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13 protocols using phospho stat2

1

Western Blot Analysis of Signaling Proteins

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Cells were collected and lysed in NP40 solution. Then, the protein samples were run on an SDS–PAGE gel and transferred to nitrocellulose membranes; these membranes were blocked in 5% bovine serum albumin (BSA) and probed with primary antibodies against β-actin (Cell Signaling, Cat No. 3700; 1:1000); SDHD (Abcam, ab189945; 1:500); phospho-Jak1 (Cell Signaling, Cat No. 74129; 1:1000); Jak1 (Cell Signaling, Cat No. 50996; 1:1000); phospho-Jak2 (Cell Signaling, Cat No. 3776; 1:1000); Jak2 (Cell Signaling, Cat No. 3230; 1:1000); phospho-Stat1 (Cell Signaling, Cat No. 9167; 1:1000); Stat1 (Cell Signaling, Cat No. 9172; 1:1000); phospho-Stat2 (Cell Signaling, Cat No. 8410; 1:1000); Stat2 (Cell Signaling, 919, Cat No. 9172; Stat1:1000); phospho-Stat2 (Cell Signaling, Cat No. 88410; 1000); Stat3 (Cell Signaling, Cat No. 9139; 1:1000); HIF1α (Abcam, ab179483; 1:1000). Incubation with secondary antibodies conjugated to horseradish peroxidase was performed for 1 hour at room temperature. The proteins detected were visualized by enhanced chemiluminescence (Thermo Fisher, MA, USA).
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2

Western Blot Analysis of Innate Immune Proteins

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Cell lysates were prepared using M-PER Mammalian Protein Extraction Reagent with a cocktail of protease and phosphatase inhibitors (Cell Signaling). The protein samples were separated on an NU-PAGE Bolt Bis-Tris Plus Gels (Invitrogen), transferred onto nitrocellulose membranes (Bio-Rad), blocked using Intercept (TBS) Blocking Buffer (Li-Cor Biosciences), and then incubated overnight with different antibodies (Strange et al., 2019 (link)). Specific primary monoclonal antibodies used were rabbit anti-human against RIG-I (Cell Signaling Cat. No: 3743S), MDA5 (Invitrogen Cat. No: 700360), MXA (Santa Cruz Biotechnology Cat. No: sc-271024), IRF3 and phospho-IRF3 (Cell Signaling Cat. No: 11904S and Cat. No: 4947S), STAT1 (Cell Signaling Cat. No: 9172S), phospho-STAT1 (Cell Signaling Cat. No: 9167L), STAT2 (Cell Signaling Cat. No: 72604S), phospho-STAT2 (Cell Signaling Cat. No 4441) and mouse anti-human β-actin (Sigma Cat. No. A2228-200UL), all at 1:1,000 dilution. Secondary antibodies (1:10,000 dilution) were conjugated with IRDye 800 and IRDye 680 (Li-Cor Biosciences), and blots were scanned using an Odyssey infrared imager.
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3

Characterizing IL23R Signaling Pathways

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Proteins were detected by flow cytometry with Alexa Fluor 488 or phycoerythrin-labelled antibodies to IL23R (FAB41001P, R&D Systems), phospho-JAK1, phospho-JAK2, phospho-JAK3, phospho-TYK2, phospho-STAT1, phospho-STAT2, phospho-STAT3, phospho-STAT5, phospho-STAT6, FLAG (Cell Signaling) or phospho-STAT4 (BD Biosciences).
IL23R was immunoprecipitated using anti-IL23R antibody (Santa Cruz Technology, Santa Cruz, CA) bound to Protein A or Protein G Sepharose (EMD Millipore, Billerica, MA). Associated proteins were blotted with antibodies to JAK2, STAT3 (Cell Signaling), TYK2 (Abcam, Cambridge, MA), IL12Rβ1 (EMD Millipore), JAK3 (Santa Cruz Biotechnology) or IL23A (Proteintech). Control proteins were examined with glyceraldehyde 3-phosphate dehydrogenase or IL23R antibodies (EMD Millipore) as per ref 41 (link).
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4

Western Blot Analysis of JAK-STAT Pathway

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Cells were seeded (2 × 105) in a six well plate for 24 h and were treated with GE at 150 and 200 (µg/mL) for 24 h followed by washing with pre-cooled PBS. Ice cold RIPA buffer with protease/phosphatase was added for the cell lysis. The lysates were collected and centrifuged at 13,000× g for 30 min at 4 °C. The total protein concentration in cell lysates was measured by the Bradford method. The cell extracts were separated by SDS polyacrylamide gels (8–10%), and then, the protein was transferred to a polyvinylidene difluoride membrane (Millipore, Bedford, MA, USA). The membrane was blocked with 5% skim milk, incubated with indicated primary and appropriate secondary antibodies (anti-rabbit IgG-HRP conjugates), and protein bands were detected using 1-Step Ultra TMB-Blotting Solution (Thermo Scientific). STAT1 (D1K9Y) Rabbit mAb, Phospho-STAT1 (Tyr701) (58D6) Rabbit mAb, STAT2 (D9J7L) Rabbit mAb, Phospho-STAT2 (Tyr690) (D3P2P) Rabbit mAb, JAK1 (6G4) Rabbit mAb, Phospho-JAK1(Tyr1034/1035) (D7N4Z) Rabbit mAb, TYK2 (D4I5T) Rabbit mAb, Phospho-TYK2 (Tyr1054/1055) (D7T8A) Rabbit mAb, β-Actin (13E5) Rabbit mAb and Anti-rabbit HRP-linked antibodies were purchased from Cell Signaling Technology (Danvers, MA, USA). Densitometric analysis was performed by Image J software version 1.44.
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5

Protein Kinase Signaling Pathway Analysis

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The following antibodies were purchased from Cell Signaling (Danvers, MA, USA): JAK1 Antibody (#3332, 130kDa), Phospho-JAK2 (Tyr1007/1008) Antibody (#3771, 125kDa), β-Actin Antibody (#4967, 45kDa), Phospho-STAT1 (Tyr701) (58D6) Rabbit mAb (#9167, 84,91kDa), Phospho-STAT2 (Tyr690) Antibody (#4441, 113kDa), Phospho-STAT3 (Tyr705) Antibody (#9131, 79,86kDa), Phospho-STAT5 (Tyr694) Antibody (#9351, 90kDa), Phospho-STAT6 (Tyr641) Antibody (#9361, 110kDa), Ras Antibody (#3965, 21kDa), p44/42-MAPK (Erk1/2) Antibody (#9102, 42,44kDa), GSK-3β (27C10) Rabbit mAb (#9315, 46kDa), MMP-9 Antibody (#3852, 84,92kDa), Phospho-PKCα/β II (Thr638/641) Antibody (#9375, 80,82kDa); PKCα Antibody (#2056, 80kDa); Phospho-PKC (pan) (βII Ser660) Antibody (#9371, 78 a 85kDa); Phospho-PKD/PKCμ (Ser744/748) Antibody (#2054, 115kDa); PKD/PKCμ Antibody (#2052, 115kDa); PKCδ Antibody (#2058, 78kDa); Phospho-PKCδ/θ (Ser643/676) Antibody (#9376, 78kDa), PKCζ Antibody (#9372, 78kDa); PLCγ1 Antibody (#2822, 155kDa); anti-mouse, anti-rabbit and anti-goat IgGs antibodies. From Abcam (Cambridge, MA, USA): anti-PKC antibody (ab59363) was purchased. PepChip1-Kinomics slides were obtained from Pepscan Presto BV (Lelystad, the Netherlands).
WP1066 (#573097; C17H14BrN3O) and Tofacitinib (#PZ0017; C16H20N6O · C6H8O7) were purchased from Sigma-Aldrich (St. Louis, MO, USA).
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6

Immunoblotting Analysis of STAT Signaling

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Cell lysis, protein isolation and immunoblotting were performed as described previously [24 (link)]. Twenty micrograms of protein were resolved using 4–12% Bis-Tris polyacrylamide gels. Gels were transferred to PVDF membranes and subjected to blocking and incubation with primary and secondary antibodies. The primary antibodies used in this study included: phospho-STAT3 (Tyr705, Cell Signaling, Boston, MA and Abcam, Cambridge, MA), total STAT3 (Cell Signaling and Abcam), phospho-STAT1 (Cell Signaling), total STAT1 (Cell Signaling), phospho-STAT2 (Cell Signaling), phospho-STAT4 (Cell Signaling), phospho-STAT6 (Cell Signaling), and GAPDH (Cell Signaling). Protein bands were detected using Western Lightning ® Plus Enhanced Chemiluminescence substrate (Perkin Elmer, Waltham, MA) and HyBlot CL ® Autoradiography film (Denville Scientific, Holliston, MA). The cytokines used in this study included: interferon gamma (IFN-γ, Cell Signaling), interferon alpha (IFN-α, Cell Signaling), interleukin-4 (IL-4, Cell Signaling), interleukin-6 (IL-6, Cell Signaling), and oncostatin M (OSM, Cell Signaling).
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7

Phosphorylation Signaling Pathway Analysis

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30–60 μg of lysates were subjected to SDS-PAGE and transferred to PVDF membranes (Thermo Scientific). The membranes were then probed using the recommended antibody dilution in 5% BSA in TBST (Tris-Buffered Saline and Tween 20) or 5% non-fat milk in TBST for phospho-STAT1 (Tyr701), STAT1, phospho-STAT2 (Tyr690), STAT2, phospho-Tyk2 (Tyr1054/1055), Tyk2, phospho-Jak1 (Tyr1022/1023), Jak1 or β-actin (13E5) (Cell Signaling). Validation of antibodies is provided on the manufacturer’s website.
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8

Signaling Pathway Characterization by Western Blot and Flow Cytometry

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Western blotting, cell counting kit 8 (CCK‐8), Transwell migration, and flow cytometry assays were performed as previously described (Patel et al., 2006). The primary antibodies used in this study were as follows: GAPDH (dilution 1:1000; Cell Signaling Technology, Inc.), XCR1 (dilution 1:600; Cell Signaling Technology, Inc.), JAK1 (dilution 1:600; cat. no. 2019; Cell Signaling Technology, Inc.), phospho‐JAK1 at Tyr1034/1035 (dilution 1:500; Cell Signaling Technology, Inc., JAK2 (dilution 1:1000; Cell Signaling Technology, Inc.), phospho‐JAK2 at Tyr1007 (dilution 1:1000; Cell Signaling Technology, Inc.), JAK3 (dilution 1:500; Cell Signaling Technology, Inc.), phospho‐JAK3 at Tyr980 (dilution 1:500; Cell Signaling Technology, Inc.), STAT 1–4 (dilution 1:500; dilution 1:500; Stat Antibody Sampler Kit, Cell Signaling Technology, Inc.), phospho‐STAT1 at Tyr701, phospho‐STAT2 at Tyr690, and phospho‐STAT4 at Tyr693 (dilution 1:500; Cell Signaling Technology, Inc.).
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9

Western Blot Analysis of Cellular Signaling

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Western blot analysis was performed as previously described.15 (link),16 (link) Primary antibodies for immunoblotting are as follows: PR (sc-7208; Santa Cruz Biotechnology), phospho-STAT2 (4441; Cell Signaling), Total STAT2 (sc-1668; Santa Cruz Biotechnology), IFIT3 (sc-393512; Santa Cruz Biotechnology), IFIT1 (14769; Cell Signaling), STAT1 (9172; Cell Signaling), Ubiquitin (3933; Cell Signaling), and beta-tubulin (2128; Cell Signaling). Densitometry to quantify immunoblots was performed using ImageJ.
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10

Western Blot Analysis of Immune Signaling

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Human monocytes were lysed using RIPA buffer supplemented with protease inhibitor cocktail (Roche) and phosphatase inhibitors (Sigma-Aldrich). Lysates were separated by NuPAGE 4%–12% Bis-Tris Protein Gels (Thermo Fisher Scientific) and transferred to nitrocellulose membranes (Trans-Blot Turbo Transfer System (Bio-Rad). Membranes were blocked with 50% Odyssey Blocking buffer in PBS-T (0.1% Tween 20 in PBS) and incubated with appropriate antibodies overnight at 4°C. The following antibodies were used: STAT1, phospho-STAT1(Y701), STAT2, phospho-STAT2 (Y690), TBK1, phospho-TBK1 (Ser172), LAMP1 (D2D11) XP, SQSTM1/p62, phospho-S6 (Ser235/236), GAPDH, and β-actin (Cell Signaling Technology); IRF3 and phospho-IRF3 (S386) (Abcam); and LC3 and vinculin (Sigma-Aldrich). Antibody suppliers and catalog numbers are shown in Supplemental Table 10. Primary antibody incubations were followed by incubation with IRDye secondary antibodies for 1 hour at room temperature. Immunoblots were imaged using Odyssey CLx Imaging System (LI-COR Biosciences). Protein band intensity was quantified using ImageJ (NIH) and normalized to β-actin or vinculin. Detailed information about antibodies used in this study is summarized in Supplemental Table 10.
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