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5 protocols using mmp 9 af909

1

Immunostaining and Confocal Microscopy

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Immunostaining was performed in cryostat sections, as described [9 (link),11 (link)]. Mac-1 (M1/70), Ly-6G (1A8), and PECAM-1 (MEC13.3) from BD Biosciences, MMP-2 (Ab19167; Millipore), and MMP-9 (AF909; R&D Systems) antibodies were used at optimal dilutions. Sections were blindly evaluated by counting ten HPFs/section in triplicates. Dual/triple staining was detected by immunofluorescence with Alexa Fluor 594-red anti-rabbit IgG (H+L) and Alexa Fluor 488-green anti-rat IgG (H+L) (Molecular Probes); Vectashield mounting media with DAPI (Vector Laboratories) was used for nuclear staining. Slides were analyzed using a Leica Confocal Microscope.
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2

Liver Histology and Immunohistochemistry

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Liver histology and immunohistochemistry were performed in paraffin or cryostat sections as previously published.28 Liver specimens were fixed with a 10% buffered formalin solution, embedded in paraffin, and processed for hematoxylin and eosin (H&E) staining. To access the percentage of steatosis, livers were fixed in 4% parafomaldehyde in PBS, embedded in OCT, and processed for Oil Red O staining. Immunohistochemistry was performed using Mac-1 (M1/70) and Ly-6G (1A8) from BD Biosciences, MMP-9 (AF909; R&D Systems), and Tnc (MTn-12: Abcam) antibodies at optimal dilutions. Triple staining of liver tissues and isolated HSCs was detected by immunofluorescence with Alexa Fluor 488 (green) for Tnc and Alexa Fluor 594 (red) for GFAP (D1F4Q; Cell Signaling), Alexa Fluor 594 (red) for CD31 (Santa Cruz Biotechnology) and Alexa Fluor 594 (red) for CD68 (Abcam). Vectashield mounting media with DAPI (Vector Laboratories) was used for nuclear staining. Sections were blindly evaluated by counting 10 high-powered fields (HPFs)/section in triplicate.
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Liver Histology and Immunohistochemistry Protocol

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Liver histology and immunohistochemistry were performed as previously published.[14 (link), 15 (link)] Liver specimens embedded in paraffin were processed for hematoxylin and eosin (H&E) staining. Liver steatosis was assessed by Oil Red O staining. Immunohistochemistry was performed using CD3 (HIT3a), Ly-6G (1A8), and PECAM-1 (MEC13.3) from BD Biosciences, CD68 (FA-11, Serotec), MMP-9 (AF909; R&D Systems), vWF (A0082, DAKO), PCNA (PC10; Neomarkers) and pH3 (Ser10; Cell Signaling) antibodies at optimal dilutions. Dual/triple staining was detected by immunofluorescence with Alexa Fluor 594 (red) and Alexa Fluor 488 (green) labeled secondary antibodies (Molecular Probes). Alexa Fluor 488 phalloidin and Vectashield mounting media with DAPI (Vector Laboratories) were used for F-actin and nuclear staining, respectively. Sections were blindly evaluated by counting 10 high-powered fields (HPFs)/section in triplicate. The proliferation index is expressed as the percentage of PCNA, or pH3 stained hepatocytes per total number of hepatocytes.
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4

Immunohistochemical Analysis of Liver Macrophages

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Liver specimens were embedded in Tissue Tec OCT compound (Miles, Elkhart, IN) and snap frozen in liquid nitrogen and immunostaining performed on cryostat sections (0.5 µm) as described previously [19] (link). Appropriate rat primary antibodies against mouse macrophage antigen-1 (Mac-1; M1/70), CD68 (FA-11, Serotec), Ly-6G (1A8) (BD Biosciences, San Diego, CA), MMP-9 (AF909; R&D Systems, Minneapolis, MN) were used at optimal dilutions. Primary antibody was replaced with dilution buffer for negative controls. Bound primary antibodies were detected using biotinylated anti-rat IgG and streptavidin peroxidase–conjugated complexes (Vector Laboratories, Burlingame, CA). Sections from inflammatory tissues known to be positive for each stain were included as positive controls. Sections were evaluated blindly by counting 30 high-power fields per section.
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5

Comprehensive Antibody Usage for Cell Analysis

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Primary antibodies used for Western blotting (WB), immunofluorescence (IF) staining and flow cytometry (FC) were as follows with dilutions inticated in parenthesis: MPO, clone 8F4 (HyCult) (IF: 1:200); MPO, AF3667, R&D (1:400); MMP9, AF909, R&D (WB 1:1000); the anti-WASH (WB 1:1000) and anti-FAM21 (IF 1:200) antibodies were described before25 (link),28 (link). The anti-CD63 (clone NVG-2), anti-CD11b (clone M1/70) and anti-Ly6G (clone 1A8, 127610) (flow cytometry) antibodies were from Biolegend (FC 1:50). The anti-neutrophil elastase, Ab68672, was from Abcam (FC 1:50) and phalloidin was from Thermo Fischer. The anti-Rac1 antibody was from Proteintech (24072-1-AP) (WB 1:1000) and the anti-Rac1-GTP from NewEast Biosciences (26903) (IF 1:100); anti-RhoA was from Santa Cruz Biotechnology (SC-418) (WB 1:1000; IF 1:100), anti-Rab21 from Novus Biologicals (NBP1-81544) (IF 1:200) and anti-Arp2 (ab49674) (IF 1:200) was from Abcam. Myc-Tag (9B11) Mouse mAb #2276 (WB:1:1000). Anti-mCherry antibody Abcam, [EPR20579] (ab213511), WB, 1:1000.
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