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4 protocols using anti hnrnpd

1

Protein Detection by Western Blotting

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Proteins were resolved on SDS polyacrylamide (PAA) gels (12.5%) and transferred to nitrocellulose membranes (Bio-Rad, #1,620,115). Membranes were blocked in PBS containing 0.1% Tween-20 and 3% BSA and probed with the designated primary antibodies and with IRDye 800CW (Licor #926-32,210, #926-32,211) or IRDye 650RD secondary antibodies (Licor #926-68,070, #926-68,071). The blots were visualized with the Odyssey® CLx Imaging System. The following primary antibodies were used: anti-β-actin (1:2,000; Sigma, #A1978), anti-β-Tubulin (1:2,000; Sigma, #T0198), anti–ELAVL1 (1:500; Santa Cruz, #sc-5261), anti-KHSRP (1;1000; Cell Signalling, #13,398), anti-SNW1 (1:1,000; Abcam, #ab67165), anti-PDAP1 (1:500; Cell Signalling, #4300), anti-p53 (1:1,000; Cell Signalling, #9282), anti-CDKN1B/p27 (1:500; Cell Signalling, #3686), anti-hnRNPD (1:1,000; Millipore, #07-260), anti-CUGBP1 (1:500; Santa Cruz, #sc-20,003) and anti-GFP (1:2,000; Roche, #11,814,460,001).
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2

Investigating Synaptic Protein Regulation

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Antibodies used in this study are as follows: anti-GluA1, anti–hnRNP A2/B1, anti–PSD-95 (Abcam), anti–phospho-RPS6, anti–phospho-ERK (extracellular signal–regulated kinase), anti-FMRP (Cell Signaling), anti–N-term-GluA1, anti–N-term-GluA2, anti–hnRNP D (Millipore), anti-MAP2, anti–hnRNP A1, anti–14-3-3ζ (Santa Cruz), anti–hnRNP Q, anti-Flag (Sigma-Aldrich), anti-NMDAR1 (Synaptic Systems), and anti-actin (MPBIO). To inhibit translation, SHSY5Y cells were treated with 10 nM RAD001 or cycloheximide (100 μg/ml) and harvested at the indicated times. To block cap-dependent translation or induce synaptic stimulation, neurons were treated with 20 nM rapamycin (Sigma-Aldrich) or recombinant BDNF (100 ng/ml) (PeproTech), respectively.
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3

Comprehensive Antibody Analysis Protocol

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The following antibodies were used for IP and/or western blot analysis: anti-β-actin (#4970; Cell Signalling), anti-CDK9 (sc-13130; Santa Cruz), anti-CNOT1 (14276-1-AP; Protein Tech), anti-CNOT7 (H00029883; Abnova), anti-FLAG (M2; Sigma), anti-hnRNPD (Q14103; Millipore), anti-HA (1867423; Roche), anti-IGF2BP1 (sc-21026; Santa Cruz), anti-KHSRP (ab83291; Abcam), anti-LARP7 (LaRP7-101AP; FabGennix Inc.), anti-LDLR (AF2148; BD Biosciences), anti-Myc (9E10; Roche), anti-phospho-ERK (#9101s; Cell Signalling), anti-phospho-MAPKAPK2 (#3007s; Cell Signalling), anti-phospho-RSK (sc-17033; Santa Cruz), anti-ZFP36L1 (#2119; Cell Signalling), anti-phospho-S6 (#2211; Cell Signalling).
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4

Cytoplasmic and Nuclear Protein Extraction

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Cytoplasmic lysates were prepared from NIH-3T3 cells using hypotonic-lysis buffer containing 10 mM HEPES (pH 7.9), 10 mM KCl, 1.5 mM MgCl 2 , 1 mM DTT, 0.2 mM PMSF, and 2.5% NP-40 at 4°C. Nuclei were obtained by centrifugation, and washed twice in the hypotonic-lysis buffer to avoid contamination of cytoplasmic proteins. Nuclear lysates were prepared using extraction buffer containing 20 mM HEPES (pH 7.9), 450 mM NaCl, 1.5 mM MgCl 2 , 1 mM DTT, 0.2 mM PMSF, and 0.2 mM EDTA (pH 8.0) at 4°C. Both lysates were followed by repeated freeze-thaws for complete disruption. Immunoblot analysis was performed using polyclonal anti-PTB, polyclonal anti-PER3, anti-hnRNP D (Millipore Corporation, Bedford, MA, USA), anti-14-3-3f, anti-Lamin-B (Santa Cruz Biotechnology, Dallas, TX, USA), anti-hnRNP K (Abcam, Cambridge, UK) and monoclonal anti-FLAG (Sigma, St Louis, MO, USA), anti-glyceraldehyde-3-phosphate dehydrogenase (GAPDH) (Millipore Corporation) primary antibodies and horseradish peroxidase-conjugated rat-, rabbit-specific (Bethyl Laboratories, Montgomery, TX, USA), and mouse-specific (Thermo Scientific, Rockford, IL, USA) secondary antibodies. Proteins were analyzed using SUPEX enhanced chemiluminescence (ECL) solution kit (Neuronex, Daegu, Republic of Korea) and LAS-4000 chemiluminescence detection system (Fujifilm, Tokyo, Japan), according to the manufacturer's instructions.
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