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The FL-335 is a laboratory instrument designed for fluorescence detection and quantification. It is capable of measuring the intensity of fluorescent signals from samples. The core function of the FL-335 is to provide accurate and reliable fluorescence measurements for various applications in biological and chemical research.

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37 protocols using fl 335

1

Evaluating Stem Cell Markers in Cells

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Protein extracts from cells or tumour tissues were mixed with loading buffer, heated at 70°C for 10 minutes, separated on SDS‐PAGE gels and transferred to polyvinylidene fluoride (Millipore) membranes. Membranes were blocked for 2 hours in 5% bovine serum albumin and incubated overnight at 4°C with SP rabbit polyclonal antibodies against SOX2 (H‐65; sc‐20088, Santa Cruz, 1/1000), OCT4 (H‐134; sc‐9081, Santa Cruz, 1/1000), ABCG2 (B‐25; sc‐130933, Santa Cruz, 1/1000), JAMA (H202‐106; sc‐59845, Santa Cruz, 1/1000), Akt (H‐136; sc‐8312, Santa Cruz, 1/1000), ALDH1 (ab52492, Abcam, 1/1000), ABCG2 (ab207732, Abcam, 1/1000) and GAPDH (FL‐335; sc‐25788, Santa Cruz, 1/1000). Membranes were then incubated with horseradish peroxidase (HRP)–conjugated secondary antibody (sc‐2004, Santa Cruz, 1:1000) for 1 hour at room temperature. Finally, bands were visualized using enhanced chemiluminescence (Thermo Scientific Pierce).
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2

Western Blot Analysis of CD82 and GAPDH

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The Nitrocellulose membrane was blocked for 60 minutes with Odyssey® Blocking Buffer PBS (LI-COR) at room temperature under constant shaking. After blocking, an overnight incubation with the primary antibody at 4°C followed. The primary polyclonal antibody C-16 (Santa Cruz) raised in rabbits against human CD82 (KAI1) was diluted 1:200 in Odyssey® Blocking Buffer. On the next day, the membrane was washed three times with PBS-Tween before incubation with the DyLight 800 (KPL) secondary antibody (goat anti rabbit) for 60 minutes at room temperature, diluted 1:10,000 in Odyssey® Blocking Buffer. After three washes with PBS-tween, the membrane was exposed to infrared detection with the Odyssey® Infrared Imager (LI-COR). Similarly, immuno-staining with endogenous control antibody FL-335 (rabbit anti human GAPDH; 1: 1,000, Santa Cruz) was for two hours at room temperature followed by secondary antibody DyLight680 (KPL), washing and exposure as outlined above.
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3

Validating MYB Knockdown Using shRNA Constructs

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shRNA constructs cloned into the pLKO.1-puromycin lentiral vector were acquired from Sigma Mission shRNA library. Three shRNA targeted against MYB were obtained (Supplementary Table 9): MYB shRNA 1 (TRCN0000295917), MYB shRNA 2 (TRCN0000040058), and MYB shRNA 3 (TRCN0000040060). A scrambled sequence shRNA was used as a non-targeting control. Lentivirus for each shRNA was produced as described above. MYB knockdown was confirmed by western blot for three shRNA constructs in HEK293T cells as they do not require MYB for cellular fitness. HEK293T cells were transduced with shRNA lentivirus. Successful transductants were selected for 24 hours after lentivirus administration using 1 µg/mL puromycin. Western blots were performed using a MYB antibody (1:1000 dilution; EP769Y; Abcam) and GAPDH (1:2000 dilution; FL-335; Santa Cruz).
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4

Overexpression and Immunoblotting of GP130 Mutants

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For overexpression experiments, GP130-deficient HEK293T cells were cotransfected with a WT or mutant pCMV6-GP130 vector or an empty pCMV6 vector and cultured for 24 h before harvesting and cell lysis. Total protein extracts were prepared by mixing cells with lysis buffer (50 mM Tris, pH 7.4, 150 mM NaCl, 2 mM EDTA, and 0.5% Triton X-100) and incubating for 30 min at 4°C. The cells were centrifuged for 10 min at 16,000 ×g, and the supernatant was collected for immunoblotting. A mixture of protease and phosphatase inhibitors was added to the buffers immediately before use: aprotinin (10 µg/ml; Sigma-Aldrich), PMSF (1 mM; Sigma-Aldrich), leupeptin (10 µg/ml; Sigma-Aldrich), protease inhibitor cocktail (1×; Sigma-Aldrich). DNA was digested with Pierce Universal Nuclease for Cell Lysis (1/100; Thermo Fisher Scientific) during the lysis step. When indicated, PNGase F treatment was used in accordance with the manufacturer’s instructions (New England Biolabs) to eliminate N-glycosylation. The proteins were separated by SDS-PAGE and immunoblotting was performed with antibodies against GP130 (E-8; Santa Cruz) and GAPDH (FL335; Santa Cruz).
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5

Western Blot Analysis of Extracellular Vesicles

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sEVs or cell lysates (10ug) were separated on 7–15% SDS/PAGE gels and transferred onto PVDF membrane (Millipore, Billerica, MA, USA) for western blot analysis. Membranes were incubated overnight at 4°C with antibodies specific for: CD34 (1:2000, ab81289, Abcam), CD81 (1:200, PA5-13,582, Thermo Fisher), HMGCR (1:2000, ab174830, Abcam), SREBP-2 (1:500, sc-271,616, Santa Cruz), LDLR (1:500, sc-18,823, Santa Cruz), GAPDH (1:500, FL-335, Santa Cruz), CD123 (1:1000, AF841,R&D), CLL-1 (1:2000, AF2946, R&D), β-Actin (1:500, sc-47,778, Santa Cruz), TSG101 (1:500, PA5-31,260, Thermo Fisher), ApoB (1:2000, 20,578-1-AP, Thermo Fisher), Calnexin (1:1000, #2433, Cell Signalling), Grp94 (1:1000, #20,292, Cell Signalling). Next, the HRP-conjugated secondary antibody (1:10,000, Pierce, Thermo Fisher) was added for 1 h at room temperature (RT) and blots were developed with ECL detection reagents (GE Healthcare Biosciences, Pittsburgh, PA, USA). The intensities of the bands on exposed films were quantified using Image J software (NIH, USA).
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6

Western Blot Analysis of Key Proteins

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Cells were washed twice with cold phosphate-buffered saline (PBS) and lysed in RIPA buffer (150 mM NaCl, 1 mM EDTA, 1% NP40, 0.5% Sodium deoxycholate, 0.1% SDS, 50 mM Tris-HCl, pH 7.5) supplemented with 1% protease and phosphatase inhibitor cocktail (ThermoFisher). Proteins were separated by SDS-PAGE using the Bio-Rad system under reducing conditions. Membranes were probed with antibodies against SOX9 (H-90, Santa Cruz), SOX10 (N-20, Santa Cruz), NEDD9 (Clone 2G9, Abcam) and GAPDH (FL-335, Santa Cruz) for overnight at 4 °C and then incubated with appropriate horseradish peroxidase-conjugated goat anti-rabbit, rabbit anti-mouse and donkey anti-goat antibodies (at 1:2000, Dako) at room temperature for 1 h. After incubation with ECL substrate (WesternBright, Advansta) for 1–3 min, blots were exposed to X-ray film (FujiFilm Super RX) at different times to obtain the optimal intensity of the protein bands which were analyzed by ImageJ.
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7

Colorectal Cancer Protein Analysis

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Protein was extracted from the six matched pairs of colorectal adenocarcinoms and corresponding paracancerous tissues with the RIPA lysis buffer containing PMSF protease inhibitors and was quantified by using the BCA assay (Beyotime Institute of Biotechnology, China). Samples of 50 μg of protein were loaded and resolved by SDS-PAGE followed by transfer to a PVDF membrane. Non-specific binding was blocked using 5% bovine serum albumin in Tris Buffered Saline with Tween 20 (TBS-T, pH 7.6) for 2 h. Subsequently, incubation with primary antibodies, rabbit polyclonal anti-PGAM5 (1:1000 dilution, ab126534; Abcam, United Kingdom), rabbit polyclonal anti-Parkin (1:1000 dilution, ab233434; Abcam, United Kingdom), and glyceraldehyde-3-phosphate dehydrogenase (glyceraldehyde-3-phosphate dehydrogenase, 1:1000 dilution, FL-335; Santa Cruz Biotechnology, CA, United States) was undertaken overnight at 4 °C. After extensive washing, the membranes were incubated with anti-rabbit IgG secondary antibody (1:5000) and the immunoreactive bands were detected with ECL-Plus chemiluminescent detection HRP reagents (Beyotime Institute of Biotechnology, China) using the Microchemi 4.2 Bio-imaging system. The Western blots were quantified by densitometric analysis using ImageJ software (Version 1.46r). The experiments were repeated three times under the same experimental conditions.
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8

Western Blot Analysis of Protein Expression

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Proteins were extracted from the cells and quantified with Qubit Protein Assay Kit (Thermo Fisher Scientific). Then Western blot analysis was performed as reported previously [28 –30 ], using the LI-COR Odyssey imaging system (LI-COR Biosciences). The primary antibodies used were mouse anti-PLZF (1:100; D-9, Santa Cruz Biotechnology), mouse anti-OCT4 (1:200; C-10, Santa Cruz Biotechnology), rabbit anti-STRA8 (1:500; ab49602, Abcam), rabbit anti-p53 (1:100; FL-393, Santa Cruz Biotechnology), rabbit anti-GAPDH (1:400; FL-335, Santa Cruz Biotechnology) and mouse anti-β-actin (1:5000; A1978, Sigma-Aldrich). For quantification of the relative p53 protein expression, p53 band intensities were divided by those of GAPDH. Data were presented as the mean ± SEM of 4 independent experiments (n = 4). Differences among groups were assessed using the one-way ANOVA followed by the LSD test. P < 0.05 was considered statistically significant and P < 0.01 was considered extremely significant.
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9

Antibody Panel for Cell Biology

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The following antibodies were used for IB, IF, and IP experiments: anti-Drg1 antibody (dilution 1:1,000 for IB, PAB20044; Abnova), anti-Drg2 antibody (1:1,000 for IB, NBP2-16227; Novus Biological), anti-acetylated tubulin antibody (1:1,000 for IF, T7451; Sigma-Aldrich), monoclonal anti–α-tubulin antibody (1:500 for IF, T9026; Sigma-Aldrich), anti-Dvl2 antibody (1:1000 for IB, 1:200 for IP, 3216S; Cell Signaling Technology), anti-Dvl3 antibody (1:2,000 for IB, 2 µg for IP, 13444–1-AP; Proteintech), anti-phospho-cofilin (Ser3) polyclonal antibody (1:500 for IF, 44-1072G; Thermo Fisher Scientific), anti-phospho LIMK1 (phospho T508) antibody (1:500 for IF, ab38508; Abcam), anti-GAPDH antibody (1:5,000 for IB, FL-335; Santa Cruz Biotechnology), anti-GFP antibody (1 µl/tube for IP, 1:500 for IF, NB600-308; Novus Biological), anti-GST antibody (1:2,000 for IB, ab19256; Abcam), HA-tag (C29F4) antibody (1:1,000 for IF, 3724; Cell Signaling Technology), anti-V5-peroxidase antibody (dilution 1:10,000 for IB, V2260; Sigma-Aldrich), and monoclonal anti-Flag-M2 HRP antibody (dilution 1:5,000 for IB, A8592; Sigma-Aldrich).
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10

Quantifying Protein Expression via Western Blot

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Cells were seeded in 6-well plates. Once 80% confluency was reached, media was discarded and cells were washed twice with phosphate-buffered saline. Cells were treated with 1 mL 0.25% trypsin and incubated for 5 min, after which the corresponding media was added to dilute the trypsin. The mixture was pipetted from the plates to tubes. Proteins were extracted from the cells using a RIPA buffer and the addition of protease- and phosphatase-inhibitors. Protein expression was quantified with the Qubit Protein Assay Kit (Thermo Fisher Scientific). Western blot analysis was performed using the LI-COR Odyssey imaging system (LI-COR Biosciences) as previously reported [19 (link)]. The primary antibodies were mouse anti-TRIP13 (1:1000, ab128171, Abcam), rabbit anti-GAPDH (1:400; FL-335, Santa Cruz Biotechnology), mouse anti-TUBULIN (1:1000; T9026, Sigma), rabbit anti-RAD51 (1:1000; PA5-27195, Thermo Fisher Scientific) mouse anti-KU70 (1:1000; ab2172-500, Abcam), rabbit anti-Ligase IV (1:1000; ab193353, Abcam). Band intensities were assessed using Image Studio Lite (Version 5.2).
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