cre;Ebi3L/L Mirlekar et al, 2020 N/A Oligonucleotides Oligonucleotides This paper Table S6 Oligonucleotides can be found in Table S6 Software and algorithms Flowjo software Version 10.2 Tree Star https://www.flowjo.com/ GraphPad Prism Version 8.0 GraphPad https://www.graphpad.com/scientificsoftware/prism/s TFBIND N/A https://tfbind.hgc.jp/ TFSEARCH N/A http://diyhpl.us/ bryan/irc/protocol-online/ protocol-cache/TFSEARCH.html PROMO-ALGGEN N/A http://alggen.lsi.upc.es/cgi-bin/promo_v3/ promo/promoinit.cgi?dirDB=TF_8.3 Other BD Vacutainer blood collection tubes BD Biosciences Cat#367871
Article Title: Balance between immunoregulatory B cells and plasma cells drives pancreatic tumor immunity
Article Snippet: IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 Article ll OPEN ACCESS .. IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 Article ll OPEN ACCESS .. Breg signature Mirlekar et al., 2020 NIH GEO repository accession GSE144504 Experimental models: Cell lines KPC 4662 Bayne et al., 2012 N/A KPC 2173 Bayne et al., 2012 N/A Experimental models: Organisms/strains C57Bl/6J mice Charles River Labs stock #027 Il10-/- Jackson Labs stock #002251 p35-/- Jackson Labs stock #002692 Ebi3-/- Jackson Labs stock #008691 mMT Jackson Labs stock #002288 KPC Hingorani et al., 2005 N/A Ebi3Tom.L/L Turnis et al., 2016 N/A CD19Cre;Ebi3L/L Mirlekar et al, 2020 N/A Oligonucleotides Oligonucleotides This paper Table S6 Oligonucleotides can be found in Table S6 Software and algorithms Flowjo software Version 10.2 Tree Star https://www.flowjo.com/ GraphPad Prism Version 8.0 GraphPad https://www.graphpad.com/scientificsoftware/prism/s TFBIND N/A https://tfbind.hgc.jp/ TFSEARCH N/A http://diyhpl.us/ bryan/irc/protocol-online/ protocol-cache/TFSEARCH.html PROMO-ALGGEN N/A http://alggen.lsi.upc.es/cgi-bin/promo_v3/ promo/promoinit.cgi?dirDB=TF_8.3 Other BD Vacutainer blood collection tubes BD Biosciences Cat#367871 Article ll OPEN ACCESS
Enzyme-linked Immunosorbent Assay:Article Title: Balance between immunoregulatory B cells and plasma cells drives pancreatic tumor immunity.
Article Snippet: IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 .. IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 .. Breg signature Mirlekar et al., 2020 NIH GEO repository accession GSE144504 Experimental models: Cell lines KPC 4662 Bayne et al., 2012 N/A KPC 2173 Bayne et al., 2012 N/A Experimental models: Organisms/strains C57Bl/6J mice Charles River Labs stock #027 Il10-/- Jackson Labs stock #002251 p35-/- Jackson Labs stock #002692 Ebi3-/- Jackson Labs stock #008691 mMT Jackson Labs stock #002288 KPC Hingorani et al., 2005 N/A Ebi3Tom.L/L Turnis et al., 2016 N/A CD19Cre;Ebi3L/L Mirlekar et al, 2020 N/A Oligonucleotides Oligonucleotides This paper Table S6 Oligonucleotides can be found in Table S6 Software and algorithms Flowjo software Version 10.2 Tree Star https://www.flowjo.com/ GraphPad Prism Version 8.0 GraphPad https://www.graphpad.com/scientificsoftware/prism/s TFBIND N/A https://tfbind.hgc.jp/ TFSEARCH N/A http://diyhpl.us/ bryan/irc/protocol-online/ protocol-cache/TFSEARCH.html PROMO-ALGGEN N/A http://alggen.lsi.upc.es/cgi-bin/promo_v3/ promo/promoinit.cgi?dirDB=TF_8.3 Other BD Vacutainer blood collection tubes BD Biosciences Cat#367871
Article Title: Balance between immunoregulatory B cells and plasma cells drives pancreatic tumor immunity
Article Snippet: IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 Article ll OPEN ACCESS .. IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 Article ll OPEN ACCESS .. Breg signature Mirlekar et al., 2020 NIH GEO repository accession GSE144504 Experimental models: Cell lines KPC 4662 Bayne et al., 2012 N/A KPC 2173 Bayne et al., 2012 N/A Experimental models: Organisms/strains C57Bl/6J mice Charles River Labs stock #027 Il10-/- Jackson Labs stock #002251 p35-/- Jackson Labs stock #002692 Ebi3-/- Jackson Labs stock #008691 mMT Jackson Labs stock #002288 KPC Hingorani et al., 2005 N/A Ebi3Tom.L/L Turnis et al., 2016 N/A CD19Cre;Ebi3L/L Mirlekar et al, 2020 N/A Oligonucleotides Oligonucleotides This paper Table S6 Oligonucleotides can be found in Table S6 Software and algorithms Flowjo software Version 10.2 Tree Star https://www.flowjo.com/ GraphPad Prism Version 8.0 GraphPad https://www.graphpad.com/scientificsoftware/prism/s TFBIND N/A https://tfbind.hgc.jp/ TFSEARCH N/A http://diyhpl.us/ bryan/irc/protocol-online/ protocol-cache/TFSEARCH.html PROMO-ALGGEN N/A http://alggen.lsi.upc.es/cgi-bin/promo_v3/ promo/promoinit.cgi?dirDB=TF_8.3 Other BD Vacutainer blood collection tubes BD Biosciences Cat#367871 Article ll OPEN ACCESS
Extraction:Article Title: Balance between immunoregulatory B cells and plasma cells drives pancreatic tumor immunity.
Article Snippet: IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 .. IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 .. Breg signature Mirlekar et al., 2020 NIH GEO repository accession GSE144504 Experimental models: Cell lines KPC 4662 Bayne et al., 2012 N/A KPC 2173 Bayne et al., 2012 N/A Experimental models: Organisms/strains C57Bl/6J mice Charles River Labs stock #027 Il10-/- Jackson Labs stock #002251 p35-/- Jackson Labs stock #002692 Ebi3-/- Jackson Labs stock #008691 mMT Jackson Labs stock #002288 KPC Hingorani et al., 2005 N/A Ebi3Tom.L/L Turnis et al., 2016 N/A CD19Cre;Ebi3L/L Mirlekar et al, 2020 N/A Oligonucleotides Oligonucleotides This paper Table S6 Oligonucleotides can be found in Table S6 Software and algorithms Flowjo software Version 10.2 Tree Star https://www.flowjo.com/ GraphPad Prism Version 8.0 GraphPad https://www.graphpad.com/scientificsoftware/prism/s TFBIND N/A https://tfbind.hgc.jp/ TFSEARCH N/A http://diyhpl.us/ bryan/irc/protocol-online/ protocol-cache/TFSEARCH.html PROMO-ALGGEN N/A http://alggen.lsi.upc.es/cgi-bin/promo_v3/ promo/promoinit.cgi?dirDB=TF_8.3 Other BD Vacutainer blood collection tubes BD Biosciences Cat#367871
Article Title: Balance between immunoregulatory B cells and plasma cells drives pancreatic tumor immunity
Article Snippet: IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 Article ll OPEN ACCESS .. IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 Article ll OPEN ACCESS .. Breg signature Mirlekar et al., 2020 NIH GEO repository accession GSE144504 Experimental models: Cell lines KPC 4662 Bayne et al., 2012 N/A KPC 2173 Bayne et al., 2012 N/A Experimental models: Organisms/strains C57Bl/6J mice Charles River Labs stock #027 Il10-/- Jackson Labs stock #002251 p35-/- Jackson Labs stock #002692 Ebi3-/- Jackson Labs stock #008691 mMT Jackson Labs stock #002288 KPC Hingorani et al., 2005 N/A Ebi3Tom.L/L Turnis et al., 2016 N/A CD19Cre;Ebi3L/L Mirlekar et al, 2020 N/A Oligonucleotides Oligonucleotides This paper Table S6 Oligonucleotides can be found in Table S6 Software and algorithms Flowjo software Version 10.2 Tree Star https://www.flowjo.com/ GraphPad Prism Version 8.0 GraphPad https://www.graphpad.com/scientificsoftware/prism/s TFBIND N/A https://tfbind.hgc.jp/ TFSEARCH N/A http://diyhpl.us/ bryan/irc/protocol-online/ protocol-cache/TFSEARCH.html PROMO-ALGGEN N/A http://alggen.lsi.upc.es/cgi-bin/promo_v3/ promo/promoinit.cgi?dirDB=TF_8.3 Other BD Vacutainer blood collection tubes BD Biosciences Cat#367871 Article ll OPEN ACCESS
Cytotoxicity Assay:Article Title: Balance between immunoregulatory B cells and plasma cells drives pancreatic tumor immunity.
Article Snippet: IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 .. IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 .. Breg signature Mirlekar et al., 2020 NIH GEO repository accession GSE144504 Experimental models: Cell lines KPC 4662 Bayne et al., 2012 N/A KPC 2173 Bayne et al., 2012 N/A Experimental models: Organisms/strains C57Bl/6J mice Charles River Labs stock #027 Il10-/- Jackson Labs stock #002251 p35-/- Jackson Labs stock #002692 Ebi3-/- Jackson Labs stock #008691 mMT Jackson Labs stock #002288 KPC Hingorani et al., 2005 N/A Ebi3Tom.L/L Turnis et al., 2016 N/A CD19Cre;Ebi3L/L Mirlekar et al, 2020 N/A Oligonucleotides Oligonucleotides This paper Table S6 Oligonucleotides can be found in Table S6 Software and algorithms Flowjo software Version 10.2 Tree Star https://www.flowjo.com/ GraphPad Prism Version 8.0 GraphPad https://www.graphpad.com/scientificsoftware/prism/s TFBIND N/A https://tfbind.hgc.jp/ TFSEARCH N/A http://diyhpl.us/ bryan/irc/protocol-online/ protocol-cache/TFSEARCH.html PROMO-ALGGEN N/A http://alggen.lsi.upc.es/cgi-bin/promo_v3/ promo/promoinit.cgi?dirDB=TF_8.3 Other BD Vacutainer blood collection tubes BD Biosciences Cat#367871
Article Title: Balance between immunoregulatory B cells and plasma cells drives pancreatic tumor immunity
Article Snippet: IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 Article ll OPEN ACCESS .. IL-1b R & D System Cat# 401-ML/CF STA-21 (STAT3 inhibitor) Santa Cruz Biotechnology Cat# SC-200757 Fludarabine (STAT1 inhibitor) Selleckchem Cat# S1491 79-6 (BCL6 inhibitor) Selleckchem Cat# S8250 Bortezomib EMD Millipore Cat# 504314 LPS Sigma Cat# L2630 Hoechst 33258 ThermoFisher Cat# H3569 Normal mouse serum Jackson ImmunoResearch Cat# 015-000-120 penicillin-streptomycin Gibco Cat# 10378016 phorbol 12-myristate 13-acetate (PMA) Sigma Cat# P8139 Ionomycin Sigma Cat# I3909 Brefeldin A Biolegend Cat# 420601 Critical commercial assays Thiazolyl Blue Tetrazolium Bromide (MTT) Millipore-Sigma Cat# M5655 DuolinkTM flowPLA Detection Kit Millipore-Sigma Cat# DUO94001 DuolinkTM In Situ PLA Probe Anti-Rabbit PLUS Millipore-Sigma Cat# DUO92002 DuolinkTM In Situ PLA Probe Anti-Mouse MINUS Millipore-Sigma Cat# DUO92004 DuolinkTM In Situ Wash Buffer Millipore-Sigma Cat# DUO82047 IgG Mouse ELISA Kit ThermoFisher Cat# 8850-40022 IgM Mouse ELISA Kit ThermoFisher Cat# 8850-47022 Tissue Extraction Reagent ThermoFisher Cat# FNN0071 LDH-Glo cytotoxicity assay kit Promega Cat# J2380 (Continued on next page) e3 Cell Reports Medicine 3, 100744, September 20, 2022 Article ll OPEN ACCESS .. Breg signature Mirlekar et al., 2020 NIH GEO repository accession GSE144504 Experimental models: Cell lines KPC 4662 Bayne et al., 2012 N/A KPC 2173 Bayne et al., 2012 N/A Experimental models: Organisms/strains C57Bl/6J mice Charles River Labs stock #027 Il10-/- Jackson Labs stock #002251 p35-/- Jackson Labs stock #002692 Ebi3-/- Jackson Labs stock #008691 mMT Jackson Labs stock #002288 KPC Hingorani et al., 2005 N/A Ebi3Tom.L/L Turnis et al., 2016 N/A CD19Cre;Ebi3L/L Mirlekar et al, 2020 N/A Oligonucleotides Oligonucleotides This paper Table S6 Oligonucleotides can be found in Table S6 Software and algorithms Flowjo software Version 10.2 Tree Star https://www.flowjo.com/ GraphPad Prism Version 8.0 GraphPad https://www.graphpad.com/scientificsoftware/prism/s TFBIND N/A https://tfbind.hgc.jp/ TFSEARCH N/A http://diyhpl.us/ bryan/irc/protocol-online/ protocol-cache/TFSEARCH.html PROMO-ALGGEN N/A http://alggen.lsi.upc.es/cgi-bin/promo_v3/ promo/promoinit.cgi?dirDB=TF_8.3 Other BD Vacutainer blood collection tubes BD Biosciences Cat#367871 Article ll OPEN ACCESS
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