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13 protocols using anti cyclind1

1

Comprehensive Protein Expression Analysis

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Total proteins were isolated from cells or tissues using the RIPA lysis buffer (Beyotime, China) and subjected to 10% polyacrylamide gel electrophoresis. After transferring to PVDF membrane, blocking with 5% skim milk, incubation with primary antibodies and secondary antibodies, the proteins on the membrane were finally detected by ECL kit (EpiZyme, China) and imaging analysis system (BioRad, USA). The primary antibodies used in this study were as follows: anti-GAPDH (Bioworld, 1:10000), anti-CDK2 (Bioworld, 1:1000), anti-Cyclin E1 (Bioworld, 1:1000), anti-CDK4 (Bioworld, 1:1000), anti-Cyclin D1 (Bioworld, 1:1000), anti-p53 (Bioss, 1:500), anti-p21 (Bioworld, 1:500), anti-p16 (Bioss, 1:1000), anti-ubiquitin (Santa, 1:500), anti-FTO (Bioss, 1:1000), anti-YTHDF2 (Abcam, 1:1000).
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2

Western Blot Analysis of CRC Proteins

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A Western blot was used to detect protein levels of corresponding genes in CRC cells or nude mouse tumor tissues. In brief, total protein was extracted using a lysate mixture containing RIPA and protease inhibitors. After concentration determination, an equal amount of total proteins from each sample was used for polyacrylamide gel electrophoresis. After membrane transfer, blocking, antibody incubation, and coloration, protein bands on PVDF membranes were used for detection and analysis. Primary antibodies used in this study include anti-GAPDH (Bioworld, China), anti-SH3TC2 (Bioss, China), anti-CDK4 (Bioworld, China), anti-Cyclin D1 (Bioworld, China), and anti-YTHDF1 (Abcam, USA).
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3

Western Blot Analysis of Protein Expression

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Total protein was extracted from transfected cells using RIPA lysis buffer (Beyotime Biotechnology, China) according to the manufacturer's instructions. The cell lysate was then centrifuged at 13500 g for 15 min at 4°C. The supernatant was collected and boiled with the SDS loading buffer. The protein samples were separated by SDS‐polyacrylamide gel electrophoresis (SDS‐PAGE) and transferred to polyvinylidene fluoride (PVDF) membranes (Millipore). The membranes were blocked with 5% nonfat dry milk and incubated with primary antibodies SNIP1 (anti‐SNIP1, 1:800, 14950‐1‐AP, Proteintech), Cyclin D1 (anti‐cyclin D1, 1:800, BS1741, Bioworld), Vimentin (anti‐vimentin, 1:800, BS1491, Bioworld), E‐cadherin (anti‐E‐cadherin, 1:800, BF0219, Affinity), c‐Myc (anti‐c‐Myc, 1:1000, 10828‐1‐AP, Proteintech), and GAPDH (anti‐GAPDH, 1:800, AP0063, Bioworld), followed by reaction with HRP‐conjugated secondary antibodies (1:6000, Proteintech). Finally, the protein bands were visualized using enhanced chemiluminescence (ECL) reagent (Beyotime Biotechnology).
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4

Molecular Mechanisms Underlying Autophagy Regulation

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Spautin-1(S7888), 3-methyladanine (3-MA, S2767), Z-VAD-FMK (S7023), SP600125 (S1460), SB230580 (S1076), LY3214996 (S8534), Gefitinib (S1025) and Enzalutamide (MDV3100, S1250) were purchased from Sellectchem (Houston, TX, USA). SKP2-C25 (M60136) was obtained from Xcessbio Biosciences, Inc. (San Diego, CA). USP10 (sc-76,811), USP13 (sc-76,815) and Glut1 (sc-35,493) siRNAs were purchased from Santa Cruz Biotechnology (Santa Cruz, CA, USA). Antibodies: anti-Glut1 (ab652), anti-USP13 (ab109264) (Abcam, Cambridge, MA); anti-GAPDH (BS60630), anti-Ki67 (BS1454) (Bioworld Technology, Inc., Louis Park, MN, USA); anti-USP10(#8501), anti-SKP2(#2652), anti-p27(#3686), anti-CDK4(#12790), anti-CDK2(#2546), anti-CyclinD1(#2978), anti-p15(#4822), anti-p21(#2947), anti-PARP(#9532), anti-Bim(#2933), anti-Bax(#14796), anti-Bcl-2(#15071), anti-activated Caspase-3(#9664), anti-phospho-JNK (#9255), anti-JNK(#9252), anti-phospho-ERK1/2(#4370), anti-ERK1/2(#4695), anti-phospho-p38(#4511), anti-p38(#8690), anti-phospho-MKK4(#4514), anti-MKK4(#9152), anti-phospho-MEK1/2 (#9154), anti-MEK1/2(#4694), anti-phospho-EGFR (Tyr1173)(#4407), anti-phospho-EGFR (Tyr1068)(#3777), anti-EGFR(#2085) (Cell Signaling Technology, Beverly, MA, USA).
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5

Western Blot Analysis of Stemness and Signaling

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Cells were lysed and homogenized in RIPA buffer supplemented with complete protease inhibitors. Equal amount of proteins (200 µg) was resolved in 12% SDS-PAGE. The proteins were then transferred onto PVDF membranes following electrophoresis. After blocked in 5% (w/v) non-fat milk for 1 h at room temperature, the membranes were then incubated at their respective appropriate dilutions of specific primary antibodies overnight at 4°C. The sources of primary antibodies were: anti-Oct4, anti-Sox2, anti-Vimentin and anti-phospho-STAT3 (Signalway Antibody, USA), anti-GAPDH (Kangcheng, Shanghai, China), anti-E-cadherin, anti-ERK1/2, anti- phospho-ERK1/2 and anti-N-cadherin (Santa Cruz Biotechnology, Santa Cruz, CA, USA), anti-PCNA, anti-STAT3, anti-NF-κB, anti-phospho-NF-κB, anti-CyclinD1, anti-VEGF and anti-C-Jun (Bioworld Technology, Louis Park, MN, USA), anti-C-myc (ProteinTech Group, Chicago, IL, USA).
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6

Evaluating NKD2 and Wnt Signaling in Cancer

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Immunohistochemistry (IHC) was performed in primary cancer and paired adjacent tissue samples. The procedure was performed as described previously [32 ]. NKD2 antibody (Novus Biology, CO, USA) was used at a 1/500 dilution overnight at 4°C. Anti- phospho-β-catenin (Bioworld Technology, MN, USA) and anti-cyclin D1 (Bioworld Technology, MN, USA) at a 1/150 dilution were incubated overnight at 4°C. The staining intensity and extent of the staining area were scored using the German semi-quantitative scoring system as previously described [32 ].
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7

Lentiviral DHRS2 Overexpression Protocol

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TCN was provided by Kunming Institute of Botany, the Chinese Academy of Sciences (purity > 99%, HPLC analysis) as previously described [41 (link)] (Fig. 4a). Dimethyl sulphoxide (DMSO, Sigma) was used to dissolve TCN. The final concentration of DMSO in the culture media was kept less than 0.1% v/v which had no significant effect on the cell growth. Elaidic acid and Oleic acid were purchased from MedChemExpress (NJ, USA).
The antibodies against β-actin and CDK4 were purchased from Santa Cruz Biotechnology (Santa Cruz, CA, USA). The antibodies against RB, pRB and Ki67 were obtained from Cell Signaling Technologies (Danvers, MA, USA). The antibody to detect DHRS2 (PA5–25258) was from Thermo Fisher Scientific. Anti-cyclin D1 was from Bioworld Technology.
pEZ-Lv105-DHRS2 was from GeneCopeia. The open reading frame of DHRS2 gene was inserted into the lentivirus vector pEZ-Lv105 using Gateway® recombination technology.
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8

Western Blot Analysis of Signaling Proteins

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We performed western blot according to the previous study [21 (link)]. Protein lysates were prepared, subjected to SDS-PAGE, transferred onto PVDF membranes and blotted according to standard methods, using anti-GSK3β, anti-phospho-β-catenin (Ser9), (Cell Signaling Technology), anti-CyclinD1, anti-c-Myc (Bioworld Technology, St. Louis Park, MN, USA)), anti-Ki-67 (Abcam, Cambridge, MA, USA), anti-MMP7, anti-SFRP2 (BD Biosciences, San Diego, CA, USA), anti-β-catenin (BD Biosciences, San Diego, CA, USA). Anti-α-Tubulin monoclonal antibody (Sigma, St Louis, MO, USA) served as a loading control.
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9

Protein Expression Analysis by Western Blot

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Proteins were isolated, subjected to SDS-page, transferred onto PVDF membranes and incubated with antibodies anti-SIAH1 (Abcam, Cambridge, MA, USA), anti-SFRP2 (Cell Signaling Technology, Danvers, MA, USA), anti-KRAS (Proteintech, USA), anti-Ki-67 (Abcam, Cambridge, MA, USA), anti-p27, anti-p21, anti-cyclinD1 (Bioworld Technology Inc. St. Louis Park, MN, USA). LamB1 and a-tubulin (Sigma, Saint Louis, MO, USA) were used as loading controls. Then, the membranes were detected by chemiluminescence. All operations above were performed in accordance with standard methods.
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10

YAP Regulation by IM and VP Treatments

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The siRNA targeting YAP and the non-targeting siRNA were purchased from Ruibobio (Guangzhou, China). The target sequences for YAP siRNA are 5′-GCGUAGCCAGUUACCAACA dTdT-3′, 5′- CAGUGGCACCUAUCACUCU dTdT-3′ and 5′- GGUGAUACUAUCAACCAAA dTdT-3′. IM was obtained from Novartis (Basel, Switzerland) and VP from Selleckchem (Houston, TX). Following antibodies were used in this study: anti-YAP(S127), anti-YAP(S397), anti-Bax, anti-caspase-3, anti-PARP, anti-p21 (Cell Signaling Technology, USA); anti-YAP and the HRP-conjugated secondary antibodies (Santa Cruz Biotechnology, USA); anti-CyclinD1, anti-survivin and anti-c-Myc (Bioworld Technology Inc, USA); anti-β-Actin (Zhong shan jin qiao, China).
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