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6 protocols using lipofectamine 2000 11668 019

1

Antibody Panel for NF-κB Signaling

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Anti-EGR1 (22008-1-AP) rabbit polyclonal antibody (pAb), anti-Lamin B (66095-1-Ig), and anti-tubulin (66031-1-Ig) were purchased from ProteinTech (Rosemont, IL, USA). Antibodies against IκBα (4814S), p-IκBα (Ser32) (2859S), and p-p65 (8242S) were purchased from Cell Signaling Technology (Danvers, MA, USA). Anti-p65 rabbit pAb (ab7970) and anti-Tax mouse monoclonal antibody (mAb, sc-57872) were bought from Abcam (Cambridge, MA, USA) and Santa Cruz Biotechnology (Santa Cruz, CA, USA), respectively. The anti-β-actin mouse mAb (60008-1-Ig), as well as the following immunoglobulin G (IgG) reagents: horseradish peroxidase-linked goat anti-mouse (00001-1) and goat anti-rabbit (00001-2), were purchased from ProteinTech. The NF-κB inhibitor, Bay 11-7082 (B5556), and phytohemagglutinin (PHA; L8902) were purchased from Sigma (St Louis, MO, USA). 5-(and-6)-Carboxy fluorescein diacetate, succinimidyl ester (CFSE) (C1157), EGR1 siRNA (1299001), and Lipofectamine 2000 (11668-019) were purchased from Invitrogen (Carlsbad, CA, USA). Cycloheximide (CHX; C8030) was purchased from Solarbio (Beijing, China).
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2

Investigating S100A9 Signaling Pathways

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The recombinant human S100A9 (9254-S9), human S100A9 ELISA Kit (DY5578) were purchased from R&D Systems (R&D Systems, Shanghai, China). Rabbit anti-human antibodies against S100A9 (72590), TLR4 (2246), integrin β1 (34971), FAK (3285), p-FAK (3281), RAGE (6996), NF-κB (8242), Phospho-NF-κB p65 (Ser536) antibody (3031) were purchased from Cell Signaling Technology (Danvers, MA, USA). β1 integrin inhibitory antibody MAB 13 (552828) and the isotype control antibody rat IgG2aκ (553927) were purchased from (BD Biosciences-CN, Shanghai, China).
The small interfering RNAs (si RNAs) against TLR4 (sc-40260), integrin β1(sc-35674) for experiments using targeted siRNA transfection were purchased from Santa Cruz Biotechnology (Santa Cruz, CA, USA). BAY 11–7082 (481487), PF562271(PZ0387), mouse anti-human antibody against fibronectin (F6140) and human fibronectin ELISA Kit (RAB1049) were purchased from (Sigma-Aldrich, Shanghai, China). Lipofectamine 2000 (11,668,019) was purchased from Invitrogen Life Technologies (Carlsbad, CA, USA).
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3

Autophagy markers and signaling proteins

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Anti-microtubule associated protein 1 light chain 3 (LC3) (NB100-2220) and anti-Beclin 1 (ab55878) antibodies were purchased from Novus Biological (LLC, USA). Anti-Bcl-2-associated X protein (Bax) and anti-Bcl-2 antibodies were purchased from Abcam (Cambridge, MA, USA). Antibodies recognizing phospho-mTOR (Ser2448), mTOR, phospho-4E-BP1 (Thr37/46), 4E-BP1, phospho-p85S6K (Thr412), p85S6K, phospho-p70S6K (Thr389), and p70S6K were purchased from Cell Signaling Technology (Beverly, MA, USA). Lipofectamine 2000 (11668-019), LysoTracker Red (L7528) and MitoTracker (M7512) were purchased from Invitrogen. The β-actin (KC-5A08) and GAPDH (KC-5G5) antibodies were from Kangcheng (Shanghai, China). Melatonin and all other reagents were purchased from Sigma Chemical Co. (St. Louis, Missouri) unless otherwise indicated.
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4

Antibody Validation and Autophagy Modulation

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Anti-Flag (F3165) and anti-HA (H6908) antibodies were purchased from Sigma-Aldrich (St. Louis, MO, USA). Anti-Myc (sc40), anti-GAPDH (sc47724), anti-BECN1 (sc48341), and anti-Ub (sc-8017) antibodies were purchased from Santa Cruz Biotechnology (Santa Cruz, CA, USA). Anti-TRAF6 (8028S) and anti-LC3 (2775S) were purchased from Cell Signaling Technology (Danvers, MA, USA). Anti-Mouse IgG H&L (HRP) (ab6728) was purchased from Abcam (Cambridge, MA, USA). Goat anti-Rabbit IgG antibody (HRP) (GTX213110-01) was purchased from GeneTex Inc. (Irvine, CA, USA). Lipopolysaccharide (LPS; L3024), dimethyl sulfoxide (DMSO; 472301), paraformaldehyde (P6148), Triton X-100 (T8787), 3-methyladenine (3-MA; M9281), and Dulbecco’s phosphate-buffered saline (DPBS; D8537) were purchased from Sigma-Aldrich (St. Louis, MO, USA). Polyinosinic-polycytidylic acid (Poly(I:C), tlrl-pic) was purchased from InvivoGen (San Diego, CA, USA). Anti-β-arrestin 2 antibody (PA1-732) and Lipofectamine 2000 (11668019) were purchased from Thermo Fisher Scientific (Waltham, MA, USA).
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5

Antibody Panel for AMPK, TAK1, and NF-κB Signaling

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Anti-phospho-AMPKα (Thr172, 2531), anti-AMPKα (2532), anti-phospho-TAK1 (Ser412, 9339), anti-TAK1 (4505), anti-phospho-NF-κB p65 (Ser536, 93H1, 3033), and anti-NF-κB p65 (D14E12, 8242) antibodies were purchased from Cell Signaling Technology (Danvers, MA, USA). Anti-GPCR GPR43 (FFAR2, ab131003) antibody was purchased from Abcam (Cambridge, MA, USA). Goat anti-rabbit IgG antibody (horseradish peroxidase (HRP)-labeled) (GTX213110-01) was purchased from GeneTex Inc. (Irvine, CA, USA). Dimethyl sulfoxide (DMSO; 472,301), paraformaldehyde (P6148), Triton X-100 (T8787), gentamicin (G1272), deoxycholate (D6750), and Dulbecco’s phosphate-buffered saline (DPBS; D8537) were purchased from Sigma-Aldrich (St Louis, MO, USA). Heat-killed Listeria monocytogenes (HKLM, tlrl-hklm) and polyinosinic-polycytidylic acid (poly(I:C), tlrl-pic) were purchased from InvivoGen (San Diego, CA, USA). Lipofectamine 2000 (11,668,019) was purchased from Thermo Fisher Scientific (Waltham, MA, USA).
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6

Optimizing Cell Viability Assays

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FBS (F0926), thiazolyl blue tetrazolium bromide (MTT) (M2128), cisplatin (232120), PVDF membranes (IPVH00010), and actin antibody (A1978) were purchased from Sigma-Aldrich (St. Louis. MO, USA). Trypsin-EDTA (25300–054), DMEM (11995-065), bovine serum albumin (BP1605-100), Col17A1 (MA5-24848), goat anti-mouse Alexa fluor 680 IgG (A21058), goat anti-rabbit Alexa fluor 680 IgG (A21109), and Lipofectamine 2000 (11-668-019) were purchased from ThermoFisher Scientific (Waltham, MA, USA). Penicillin-streptomycin (SV30010) was purchased from GE Healthcare (Chicago, IL, USA). The PARP inhibitor olaparib (O-9201) was obtained from LC Laboratories (Woburn, MA, USA). The mTOR inhibitor rapamycin (13346), everolimus (11597), and chloroquine (30708) were obtained from Cayman Chemicals (Ann Arbor, MI, USA). The protein assay dye (500-0006) was purchased from Bio-Rad (Hercules, CA, USA). RIPA Buffer (9806), S100A9 (72590), p62 (5114), GAPDH (5174), and LC3 (2775) antibodies were purchased from Cell Signaling Technologies (Danvers, MA, USA).
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