Western Blot:Article Title: IP3 Receptors Mediate Calcium and Anabolic Signaling Associated with Muscle Atrophy upon 3-Day Hind Limb Unloading in Rats
Article Snippet: Skeletal muscle unloading results in muscle atrophy associated with the upregulation of proteolytic genes and suppression of protein synthesis, often accompanied by altered calcium signaling.. Here, we used the inositol trisphosphate receptor (IP3R) inhibitor aminoethoxydiphenyl borate (2-APB) to explore the hypothesis that these changes are mediated by IP3Rs.. Male Wistar rats were divided into 4 groups: (i) control, (ii) control with daily injections of 2-APB, (iii) 3 days of hind limb suspension, (iv) 3 days of hind limb suspension with daily administration of 2-APB.
Bioprocessing:Article Title: Arf5-mediated regulation of mTORC1 at the plasma membrane
Article Snippet: Mouse monoclonal antibodies to GFP (clone 7.1 and 17.1) (#11814460001; 1:1000) were purchased from Roche Applied Science, Germany. .. Rabbit polyclonal antibodies to mTOR (#2983; 1:500), phospho-Ser240/244 S6 (#2217; 1:500), p70 S6 kinase (#9202; 1:500), phospho-Thr389 p70 S6 kinase (#9205; 1:500), phospho-Thr37/46 4E-BP1 (#2855; 1:500), HA-tag (clone C29F4) (#3724; 1:1000), and rabbit monoclonal antibodies against ribosomal protein S6 (clone 5G10) (#2217; 1:500), 4E-BP1 (#9644; 1:500), and PRAGC/RagC (clone D8H5) (#9480S; 1:500) were purchased from Cell Signalling Technologies, Australia. .. Rabbit polyclonal antibody against GFP (PABG1; 1:500) was from ChromoTek, Germany.
Residue:Article Title: α−Calcitonin gene-related peptide inhibits autophagy and calpain systems and maintains the stability of neuromuscular junction in denervated muscles
Article Snippet: .. Muscle tissues (mouse gastrocnemius and rat soleus ) and C2C12 cells were lysed and immunoblotted with anti-LC3 (1 : 1000; Cell Signaling 2775S); anti-calpain 1 large subunit detecting full-length calpain 1 as well as calpain 1 autoproteolytically cleaved at leucine 28 residue (1 : 750; Cell Signaling #2556S); anti-calpastatin (1 : 750; Cell Signaling #4146S); anti-phospho S6-(Ser235/236) (1 : 1000; Cell Signaling #2211S); anti-phospho-Ser256 FoxO1 (1 : 750; Cell Signaling #9461); phospho-Thr32 FoxO3 and phospho-Thr24 FoxO1 (1 : 750; Cell Signaling #9464); FoxO1 (1 : 1000; Cell Signaling #9454); FoxO3 (1 : 1,000; Sigma–Aldrich AV38041); phospho-Thr37/46 4EBP1 (1 : 1,000; Cell Signaling #2855); 4EBP1 (1 : 1000; Cell Signaling #9452); phospho-Ser240/244 S6 (1 : 1000; Cell Signaling #2215); S6 (1 : 1000; Cell Signaling # #2217); anti-α-actinin (1 : 1000; Sigma–Aldrich A7811); anti-p35 (1 : 750; Santa Cruz Biotechnology sc-820); anti-Cdk5 (1 : 500; Santa Cruz Biotechnology sc-173); anti-endophilin-B1 (1 : 500; Santa Cruz Biotechnology sc-134843); anti-α-tubulin (1 : 1000; Santa Cruz Biotechnology sc-32293); anti-β-actin (1 : 1000; Santa Cruz Biotechnology sc-81178). .. Primary antibodies were detected using peroxidase-conjugated secondary antibodies (1 : 5000 for β-actin or α-tubulin and 1 : 1000 for the other primary antibodies) and visualized using ECL reagents by an ImageQuant 350 detection system (GE Healthcare, Piscataway, NJ).
Transgenic Assay:Article Title: Nutrient Sensing Nuclear Receptors Coordinate Autophagy
Article Snippet: .. Reagents were obtained from the following sources: C57BL/6J mice and PPARα −/− mice from the Jackson Laboratory; FXR −/− and GFP-LC3 transgenic (Tg) mice were previously described , ; Antibodies to LC3 (NB600–1384) from Novus Biologicals; rabbit antibodies to phospho-Ser240/244 S6 (cat. # 5364), S6 (cat. # 2217), phospho-Thr37/46–4E–BP1 (cat. # 2855), 4E–BP1 (cat. # 9452), anti-mouse IgG-HRP (cat. # 7076) and β-actin (cat. # 5125) from Cell Signaling Technology; antibody to normal rabbit IgG (sc-2027), PPARα (sc-9000x), FXR (sc-13063x), Pol II (sc-899x), p300 (sc-585x), CRTC2/TORC2 (sc-6714x) and anti-rabbit IgG-HRP (sc-2370) from Santa Cruz Biotechnology; antibody to Histone H3K27me3 (cat. # 39155) from ACTIVE MOTIF; GW7647 and Wy-14,643 from Cayman chemicals; GW4064 from Tocris bioscience; Bafilomycin A 1 from Enzo Life Science; AML12 cells from ATCC (CRL-2254); GFP antibody (cat. # 11814460001), PhosSTOP (Cat. # 04906837001), and Complete Protease Cocktail (Cat. # 11836170001) from Roche; ITS (Cat. # 41400–045), Lipofectamine 2000 (Cat. # 11668019), BODIPY 493/503 (D-3922), Alexa Fluor 594 goat anti-rabbit IgG (Cat. # A11037), Stealth siRNAs-NCoR (NcoR1, MSS208758), SMRT (NcoR2, MSS20912), SHP (NR0b2, MSS239500), and HIGH_GC from Invitrogen; mRFP-GFP-LC3(ptfLC3) plasmid, a gift of T. Yoshimori (Addgene plasmid # 21074); anti-rabbit p62/SQSTM1 (Cat. # P0067), anti-rabbit LC3B (Cat. # L7543), Oleic-Acid-Albumin (Cat. # O3008–5ML), and Dexamethasone (Cat. # D4902–25MG) from Sigma; Protein A Sepharose CL-48 (Cat. # 17–0780–01) from GE Healthcare; VECTASHIELD (Cat. # H-1200) from Vector Laboratories; SacI-HF (Cat. # R3156S) and BglII (Cat. # R0144S) from New England Biolabs; PierceTM BCA Protein Assay Kit (Cat. # 23227) from Thermo Scientific; SMRT antibody (ab24551) and β-hydroxybutyrate assay kit (ab83390).from abcam; anti-acetyl-Histone H4 antibody (06–866) from EMD Millipore. ..
Plasmid Preparation:Article Title: Nutrient Sensing Nuclear Receptors Coordinate Autophagy
Article Snippet: .. Reagents were obtained from the following sources: C57BL/6J mice and PPARα −/− mice from the Jackson Laboratory; FXR −/− and GFP-LC3 transgenic (Tg) mice were previously described , ; Antibodies to LC3 (NB600–1384) from Novus Biologicals; rabbit antibodies to phospho-Ser240/244 S6 (cat. # 5364), S6 (cat. # 2217), phospho-Thr37/46–4E–BP1 (cat. # 2855), 4E–BP1 (cat. # 9452), anti-mouse IgG-HRP (cat. # 7076) and β-actin (cat. # 5125) from Cell Signaling Technology; antibody to normal rabbit IgG (sc-2027), PPARα (sc-9000x), FXR (sc-13063x), Pol II (sc-899x), p300 (sc-585x), CRTC2/TORC2 (sc-6714x) and anti-rabbit IgG-HRP (sc-2370) from Santa Cruz Biotechnology; antibody to Histone H3K27me3 (cat. # 39155) from ACTIVE MOTIF; GW7647 and Wy-14,643 from Cayman chemicals; GW4064 from Tocris bioscience; Bafilomycin A 1 from Enzo Life Science; AML12 cells from ATCC (CRL-2254); GFP antibody (cat. # 11814460001), PhosSTOP (Cat. # 04906837001), and Complete Protease Cocktail (Cat. # 11836170001) from Roche; ITS (Cat. # 41400–045), Lipofectamine 2000 (Cat. # 11668019), BODIPY 493/503 (D-3922), Alexa Fluor 594 goat anti-rabbit IgG (Cat. # A11037), Stealth siRNAs-NCoR (NcoR1, MSS208758), SMRT (NcoR2, MSS20912), SHP (NR0b2, MSS239500), and HIGH_GC from Invitrogen; mRFP-GFP-LC3(ptfLC3) plasmid, a gift of T. Yoshimori (Addgene plasmid # 21074); anti-rabbit p62/SQSTM1 (Cat. # P0067), anti-rabbit LC3B (Cat. # L7543), Oleic-Acid-Albumin (Cat. # O3008–5ML), and Dexamethasone (Cat. # D4902–25MG) from Sigma; Protein A Sepharose CL-48 (Cat. # 17–0780–01) from GE Healthcare; VECTASHIELD (Cat. # H-1200) from Vector Laboratories; SacI-HF (Cat. # R3156S) and BglII (Cat. # R0144S) from New England Biolabs; PierceTM BCA Protein Assay Kit (Cat. # 23227) from Thermo Scientific; SMRT antibody (ab24551) and β-hydroxybutyrate assay kit (ab83390).from abcam; anti-acetyl-Histone H4 antibody (06–866) from EMD Millipore. ..
Bicinchoninic Acid Protein Assay:Article Title: Nutrient Sensing Nuclear Receptors Coordinate Autophagy
Article Snippet: .. Reagents were obtained from the following sources: C57BL/6J mice and PPARα −/− mice from the Jackson Laboratory; FXR −/− and GFP-LC3 transgenic (Tg) mice were previously described , ; Antibodies to LC3 (NB600–1384) from Novus Biologicals; rabbit antibodies to phospho-Ser240/244 S6 (cat. # 5364), S6 (cat. # 2217), phospho-Thr37/46–4E–BP1 (cat. # 2855), 4E–BP1 (cat. # 9452), anti-mouse IgG-HRP (cat. # 7076) and β-actin (cat. # 5125) from Cell Signaling Technology; antibody to normal rabbit IgG (sc-2027), PPARα (sc-9000x), FXR (sc-13063x), Pol II (sc-899x), p300 (sc-585x), CRTC2/TORC2 (sc-6714x) and anti-rabbit IgG-HRP (sc-2370) from Santa Cruz Biotechnology; antibody to Histone H3K27me3 (cat. # 39155) from ACTIVE MOTIF; GW7647 and Wy-14,643 from Cayman chemicals; GW4064 from Tocris bioscience; Bafilomycin A 1 from Enzo Life Science; AML12 cells from ATCC (CRL-2254); GFP antibody (cat. # 11814460001), PhosSTOP (Cat. # 04906837001), and Complete Protease Cocktail (Cat. # 11836170001) from Roche; ITS (Cat. # 41400–045), Lipofectamine 2000 (Cat. # 11668019), BODIPY 493/503 (D-3922), Alexa Fluor 594 goat anti-rabbit IgG (Cat. # A11037), Stealth siRNAs-NCoR (NcoR1, MSS208758), SMRT (NcoR2, MSS20912), SHP (NR0b2, MSS239500), and HIGH_GC from Invitrogen; mRFP-GFP-LC3(ptfLC3) plasmid, a gift of T. Yoshimori (Addgene plasmid # 21074); anti-rabbit p62/SQSTM1 (Cat. # P0067), anti-rabbit LC3B (Cat. # L7543), Oleic-Acid-Albumin (Cat. # O3008–5ML), and Dexamethasone (Cat. # D4902–25MG) from Sigma; Protein A Sepharose CL-48 (Cat. # 17–0780–01) from GE Healthcare; VECTASHIELD (Cat. # H-1200) from Vector Laboratories; SacI-HF (Cat. # R3156S) and BglII (Cat. # R0144S) from New England Biolabs; PierceTM BCA Protein Assay Kit (Cat. # 23227) from Thermo Scientific; SMRT antibody (ab24551) and β-hydroxybutyrate assay kit (ab83390).from abcam; anti-acetyl-Histone H4 antibody (06–866) from EMD Millipore. ..
Pyrolysis Gas Chromatography:Article Title: Ablation of S1P 3 receptor protects mouse soleus from age-related drop in muscle mass, force, and regenerative capacity.
Article Snippet: .. The following rabbit antibodies were used: Phospho(Ser473)-Akt (#4060, Cell Signaling Technology; 1:1000 in 5% BSA and 0.1% Tween-20 in TBS), Akt (#9272, Cell Signaling technology; 1:500 in 5% BSA and 0.1% Tween-20 in TBS), Phospho(Ser240/244)- S6 (#5364, Cell Signaling Technology; 1:1000 in 5% BSA and 0.1% Tween-20 in TBS), Phospho(Ser423/425)Smad3 (#Ab52903, Abcam, 1:1000 in 5% BSA and 0.1% Tween-20 in TBS), GAPDH (#GTX100118, GenTex; 1:5000 in 2% BSA, 0.2% Tween-20 in TBS), LC-3 (#L7543, Sigma; 1:1000 in 5% low-fat milk, 0.1% Tween-20 in TBS) and P62 (#P0067, Sigma; 1:1000 in 5% low-fat milk, 0.1% Tween-20 in TBS), PGC-1α (#ab54481, Abcam; 1:1000 in 5% low-fat milk, 0.1% Tween-20 in TBS), MuRF-1 (#MP3401, ECMBioscience; 1:500 in 5% low-fat milk, 0.04% Tween-20 in TBS), Tom20 (#sc11415, Santa Cruz Biotechnology; 1:500 in 5% BSA, 0.05% Tween-20 in TBS), Bcl2 (#2876S, Cell Signaling; 1:1000 in 5% BSA, 0.1% Tween-20 in TBS). .. The secondary antibody utilized was an anti-rabbit peroxidase-conjugated antibody (#P0448, Dako) diluted 1:5000 in the same buffer as the cognate primary antibody and incubated for 1 hour.
Immunohistochemistry:Article Title: Antitumor Activity of Rapamycin in a Phase I Trial for Patients with Recurrent PTEN-Deficient Glioblastoma
Article Snippet: .. The following antibodies were used for IHC: anti-PTEN (6H2.1, #ABM-2052, Cascade BioScience; 1:400 dilution), anti-Ki-67 (MIB-1, M7240, DakoCytomation; 1:100 Dilution), anti-phospho Ser235/236 S6 (91B2, #4857, Cell Signaling; 1:50 dilution), anti phospho Ser240/244 S6 (#2215, Cell Signaling; 1:200 dilution), anti-phospho-PRAS 40 (#44–1100G, Biosource; 1:200 dilution), anti-phospho Ser473 Akt (736E11, #3787, Cell Signaling; 1:50 dilution), anti-phospho Thr389 p70 S6 Kinase (#9205, Cell Signaling; 1:100 Dilution), and anti phospho Ser1108 eIF4G at 1:400 (#2441, Cell Signaling; 1:400 dilution). ..
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