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158 protocols using lamin b1

1

CFTR expression regulation by SFPQ

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The following reagents were used: MEMα (Gibco, 12571-048), 0.05% Trypsin–EDTA (Gibco, 25300-054), 0.25% Trypsin–EDTA (Gibco, 25200114), Puromycin (Gibco, A1113803), Fetal Bovine Serum (Gibco, 10437-010), Opti-MEM (Gibco, 31985-062), Lipofectamine 2000 transfection reagent (Invitrogen, 11668019), Pen Strep (Gibco, 15140-122) miRVana kit (Ambion, AM1560). Antibodies against the following proteins were used as recommended by the manufacturers: GAPDH (Millipore, MAB374), C-terminal CFTR antibody, clone 24-1 (R&D systems, MAB25031), for surface expression of CFTR (abcam, ab2784), SFPQ (abcam, ab177149 and Bethyl Laboratories A301-321A), Lamin B1 and β-actin (Cell Signaling, 13435 & 8H10D10 respectively). All primary antibodies were used at 1:1000 dilution. SFPQ (untagged)-Human splicing factor proline/glutamine-rich (SFPQ) cDNA was purchased from Origene (SC127926). Taqman assay for candidate genes SFPQ (ID: Hs00192574_m1) and CFTR (ID: Hs00357011_m1) was used to analyze mRNA expression and was obtained from Life technologies.
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2

Immunoblot Analysis of Signaling Pathways

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Cells were lysed in RIPA buffer with added protease inhibitors and protein content was measured by BCA assay. Total protein was resolved using SDS-PAGE and subjected to immunoblot analysis. Nuclear and cytoplasmic protein fractions were separately processed similar to total protein and analyzed by immunoblot. Densitometric analyses were performed using ImageJ and phospho-p65 values were normalized to total p65. Uncropped blots are included with supplemental data. Antibodies used were phospho-STAT3 (1:1000, Cell Signaling #9131S), phospho-STAT5 (1:1000, Cell Signaling 9314S), phospho-p65 (1:1000, Cell Signaling #3033S), total STAT3 (1:1000, Cell Signaling #12640), total STAT5 (1:1000, Cell Signaling #94205), total p65 (1:1000, Cell Signaling #8242), GAPDH (1:10,000, Cell Signaling #2118), β-tubulin (1:1000, Cell Signaling #2146S), Lamin B1 (1:1000, Cell Signaling #12586S). We detected two bands for total STAT5 proteins, which correspond to Stat5a and STAT5b, isoforms of STAT5 encoded by homologous genes24 (link). We also detected two bands for p65, which may correspond to one of the reported isoforms for p65, of which the larger one is transcriptionally active25 (link).
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3

Quantitative Protein Expression Analysis

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Total proteins were isolated from liver tissue as described previously. Specific antibodies against Nrf2, HO-1, NQO-1, Bcl-2, Bax, Cyto C, PARP, Caspase-3, p62, Beclin-1, Parkin, LC3, PGC-1α, OPA-1, Mfn-2, Drp-1, NF-κB, β-actin and Lamin B1 were purchased from Cell Signaling Technology (Danvers, MA, USA). Specific antibodies against PINK1 were purchased from Abcam (Cambridge, MA, USA). β-actin, and Lamin B1 were used to quantify protein expression. Densitometric quantifications of indicated proteins were analyzed by Image J (NIH, Bethesda, MD, USA). Quantifications of liver sections were analyzed by Image Pro plus (Media Cybernetics, Rockville, MD, USA).
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4

Protein Extraction and Western Blot Analysis

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Proteins were extracted from cell lysis with the Radio Immunoprecipitation Assay (RIPA) buffer (Thermo Scientific, Carlsbad, California, USA) containing a protease inhibitor cocktail (Selleck, Huston, Texas, USA). BCA kit (Thermo Scientific, Carlsbad, California, USA) was used to quantify proteins and equal amounts was resolved by sodium dodecyl sulfate polyacrylamide (SDS-PAGE) gel and transferred to the PVDF membrane (Millipore, Billerica, MA). The membranes were blocked for 2h with 5% skim milk at room temperature and incubated with primary antibodies at 4°C overnight with gentle shake. The PVDF membrane was then incubated with appropriate secondary antibody for 1 h at room temperature. The bands in the membranes were then detected using the enhanced chemo luminescence substrate kit (Thermo Scientific, Carlsbad, California, USA) and scanned with Image J software. The antibodies used in our study including MMP9, CCND1, XIAP, TWIST1, IκBα, p-IκBα, p-IKKα/β, IKKα, IKKβ, N-Cadherin, E-Cadherin, Vimentin, Lamin B1 and GAPDH are purchased from Cell Signaling (CST, Danvers, MA, USA).
Subcellular fractions were prepared from ESCC cells with a Minute™ Cytoplasmic & Nuclear Extraction Kits (Invent biotech, Eden Prairie, USA) according to manufacturer’s instructions.
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5

Oxidative Stress-Induced Signaling Pathways

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TauCl as a crystalline sodium salt (MW 181.57) was prepared as described previously [12 (link)]. Primary antibody for protein modified with 4-hydroxynonenal (4-HNE) was purchased from Japan Institute for the Control of Aging (JaICA), Nikken SEIL Co., Ltd. (Shizuoka, Japan). Primary antibodies for cyclooxygenase-2 (COX-2), Signal transducer and activator of transcription (STAT3), phospho-STAT3Y705, cyclin D1, α-tubulin, Kelch-like ECH-associated protein 1 (Keap1) and lamin B1 were provided by Cell Signaling Technology (Danvers, MA, USA), and those for Nrf2 and heme oxygenase-1 (HO-1) were supplied from Abcam (Cambridge, MA, USA) and Enzo Life Sciences (Farmingdale, NY, USA), respectively. Nuclear factor-κB (NFκB) p65 and phospho-NFκB p65 were obtained from Santa Cruz Biotechnology (Dallas, TX, USA). Antibodies for caspase-3 and cleaved caspase-3 were purchased from Cell Signaling Technology (Danvers, MA, USA).
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6

Western Blot Analysis of Cell Signaling

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Cell lysates were prepared using RIPA buffer (9806, Cell Signaling) supplemented with protease and phosphatase inhibitors (11836153001 and 4906845001; Roche) according to manufacturer's instructions. Lysates were mixed with 4× Loading Buffer (928‐40004, Li‐Cor) and denatured at 95°C for 5 min prior to electrophoresis. SDS‐PAGE was performed with the NuPAGE® electrophoresis system (Thermo Fischer) including 4%–12% Bis‐Tris gels (Thermo Fischer, # NP0336BOX) and MES SDS Running Buffer (NP0002; Thermo Fisher) according to the manufacturer's instructions. Western blotting onto nitrocellulose membranes (10600002; GE Healthcare) was performed inside an XCell II™ Blot Module (Thermo Fischer) for 1 h at 30 V constant (25 mM Tris‐BASE; 192 mM Glycine, 20% (v/v) Methanol transfer buffer). Membranes were washed with TBS (15 mM Tris–HCl pH 7.6; 136 mM NaCl) and blocked with TBS Blocking Buffer (927‐50000, Li‐Cor). Primary antibodies were incubated at 4°C overnight according to manufacturer's instructions. The following antibodies were used: Phospho‐Histone H2A.X (Ser139) (2577, Cell Signaling), Cyclin D1 (2978, Cell Signaling), Lamin B1 (13435, Cell Signaling), p16Ink4a (80772, Cell Signaling), p21Cip1 (2948, Cell Signaling), GAPDH (2118, Cell Signaling), FLAG (740001, Thermo Fischer), pMLC (3675, Cell Signaling), and alpha‐SMA (ab5694, Abcam).
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7

Investigating Cellular Stress Response

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Obacunone, hydrogen peroxide (H2O2), neomycin and puromycin were purchased from Sigma-Aldrich (St Louis, Mo). Antibodies for HO1 (#70081), NQO1 (#3187), Nrf2 (#12721), Keap1 (#8047), Tubulin (#2125) and Lamin B1 (#13435) were provided by Cell Signaling Tech (Shanghai, China). All cell culture reagents were from Gibco Co. (Suzhou, China).
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8

Western Blot Protein Detection Protocol

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Lysates were mixed with 4× SDS buffer and run on a NuPAGE 10% Bis–Tris Gel at 100 V. The gel was then transferred onto Immobilon P membrane for 1 h at 20 V using a semidry transfer apparatus (Bio-Rad). The membrane was blocked with 5% Blotto (Bio-Rad) in Tris-buffered saline with Tween-20 (TBST) for 1.5 h before primary (GAPDH: 1:5000 dilution [R&D Systems], lamin B1: 1:1000 dilution [Cell Signaling Technology], LAMP1: 1:1000 dilution [Thermo Fisher Scientific], voltage-dependent anion channel: 1:500 dilution [Thermo Fisher Scientific]) antibody was added at specific dilutions and incubated on a shaker overnight at 4 °C. The membrane was then washed three times with TBST at 10 min intervals. It was reprobed with (goat anti-rabbit/mice) secondary antibody for 1.5 h at room temperature. The membrane was washed four times with TBST and exposed to Enhanced Chemiluminescence Prime Western blot detection kit (GE Lifesciences) for 2 min. Blots were imaged with a Syngene digital imager.
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9

Signaling Pathway Analysis in Cells

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The primary antibodies STAT3, pSTAT3 (Y705), ERK1/2, pERK1/2, SPHK1, EGR1, Lamin B1 and cyclin 1 were from Cell Signaling Technology (CST) (Danvers, MA), SPHK1 and alpha-tubulin was from Abcam and phospho-SPHK1 (Ser225) was purchased from ECM Biosciences. HRP-conjugated rabbit and mouse secondary antibodies were from CST, Alexa fluorescent labeled secondary antibodies and phalloidin were purchased from Thermo Fischer Scientific (Waltham, MA). Inhibitors W 146 (iS1PR1), JTE 013 (iS1PR2), TY 52156 (iS1PR3) and PF543 (iSPHK1) were from Cayman Chemical (Ann Arbor, MI), PD 184161 (iERK) was from Santa Cruz Biotechnology (Dallas, TX) and Ruxolitinib (iJAK1//2) and Trametinib (iERK1) were purchased from LC laboratories (Woburn, MA). EMAP II neutralizing antibody (Anti-EMAP II) was used to block EMAP II activity [26 (link)].
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10

Erlotinib-Resistant Lung Cancer Cell Line

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Erlotinib-resistant HCC827/ER cells were established as previously described [34 (link)] and cultured in a RPMI-1640 medium (Hyclone, Beijing, China, SH30809.01) supplemented with 10% FBS (R&S, Australia, 009106), penicillin and streptomycin (Gibco, New York, NY, USA, 15140122), and 5 μM Erlotinib (Selleck, Shanghai, China, s1023) at 37 °C and 5% CO2. The parental HCC827 cell line was purchased from ATCC. The following antibodies were used: p-AKTSer473 (Cell Signaling Technology, Danvers, MA, USA, 4060), AKT (Abcam, Shanghai, China, ab79360), E-cadherin (Proteintech, Wuhan, China, 20874-1-AP), N-cadherin (ZEN Bio, Chengdu, China, 382812), vimentin (ZEN Bio, Chengdu, China, R22775), snail (Cell Signaling Technology, 3879), laminA/C (Santa Cruz, Starr County, TX, USA, sc-376248), laminB1 (Cell Signaling Technology, 12586), ZEB1 (Cell Signaling Technology, 3396), p-FGFR (Abcam, Shanghai, China, ab192589), p-ERK1/2 (Cell Signaling Technology, 4370), ERK1/2 (Proteintech, Wuhan, China, 67170-1-Ig), p-c-fos (Santa Cruz, TX, USA, sc-81485), c-fos (ZEN Bio, Chengdu, China, 340249), p-EGFRY845 (Cell Signaling Technology, 6963), and GAPDH (SAB, MD, USA, 48142).
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