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204 protocols using β actin

1

Quantitative Analysis of Cholesterol Transporters

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Leukocyte RNA was extracted from whole blood using the PAXgene blood RNA tubes and the PAXgene blood RNA kit (Qiagen). RNA was extracted from human PBMC, monocytes, PBMC depleted of monocytes, and murine BMDM using TRIzol reagent (Ambion, Life Technologies) and Rneasy mini kit (Qiagen). Reverse transcription was performed using the Reverse Transcription Kit (Promega, Madison, WI). Real Time PCR was performed using Qiagen’s Quantitect primer assays for human ABCA1, ABCG1, and beta (β)-actin (QT00064869, QT00021035, QT01680476) and murine ABCA1, ABCG1, SR-B1, LXR-α and β-actin (QT00165690, QT00113519, QT00166495, QT00113729, QT01136772).
BMDM protein concentrations were determined by MicroBCA protein assay (Bio-Rad). Proteins were separated by SDS-PAGE (Bio-Rad) under reducing conditions. Quantification by Western blotting was performed using the following primary antibodies: ABCA1 (Abcam, Cambridge, MA), ABCG1 (Santa Cruz Biotechnology, Santa Cruz, CA), SR-B1 (Santa Cruz), LXR-α (Abcam), and β-actin (Sigma-Aldrich). Secondary antibodies were purchased from Santa Cruz Biotechnology.
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2

Quantitative Phospho-Protein Analysis

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Phospho-proteins were detected using the Bio-Rad MAPK 9plex cell signaling kit (Bio-Rad, Hercules CA), and Millipore NF-kb 6 plex assay (Millipore, Burlington, MA). β-actin (Bio-Rad, Hercules, CA) was used as a loading control, and units presented are unit of phosphorylated-protein fluorescence/β-actin fluorescence. Phosphotase treated lysates were provided in the 9plex kit and were used as negative controls. Protein was standardized to 200ug/mL and 50uL of sample was added in duplicate to a 96 well plate. The protocol was carried out according to the manufacturer’s instructions. Samples were analyzed on the Bio-Plex Magpix (Bio-Rad, Hercules, CA).
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3

Western Blot Analysis of CD47 and CD133

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CD47 and CD133 (Prom1) were analyzed from cell lysates via SDS-PAGE and WB according to the previously published, well-established protocol in the lab of Professor Laila Rashed, Biochemistry Department, Faculty of Medicine, Cairo University.73 (link),74 (link) CD47 (Thermo Fisher Scientific, 14–0471-82), CD133 (ThermoFisherScientific, 14–1331-82), and β-actin (ThermoFisherScientific, MA1-140) monoclonal antibodies were used for the analysis. Bands for CD47, CD133, and β-actin proteins were visualized by enhanced chemiluminescence (ECL Plus) and quantified relative to β-actin using densitometry and Molecular Analyst software (Bio-Rad).
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4

Immunofluorescence Antibody Staining Protocol

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The following primary antibodies were used: mouse monoclonal antibodies to α-tubulin (clone DM1A, IgG1, Invitrogen); β-tubulin (clone TBN06, Invitrogen); h-β-I-tubulin (IgG2b, R&D Systems, Minneapolis, MN, USA); h-β-III-tubulin (IgG2a, R&D Systems); pan-actin (clone C4, Cell Signaling Technology Inc., Danvers, MA, USA); β-actin (IgG1, MCA5775GA, AbD Serotec, Kidlington, UK); γ-actin (IgG2b, (MCA5776GA, AbD Serotec); β-catenin (IgG1, DAKO, Glostrup, Denmark); E-cadherin (IgG2a, BD Transduction); MDR-1 (Santa Cruz Biotechnology, Dallas, TX, USA); N-cadherin (Cell Signaling Technology Inc., Danvers, MA, USA); claudin-1 (Cell Signaling Technology Inc.); and vimentin (V9, DAKO).
The following secondary antibodies were used: AlexaFluor488-, Red-X, AlexaFluor594-conjugated goat anti-mouse IgG or specific to IgG1, IgG2b, IgG2a, absorbed to other IgG isotypes, and goat anti-rabbit IgG (Jackson ImmunoResearch Laboratories Inc., West Grove, PA, USA). DAPI (D9542, Sigma-Aldrich) was applied for DNA (nuclear) staining. HRP-conjugated secondary antibodies were used for Western blot analysis: anti-mouse IgG and anti-rabbit IgG (Santa Cruz Biotechnology).
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5

Antibody Panel for Cell Cycle Analysis

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Mouse monoclonal antibodies to: β-actin (MCA5775GA, AbD Serotec); γ-actin (MCA5776GA, AbD Serotec); pan actin (4968, Cell Signaling); α-tubulin (2144, Cell Signaling); p-p44/42 (T202/Y204) (4370, Cell Signaling); ERK1/2 (4695, Cell Signaling); cyclin A2 (4656, Cell Signaling); cyclin D3 (2936, Cell Signaling); cyclin E1 (4129, Cell Signaling). Rabbit monoclonal antibodies: cyclin B1 (4138, Cell Signaling); cyclin D1 (2978, Cell Signaling); cyclin E2 (4132, Cell Signaling); cyclin H (2927, Cell Signaling).
The following secondary antibodies were used: AlexaFluor488-, AlexaFluor594, AlexaFluor647- conjugated goat anti-mouse IgG, IgG1, IgG2b and goat anti-rabbit IgG (Jackson ImmunoResearch Laboratories. Inc).
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6

Cytoskeletal Protein Immunostaining Assay

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β-Actin (MCA5775GA, AbD Serotec); γ-actin (MCA5776GA, AbD Serotec); p-p44/42 (T202/Y204) (4370S, Cell Signaling); ERK1/2 (4695S, Cell Signaling); p34-Arc (07-227, EMD Millipore); WAVE2 (3659P, Cell Signaling); Cofilin (D3F9) XP®, cofilin1 (5175P, Cell Signaling); p-Cofilin1 (Ser3) (3313, Cell Signaling); N-ras (sc-519, Santa Cruz); PP1α (S3010, Epitomics); Pan-actin (4968, Cell Signaling); α-tubulin (2144, Cell Signaling).
The following secondary Abs were used: FITC-, TRITC-, AlexaFluor488-, AlexaFluor594-, AlexaFluor647-, Cy5-conjugated goat anti-mouse IgG1, IgG2b, IgG and goat anti-rabbit IgG (Southern Biotechnology, Associates Inc., Birmingham, AL; Jackson; Life technologies).
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7

Immunofluorescence Cytoskeleton Protein Labeling

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Mouse monoclonal antibodies to: β-actin (MCA5775GA, AbD Serotec); γ-actin (MCA5776GA, AbD Serotec); pan actin (4968, Cell Signaling); α-tubulin (2144, Cell Signaling); rat monoclonal antibodies to α-tubulin (Serotec); rabbit polyclonal antibodies to EB1 (Gen Script) and tubulin (Sigma-Aldrich).
The following secondary antibodies were used: AlexaFluor488-, AlexaFluor594-, AlexaFluor647-, Cy5-conjugated goat anti-mouse IgG1, IgG2b, IgG, goat anti-rabbit IgG and goat anti-rat IgG (Southern Biotechnology, Associates Inc., Birmingham, AL; Jackson; Life technologies).
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8

Immunofluorescence Staining of Cytoskeletal and Chromatin Proteins

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Mouse monoclonal antibodies to: β-actin (MCA5775GA, AbD Serotec); γ-actin (MCA5776GA, AbD Serotec, Raleigh, NC, USA); pan actin (4968, Cell Signaling) were used. Rabbit polyclonal antibodies to CENP-A (2186, Cell Signaling) were used. Rabbit monoclonal antibodies to: Phospho-Histone H3 (Ser10, 3377, Cell Signaling); Histone H3 (4499, Cell Signaling) were used.
The following secondary antibodies were used: AlexaFluor488-, AlexaFluor594- conjugated goat anti-mouse IgG, IgG1, IgG2b and goat anti-rabbit IgG (Jackson ImmunoResearch Laboratories Inc, West Grove, PA, USA).
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9

Western Blot Analysis of Brain Proteins

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Western blots were performed on whole brain and hippocampus as already described [50 (link),51 (link)]. Specific primary antibodies, i.e., anti-ikb-α (Santa Cruz Biotech, sc-1643), or anti-NFkB (Santa Cruz Biotechnology, sc-8008), or anti-Nrf2 (Santa Cruz Biotechnology, sc-36594), or anti-HO-1 (Santa Cruz Biotechnology, sc-136970), or anti-p-Tau (Santa Cruz Biotechnology, sc-32275). or anti-APP (Santa Cruz Biotechnology, sc-32277) were mixed in a 5% w/v nonfat dried milk solution and were incubated at 4 °C, overnight. Afterwards, blots were incubated with a peroxidase-conjugated bovine anti-mouse IgG secondary antibody or a peroxidase-conjugated goat antirabbit IgG (Jackson Immuno Research) for 1 h at room temperature [52 (link),53 (link)]. To verify the amounts of protein were equal, membranes were also incubated with an antibody against β-actin (Santa Cruz Biotechnology). Signals were detected with an enhanced chemiluminescence detection system reagent (Super-Signal West Pico Chemiluminescent Substrate, Pierce) [54 (link),55 (link)]. The relative expression of the protein bands was quantified by densitometry with Bio-Rad ChemiDoc XRS software and standardized to β-actin levels [56 (link)]. Images of blot signals were imported to an analysis software (Image Quant TL, v2003).
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10

Investigating Apoptotic and Necroptotic Signaling

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MDA-MB-231 and MCF-7 cells were lysed in RIPA lysis buffer on ice for 30 min, then centrifuged (12000 g/min; 30 min) at 4°C. A bicinchoninic acid (BCA) assay was used to detected protein concentrations. Equal amounts of total protein were separated by sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) and transferred to polyvinylidene fluoride (PVDF) membranes (millipore, USA), and then incubated with primary antibodies overnight at 4°C after the membranes were blocked (5% skim milk in PBS with 0.1% Tween 20) for 4 h. The next day, the membranes were imaged with gel imaging equipment (Bio-Rad, USA) after the membranes were incubated with secondary antibodies for 2 h. β-actin was used as a loading control. The following antibodies were used: Bcl-2 and Bax (Cell Signaling technology, USA); anti-RIP1, anti-RIP3, and p-RIP3 (Santa Cruz Biotechnology, USA); TNF-α (Abcam, USA); Caspase 3 (Enzo, USA); Ppm1b (BETHYL, USA); anti-β-actin (Biosharp, China) All reagents were dissolved according to the manufacturer’s instructions.
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