Protein Extraction:Article Title: Synergy of 5-aminolevulinate supplement and CX3CR1 suppression promotes liver regeneration via elevated IGF-1 signaling.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER 5-Aminolevulinate Macklin Cat# A800543 Brewer’s medium Solarbio Cat# LA4590 RPMI 1640 Gibco Cat# C11875500BT DMEM Gibco Cat# C11995500BT Fetal bovine serum PAN Cat# ST30-3302 M-PER Mammalian Protein Extraction Reagent Invitrogen Cat# 78501 T-PER Tissue Protein Extraction Reagent Invitrogen Cat# 78510 NuPAGE Sample Reducing Agent (10X) Invitrogen Cat# NP0004 NuPAGE LDS Sample Buffer (4X) Invitrogen Cat# NP0008 TRIzol Invitrogen Cat# 15596026 Mouse Mononuclear Cells Separation Medium Dakewe Cat# 7211011 CCK-8 Cell Counting Kit Vazyme Cat# A311 IGF-1 Prospec Cat# CYT-216 IL-4 Peprotech Cat# 214-14 Picropodophyllin Selleck Cat# S7668 LPS from E. coli O111:B4 Sigma-Aldrich Cat# L2630 AZD8797 MCE Cat# HY-13848 Pifithrin-a hydrobromide TargetMol Cat# 63208-82-2 Corn oil Macklin Cat# C805618 DMSO Sigma-Aldrich Cat# D2650 Collagenase IV Sigma-Aldrich Cat# C5138 Pronase Roche Cat# 11459643001 Percoll Sigma-Aldrich Cat# 17-0891-09 Nycodenz Accurate Chemical Cat# 1002424 Hoechst 33342 Invitrogen Cat# H3570 Tissue-Tek O.C.T Compound Sakura Cat# 4583 Critical commercial assays Dako REAL EnVision Detection System, Peroxidase/DAB+ Rabbit/Mouse Dako Cat# K5007 TrueView Autofluorescence Quenching kit Vector Cat# SP-8500 ECL Chemiluminescent HRP Substrate Advansta Cat# K-12045 ECL Ultra Western HRP Substrate Merck Millipore Cat# CS222618 Opal 7-Color Manual IHC Kit Akoya Biosciences Cat# NEL811001KT Senescence b-Galactosidase Staining Kit Beyotime Cat# C0602 Deposited data RNA sequencing data This paper Database: https://ngdc.cncb.ac.cn/ gsa/ Accession number: CRA010549 Experimental models: Cell lines Human: THLE2 ATCC CRL-2706 Human: HepG2 Cell Bank of Type Culture Collection, Shanghai SCSP-510 Human: Huh-7 Cell Bank of Type Culture Collection, Shanghai SCSP-526 Human: LX2 Chen et al.79 N/A Mouse: RAW 264.7 Wu et al.80 N/A Experimental models: Organisms/strains Mouse: B6.129P2(Cg)-Cx3cr1tm1Litt/J Jackson lab 005582 Mouse: C57BL6/J Zhuhai BesTest Bio-Tech Co,.Ltd N/A (Continued on next page) 20 Cell Reports 42, 112984, August 29, 2023 .. REAGENT or RESOURCE SOURCE IDENTIFIER Oligonucleotides Primers used for quantitative real-time PCR and genotyping This Paper Table S3 Software and algorithms Syngo.via.VB20 Siemens Healthineers https://www.siemens-healthineers.com/ digital-health-solutions/syngovia R v4.0.2 The R Foundation https://www.r-project.org Hisat2 v2.0.5 Kim et al.81 http://daehwankimlab.github.io/hisat2/ featureCounts package v2.0.1 Liao et al.82 https://subread.sourceforge.net/ featureCounts.html DESeq2 package 1.26.0 Love et al.83 https://bioconductor.org/packages/ release/bioc/html/DESeq2.html clusterProfiler package 3.14.3 Yu et al.84 https://bioconductor.org/packages/ release/bioc/html/clusterProfiler.html Graphpad Prism 8.0 Graphpad https://www.graphpad.com/ Zen 2.6 Zeiss https://www.zeiss.com/microscopy/en/ products/software/zeiss-zen.html Leica Application Suite X 3.7.6 Leica microsystems https://www.leica-microsystems.com/ products/microscope-software/p/ leica-las-x-ls/ TissueFAXS SL Viewer 7.0.6245 Tissuegnostics https://tissuegnostics.com/products/ scanning-and-viewing-software/ tissuefaxs-viewer Harmony 4.8 PerkinElmer https://www.perkinelmer.com.cn/Product/ harmony-4-8-office-hh17000001 ImageJ 1.53 National Institutes of Health https://imagej.nih.gov/ij/ CytExpert 2.4 Beckman https://www.beckman.com/ flow-cytometry/research-flow-cytometers/ cytoflex/software
CCK-8 Assay:Article Title: Synergy of 5-aminolevulinate supplement and CX3CR1 suppression promotes liver regeneration via elevated IGF-1 signaling.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER 5-Aminolevulinate Macklin Cat# A800543 Brewer’s medium Solarbio Cat# LA4590 RPMI 1640 Gibco Cat# C11875500BT DMEM Gibco Cat# C11995500BT Fetal bovine serum PAN Cat# ST30-3302 M-PER Mammalian Protein Extraction Reagent Invitrogen Cat# 78501 T-PER Tissue Protein Extraction Reagent Invitrogen Cat# 78510 NuPAGE Sample Reducing Agent (10X) Invitrogen Cat# NP0004 NuPAGE LDS Sample Buffer (4X) Invitrogen Cat# NP0008 TRIzol Invitrogen Cat# 15596026 Mouse Mononuclear Cells Separation Medium Dakewe Cat# 7211011 CCK-8 Cell Counting Kit Vazyme Cat# A311 IGF-1 Prospec Cat# CYT-216 IL-4 Peprotech Cat# 214-14 Picropodophyllin Selleck Cat# S7668 LPS from E. coli O111:B4 Sigma-Aldrich Cat# L2630 AZD8797 MCE Cat# HY-13848 Pifithrin-a hydrobromide TargetMol Cat# 63208-82-2 Corn oil Macklin Cat# C805618 DMSO Sigma-Aldrich Cat# D2650 Collagenase IV Sigma-Aldrich Cat# C5138 Pronase Roche Cat# 11459643001 Percoll Sigma-Aldrich Cat# 17-0891-09 Nycodenz Accurate Chemical Cat# 1002424 Hoechst 33342 Invitrogen Cat# H3570 Tissue-Tek O.C.T Compound Sakura Cat# 4583 Critical commercial assays Dako REAL EnVision Detection System, Peroxidase/DAB+ Rabbit/Mouse Dako Cat# K5007 TrueView Autofluorescence Quenching kit Vector Cat# SP-8500 ECL Chemiluminescent HRP Substrate Advansta Cat# K-12045 ECL Ultra Western HRP Substrate Merck Millipore Cat# CS222618 Opal 7-Color Manual IHC Kit Akoya Biosciences Cat# NEL811001KT Senescence b-Galactosidase Staining Kit Beyotime Cat# C0602 Deposited data RNA sequencing data This paper Database: https://ngdc.cncb.ac.cn/ gsa/ Accession number: CRA010549 Experimental models: Cell lines Human: THLE2 ATCC CRL-2706 Human: HepG2 Cell Bank of Type Culture Collection, Shanghai SCSP-510 Human: Huh-7 Cell Bank of Type Culture Collection, Shanghai SCSP-526 Human: LX2 Chen et al.79 N/A Mouse: RAW 264.7 Wu et al.80 N/A Experimental models: Organisms/strains Mouse: B6.129P2(Cg)-Cx3cr1tm1Litt/J Jackson lab 005582 Mouse: C57BL6/J Zhuhai BesTest Bio-Tech Co,.Ltd N/A (Continued on next page) 20 Cell Reports 42, 112984, August 29, 2023 .. REAGENT or RESOURCE SOURCE IDENTIFIER Oligonucleotides Primers used for quantitative real-time PCR and genotyping This Paper Table S3 Software and algorithms Syngo.via.VB20 Siemens Healthineers https://www.siemens-healthineers.com/ digital-health-solutions/syngovia R v4.0.2 The R Foundation https://www.r-project.org Hisat2 v2.0.5 Kim et al.81 http://daehwankimlab.github.io/hisat2/ featureCounts package v2.0.1 Liao et al.82 https://subread.sourceforge.net/ featureCounts.html DESeq2 package 1.26.0 Love et al.83 https://bioconductor.org/packages/ release/bioc/html/DESeq2.html clusterProfiler package 3.14.3 Yu et al.84 https://bioconductor.org/packages/ release/bioc/html/clusterProfiler.html Graphpad Prism 8.0 Graphpad https://www.graphpad.com/ Zen 2.6 Zeiss https://www.zeiss.com/microscopy/en/ products/software/zeiss-zen.html Leica Application Suite X 3.7.6 Leica microsystems https://www.leica-microsystems.com/ products/microscope-software/p/ leica-las-x-ls/ TissueFAXS SL Viewer 7.0.6245 Tissuegnostics https://tissuegnostics.com/products/ scanning-and-viewing-software/ tissuefaxs-viewer Harmony 4.8 PerkinElmer https://www.perkinelmer.com.cn/Product/ harmony-4-8-office-hh17000001 ImageJ 1.53 National Institutes of Health https://imagej.nih.gov/ij/ CytExpert 2.4 Beckman https://www.beckman.com/ flow-cytometry/research-flow-cytometers/ cytoflex/software
Cell Counting:Article Title: Synergy of 5-aminolevulinate supplement and CX3CR1 suppression promotes liver regeneration via elevated IGF-1 signaling.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER 5-Aminolevulinate Macklin Cat# A800543 Brewer’s medium Solarbio Cat# LA4590 RPMI 1640 Gibco Cat# C11875500BT DMEM Gibco Cat# C11995500BT Fetal bovine serum PAN Cat# ST30-3302 M-PER Mammalian Protein Extraction Reagent Invitrogen Cat# 78501 T-PER Tissue Protein Extraction Reagent Invitrogen Cat# 78510 NuPAGE Sample Reducing Agent (10X) Invitrogen Cat# NP0004 NuPAGE LDS Sample Buffer (4X) Invitrogen Cat# NP0008 TRIzol Invitrogen Cat# 15596026 Mouse Mononuclear Cells Separation Medium Dakewe Cat# 7211011 CCK-8 Cell Counting Kit Vazyme Cat# A311 IGF-1 Prospec Cat# CYT-216 IL-4 Peprotech Cat# 214-14 Picropodophyllin Selleck Cat# S7668 LPS from E. coli O111:B4 Sigma-Aldrich Cat# L2630 AZD8797 MCE Cat# HY-13848 Pifithrin-a hydrobromide TargetMol Cat# 63208-82-2 Corn oil Macklin Cat# C805618 DMSO Sigma-Aldrich Cat# D2650 Collagenase IV Sigma-Aldrich Cat# C5138 Pronase Roche Cat# 11459643001 Percoll Sigma-Aldrich Cat# 17-0891-09 Nycodenz Accurate Chemical Cat# 1002424 Hoechst 33342 Invitrogen Cat# H3570 Tissue-Tek O.C.T Compound Sakura Cat# 4583 Critical commercial assays Dako REAL EnVision Detection System, Peroxidase/DAB+ Rabbit/Mouse Dako Cat# K5007 TrueView Autofluorescence Quenching kit Vector Cat# SP-8500 ECL Chemiluminescent HRP Substrate Advansta Cat# K-12045 ECL Ultra Western HRP Substrate Merck Millipore Cat# CS222618 Opal 7-Color Manual IHC Kit Akoya Biosciences Cat# NEL811001KT Senescence b-Galactosidase Staining Kit Beyotime Cat# C0602 Deposited data RNA sequencing data This paper Database: https://ngdc.cncb.ac.cn/ gsa/ Accession number: CRA010549 Experimental models: Cell lines Human: THLE2 ATCC CRL-2706 Human: HepG2 Cell Bank of Type Culture Collection, Shanghai SCSP-510 Human: Huh-7 Cell Bank of Type Culture Collection, Shanghai SCSP-526 Human: LX2 Chen et al.79 N/A Mouse: RAW 264.7 Wu et al.80 N/A Experimental models: Organisms/strains Mouse: B6.129P2(Cg)-Cx3cr1tm1Litt/J Jackson lab 005582 Mouse: C57BL6/J Zhuhai BesTest Bio-Tech Co,.Ltd N/A (Continued on next page) 20 Cell Reports 42, 112984, August 29, 2023 .. REAGENT or RESOURCE SOURCE IDENTIFIER Oligonucleotides Primers used for quantitative real-time PCR and genotyping This Paper Table S3 Software and algorithms Syngo.via.VB20 Siemens Healthineers https://www.siemens-healthineers.com/ digital-health-solutions/syngovia R v4.0.2 The R Foundation https://www.r-project.org Hisat2 v2.0.5 Kim et al.81 http://daehwankimlab.github.io/hisat2/ featureCounts package v2.0.1 Liao et al.82 https://subread.sourceforge.net/ featureCounts.html DESeq2 package 1.26.0 Love et al.83 https://bioconductor.org/packages/ release/bioc/html/DESeq2.html clusterProfiler package 3.14.3 Yu et al.84 https://bioconductor.org/packages/ release/bioc/html/clusterProfiler.html Graphpad Prism 8.0 Graphpad https://www.graphpad.com/ Zen 2.6 Zeiss https://www.zeiss.com/microscopy/en/ products/software/zeiss-zen.html Leica Application Suite X 3.7.6 Leica microsystems https://www.leica-microsystems.com/ products/microscope-software/p/ leica-las-x-ls/ TissueFAXS SL Viewer 7.0.6245 Tissuegnostics https://tissuegnostics.com/products/ scanning-and-viewing-software/ tissuefaxs-viewer Harmony 4.8 PerkinElmer https://www.perkinelmer.com.cn/Product/ harmony-4-8-office-hh17000001 ImageJ 1.53 National Institutes of Health https://imagej.nih.gov/ij/ CytExpert 2.4 Beckman https://www.beckman.com/ flow-cytometry/research-flow-cytometers/ cytoflex/software
Western Blot:Article Title: Synergy of 5-aminolevulinate supplement and CX3CR1 suppression promotes liver regeneration via elevated IGF-1 signaling.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER 5-Aminolevulinate Macklin Cat# A800543 Brewer’s medium Solarbio Cat# LA4590 RPMI 1640 Gibco Cat# C11875500BT DMEM Gibco Cat# C11995500BT Fetal bovine serum PAN Cat# ST30-3302 M-PER Mammalian Protein Extraction Reagent Invitrogen Cat# 78501 T-PER Tissue Protein Extraction Reagent Invitrogen Cat# 78510 NuPAGE Sample Reducing Agent (10X) Invitrogen Cat# NP0004 NuPAGE LDS Sample Buffer (4X) Invitrogen Cat# NP0008 TRIzol Invitrogen Cat# 15596026 Mouse Mononuclear Cells Separation Medium Dakewe Cat# 7211011 CCK-8 Cell Counting Kit Vazyme Cat# A311 IGF-1 Prospec Cat# CYT-216 IL-4 Peprotech Cat# 214-14 Picropodophyllin Selleck Cat# S7668 LPS from E. coli O111:B4 Sigma-Aldrich Cat# L2630 AZD8797 MCE Cat# HY-13848 Pifithrin-a hydrobromide TargetMol Cat# 63208-82-2 Corn oil Macklin Cat# C805618 DMSO Sigma-Aldrich Cat# D2650 Collagenase IV Sigma-Aldrich Cat# C5138 Pronase Roche Cat# 11459643001 Percoll Sigma-Aldrich Cat# 17-0891-09 Nycodenz Accurate Chemical Cat# 1002424 Hoechst 33342 Invitrogen Cat# H3570 Tissue-Tek O.C.T Compound Sakura Cat# 4583 Critical commercial assays Dako REAL EnVision Detection System, Peroxidase/DAB+ Rabbit/Mouse Dako Cat# K5007 TrueView Autofluorescence Quenching kit Vector Cat# SP-8500 ECL Chemiluminescent HRP Substrate Advansta Cat# K-12045 ECL Ultra Western HRP Substrate Merck Millipore Cat# CS222618 Opal 7-Color Manual IHC Kit Akoya Biosciences Cat# NEL811001KT Senescence b-Galactosidase Staining Kit Beyotime Cat# C0602 Deposited data RNA sequencing data This paper Database: https://ngdc.cncb.ac.cn/ gsa/ Accession number: CRA010549 Experimental models: Cell lines Human: THLE2 ATCC CRL-2706 Human: HepG2 Cell Bank of Type Culture Collection, Shanghai SCSP-510 Human: Huh-7 Cell Bank of Type Culture Collection, Shanghai SCSP-526 Human: LX2 Chen et al.79 N/A Mouse: RAW 264.7 Wu et al.80 N/A Experimental models: Organisms/strains Mouse: B6.129P2(Cg)-Cx3cr1tm1Litt/J Jackson lab 005582 Mouse: C57BL6/J Zhuhai BesTest Bio-Tech Co,.Ltd N/A (Continued on next page) 20 Cell Reports 42, 112984, August 29, 2023 .. REAGENT or RESOURCE SOURCE IDENTIFIER Oligonucleotides Primers used for quantitative real-time PCR and genotyping This Paper Table S3 Software and algorithms Syngo.via.VB20 Siemens Healthineers https://www.siemens-healthineers.com/ digital-health-solutions/syngovia R v4.0.2 The R Foundation https://www.r-project.org Hisat2 v2.0.5 Kim et al.81 http://daehwankimlab.github.io/hisat2/ featureCounts package v2.0.1 Liao et al.82 https://subread.sourceforge.net/ featureCounts.html DESeq2 package 1.26.0 Love et al.83 https://bioconductor.org/packages/ release/bioc/html/DESeq2.html clusterProfiler package 3.14.3 Yu et al.84 https://bioconductor.org/packages/ release/bioc/html/clusterProfiler.html Graphpad Prism 8.0 Graphpad https://www.graphpad.com/ Zen 2.6 Zeiss https://www.zeiss.com/microscopy/en/ products/software/zeiss-zen.html Leica Application Suite X 3.7.6 Leica microsystems https://www.leica-microsystems.com/ products/microscope-software/p/ leica-las-x-ls/ TissueFAXS SL Viewer 7.0.6245 Tissuegnostics https://tissuegnostics.com/products/ scanning-and-viewing-software/ tissuefaxs-viewer Harmony 4.8 PerkinElmer https://www.perkinelmer.com.cn/Product/ harmony-4-8-office-hh17000001 ImageJ 1.53 National Institutes of Health https://imagej.nih.gov/ij/ CytExpert 2.4 Beckman https://www.beckman.com/ flow-cytometry/research-flow-cytometers/ cytoflex/software
Immunohistochemistry:Article Title: Synergy of 5-aminolevulinate supplement and CX3CR1 suppression promotes liver regeneration via elevated IGF-1 signaling.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER 5-Aminolevulinate Macklin Cat# A800543 Brewer’s medium Solarbio Cat# LA4590 RPMI 1640 Gibco Cat# C11875500BT DMEM Gibco Cat# C11995500BT Fetal bovine serum PAN Cat# ST30-3302 M-PER Mammalian Protein Extraction Reagent Invitrogen Cat# 78501 T-PER Tissue Protein Extraction Reagent Invitrogen Cat# 78510 NuPAGE Sample Reducing Agent (10X) Invitrogen Cat# NP0004 NuPAGE LDS Sample Buffer (4X) Invitrogen Cat# NP0008 TRIzol Invitrogen Cat# 15596026 Mouse Mononuclear Cells Separation Medium Dakewe Cat# 7211011 CCK-8 Cell Counting Kit Vazyme Cat# A311 IGF-1 Prospec Cat# CYT-216 IL-4 Peprotech Cat# 214-14 Picropodophyllin Selleck Cat# S7668 LPS from E. coli O111:B4 Sigma-Aldrich Cat# L2630 AZD8797 MCE Cat# HY-13848 Pifithrin-a hydrobromide TargetMol Cat# 63208-82-2 Corn oil Macklin Cat# C805618 DMSO Sigma-Aldrich Cat# D2650 Collagenase IV Sigma-Aldrich Cat# C5138 Pronase Roche Cat# 11459643001 Percoll Sigma-Aldrich Cat# 17-0891-09 Nycodenz Accurate Chemical Cat# 1002424 Hoechst 33342 Invitrogen Cat# H3570 Tissue-Tek O.C.T Compound Sakura Cat# 4583 Critical commercial assays Dako REAL EnVision Detection System, Peroxidase/DAB+ Rabbit/Mouse Dako Cat# K5007 TrueView Autofluorescence Quenching kit Vector Cat# SP-8500 ECL Chemiluminescent HRP Substrate Advansta Cat# K-12045 ECL Ultra Western HRP Substrate Merck Millipore Cat# CS222618 Opal 7-Color Manual IHC Kit Akoya Biosciences Cat# NEL811001KT Senescence b-Galactosidase Staining Kit Beyotime Cat# C0602 Deposited data RNA sequencing data This paper Database: https://ngdc.cncb.ac.cn/ gsa/ Accession number: CRA010549 Experimental models: Cell lines Human: THLE2 ATCC CRL-2706 Human: HepG2 Cell Bank of Type Culture Collection, Shanghai SCSP-510 Human: Huh-7 Cell Bank of Type Culture Collection, Shanghai SCSP-526 Human: LX2 Chen et al.79 N/A Mouse: RAW 264.7 Wu et al.80 N/A Experimental models: Organisms/strains Mouse: B6.129P2(Cg)-Cx3cr1tm1Litt/J Jackson lab 005582 Mouse: C57BL6/J Zhuhai BesTest Bio-Tech Co,.Ltd N/A (Continued on next page) 20 Cell Reports 42, 112984, August 29, 2023 .. REAGENT or RESOURCE SOURCE IDENTIFIER Oligonucleotides Primers used for quantitative real-time PCR and genotyping This Paper Table S3 Software and algorithms Syngo.via.VB20 Siemens Healthineers https://www.siemens-healthineers.com/ digital-health-solutions/syngovia R v4.0.2 The R Foundation https://www.r-project.org Hisat2 v2.0.5 Kim et al.81 http://daehwankimlab.github.io/hisat2/ featureCounts package v2.0.1 Liao et al.82 https://subread.sourceforge.net/ featureCounts.html DESeq2 package 1.26.0 Love et al.83 https://bioconductor.org/packages/ release/bioc/html/DESeq2.html clusterProfiler package 3.14.3 Yu et al.84 https://bioconductor.org/packages/ release/bioc/html/clusterProfiler.html Graphpad Prism 8.0 Graphpad https://www.graphpad.com/ Zen 2.6 Zeiss https://www.zeiss.com/microscopy/en/ products/software/zeiss-zen.html Leica Application Suite X 3.7.6 Leica microsystems https://www.leica-microsystems.com/ products/microscope-software/p/ leica-las-x-ls/ TissueFAXS SL Viewer 7.0.6245 Tissuegnostics https://tissuegnostics.com/products/ scanning-and-viewing-software/ tissuefaxs-viewer Harmony 4.8 PerkinElmer https://www.perkinelmer.com.cn/Product/ harmony-4-8-office-hh17000001 ImageJ 1.53 National Institutes of Health https://imagej.nih.gov/ij/ CytExpert 2.4 Beckman https://www.beckman.com/ flow-cytometry/research-flow-cytometers/ cytoflex/software
Staining:Article Title: Synergy of 5-aminolevulinate supplement and CX3CR1 suppression promotes liver regeneration via elevated IGF-1 signaling.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER 5-Aminolevulinate Macklin Cat# A800543 Brewer’s medium Solarbio Cat# LA4590 RPMI 1640 Gibco Cat# C11875500BT DMEM Gibco Cat# C11995500BT Fetal bovine serum PAN Cat# ST30-3302 M-PER Mammalian Protein Extraction Reagent Invitrogen Cat# 78501 T-PER Tissue Protein Extraction Reagent Invitrogen Cat# 78510 NuPAGE Sample Reducing Agent (10X) Invitrogen Cat# NP0004 NuPAGE LDS Sample Buffer (4X) Invitrogen Cat# NP0008 TRIzol Invitrogen Cat# 15596026 Mouse Mononuclear Cells Separation Medium Dakewe Cat# 7211011 CCK-8 Cell Counting Kit Vazyme Cat# A311 IGF-1 Prospec Cat# CYT-216 IL-4 Peprotech Cat# 214-14 Picropodophyllin Selleck Cat# S7668 LPS from E. coli O111:B4 Sigma-Aldrich Cat# L2630 AZD8797 MCE Cat# HY-13848 Pifithrin-a hydrobromide TargetMol Cat# 63208-82-2 Corn oil Macklin Cat# C805618 DMSO Sigma-Aldrich Cat# D2650 Collagenase IV Sigma-Aldrich Cat# C5138 Pronase Roche Cat# 11459643001 Percoll Sigma-Aldrich Cat# 17-0891-09 Nycodenz Accurate Chemical Cat# 1002424 Hoechst 33342 Invitrogen Cat# H3570 Tissue-Tek O.C.T Compound Sakura Cat# 4583 Critical commercial assays Dako REAL EnVision Detection System, Peroxidase/DAB+ Rabbit/Mouse Dako Cat# K5007 TrueView Autofluorescence Quenching kit Vector Cat# SP-8500 ECL Chemiluminescent HRP Substrate Advansta Cat# K-12045 ECL Ultra Western HRP Substrate Merck Millipore Cat# CS222618 Opal 7-Color Manual IHC Kit Akoya Biosciences Cat# NEL811001KT Senescence b-Galactosidase Staining Kit Beyotime Cat# C0602 Deposited data RNA sequencing data This paper Database: https://ngdc.cncb.ac.cn/ gsa/ Accession number: CRA010549 Experimental models: Cell lines Human: THLE2 ATCC CRL-2706 Human: HepG2 Cell Bank of Type Culture Collection, Shanghai SCSP-510 Human: Huh-7 Cell Bank of Type Culture Collection, Shanghai SCSP-526 Human: LX2 Chen et al.79 N/A Mouse: RAW 264.7 Wu et al.80 N/A Experimental models: Organisms/strains Mouse: B6.129P2(Cg)-Cx3cr1tm1Litt/J Jackson lab 005582 Mouse: C57BL6/J Zhuhai BesTest Bio-Tech Co,.Ltd N/A (Continued on next page) 20 Cell Reports 42, 112984, August 29, 2023 .. REAGENT or RESOURCE SOURCE IDENTIFIER Oligonucleotides Primers used for quantitative real-time PCR and genotyping This Paper Table S3 Software and algorithms Syngo.via.VB20 Siemens Healthineers https://www.siemens-healthineers.com/ digital-health-solutions/syngovia R v4.0.2 The R Foundation https://www.r-project.org Hisat2 v2.0.5 Kim et al.81 http://daehwankimlab.github.io/hisat2/ featureCounts package v2.0.1 Liao et al.82 https://subread.sourceforge.net/ featureCounts.html DESeq2 package 1.26.0 Love et al.83 https://bioconductor.org/packages/ release/bioc/html/DESeq2.html clusterProfiler package 3.14.3 Yu et al.84 https://bioconductor.org/packages/ release/bioc/html/clusterProfiler.html Graphpad Prism 8.0 Graphpad https://www.graphpad.com/ Zen 2.6 Zeiss https://www.zeiss.com/microscopy/en/ products/software/zeiss-zen.html Leica Application Suite X 3.7.6 Leica microsystems https://www.leica-microsystems.com/ products/microscope-software/p/ leica-las-x-ls/ TissueFAXS SL Viewer 7.0.6245 Tissuegnostics https://tissuegnostics.com/products/ scanning-and-viewing-software/ tissuefaxs-viewer Harmony 4.8 PerkinElmer https://www.perkinelmer.com.cn/Product/ harmony-4-8-office-hh17000001 ImageJ 1.53 National Institutes of Health https://imagej.nih.gov/ij/ CytExpert 2.4 Beckman https://www.beckman.com/ flow-cytometry/research-flow-cytometers/ cytoflex/software
RNA Sequencing:Article Title: Synergy of 5-aminolevulinate supplement and CX3CR1 suppression promotes liver regeneration via elevated IGF-1 signaling.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER 5-Aminolevulinate Macklin Cat# A800543 Brewer’s medium Solarbio Cat# LA4590 RPMI 1640 Gibco Cat# C11875500BT DMEM Gibco Cat# C11995500BT Fetal bovine serum PAN Cat# ST30-3302 M-PER Mammalian Protein Extraction Reagent Invitrogen Cat# 78501 T-PER Tissue Protein Extraction Reagent Invitrogen Cat# 78510 NuPAGE Sample Reducing Agent (10X) Invitrogen Cat# NP0004 NuPAGE LDS Sample Buffer (4X) Invitrogen Cat# NP0008 TRIzol Invitrogen Cat# 15596026 Mouse Mononuclear Cells Separation Medium Dakewe Cat# 7211011 CCK-8 Cell Counting Kit Vazyme Cat# A311 IGF-1 Prospec Cat# CYT-216 IL-4 Peprotech Cat# 214-14 Picropodophyllin Selleck Cat# S7668 LPS from E. coli O111:B4 Sigma-Aldrich Cat# L2630 AZD8797 MCE Cat# HY-13848 Pifithrin-a hydrobromide TargetMol Cat# 63208-82-2 Corn oil Macklin Cat# C805618 DMSO Sigma-Aldrich Cat# D2650 Collagenase IV Sigma-Aldrich Cat# C5138 Pronase Roche Cat# 11459643001 Percoll Sigma-Aldrich Cat# 17-0891-09 Nycodenz Accurate Chemical Cat# 1002424 Hoechst 33342 Invitrogen Cat# H3570 Tissue-Tek O.C.T Compound Sakura Cat# 4583 Critical commercial assays Dako REAL EnVision Detection System, Peroxidase/DAB+ Rabbit/Mouse Dako Cat# K5007 TrueView Autofluorescence Quenching kit Vector Cat# SP-8500 ECL Chemiluminescent HRP Substrate Advansta Cat# K-12045 ECL Ultra Western HRP Substrate Merck Millipore Cat# CS222618 Opal 7-Color Manual IHC Kit Akoya Biosciences Cat# NEL811001KT Senescence b-Galactosidase Staining Kit Beyotime Cat# C0602 Deposited data RNA sequencing data This paper Database: https://ngdc.cncb.ac.cn/ gsa/ Accession number: CRA010549 Experimental models: Cell lines Human: THLE2 ATCC CRL-2706 Human: HepG2 Cell Bank of Type Culture Collection, Shanghai SCSP-510 Human: Huh-7 Cell Bank of Type Culture Collection, Shanghai SCSP-526 Human: LX2 Chen et al.79 N/A Mouse: RAW 264.7 Wu et al.80 N/A Experimental models: Organisms/strains Mouse: B6.129P2(Cg)-Cx3cr1tm1Litt/J Jackson lab 005582 Mouse: C57BL6/J Zhuhai BesTest Bio-Tech Co,.Ltd N/A (Continued on next page) 20 Cell Reports 42, 112984, August 29, 2023 .. REAGENT or RESOURCE SOURCE IDENTIFIER Oligonucleotides Primers used for quantitative real-time PCR and genotyping This Paper Table S3 Software and algorithms Syngo.via.VB20 Siemens Healthineers https://www.siemens-healthineers.com/ digital-health-solutions/syngovia R v4.0.2 The R Foundation https://www.r-project.org Hisat2 v2.0.5 Kim et al.81 http://daehwankimlab.github.io/hisat2/ featureCounts package v2.0.1 Liao et al.82 https://subread.sourceforge.net/ featureCounts.html DESeq2 package 1.26.0 Love et al.83 https://bioconductor.org/packages/ release/bioc/html/DESeq2.html clusterProfiler package 3.14.3 Yu et al.84 https://bioconductor.org/packages/ release/bioc/html/clusterProfiler.html Graphpad Prism 8.0 Graphpad https://www.graphpad.com/ Zen 2.6 Zeiss https://www.zeiss.com/microscopy/en/ products/software/zeiss-zen.html Leica Application Suite X 3.7.6 Leica microsystems https://www.leica-microsystems.com/ products/microscope-software/p/ leica-las-x-ls/ TissueFAXS SL Viewer 7.0.6245 Tissuegnostics https://tissuegnostics.com/products/ scanning-and-viewing-software/ tissuefaxs-viewer Harmony 4.8 PerkinElmer https://www.perkinelmer.com.cn/Product/ harmony-4-8-office-hh17000001 ImageJ 1.53 National Institutes of Health https://imagej.nih.gov/ij/ CytExpert 2.4 Beckman https://www.beckman.com/ flow-cytometry/research-flow-cytometers/ cytoflex/software
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