Ubiquitin Proteomics:Article Title: Muscle peripheral circadian clock drives nocturnal protein degradation via raised Ror/Rev-erb balance and prevents premature sarcopenia
Article Snippet: .. 6×His, mouse monoclonal IgG1 Proteintech #66005 A4.1025 (pan myosin), mouse monoclonal IgG2a DSHB #A4.1025 Actin (pan), rabbit polyclonal Sigma-Aldrich #A2066 BMAL1, rabbit polyclonal abcam #ab93806 c-Myc (clone 9E10), mouse monoclonal Bio-rad #MCA2200GA eIF4EBP (non-phospho; clone 87D12), rabbit monoclonal Cell Signaling #4923 eIF4EBPThr37/46-P (clone 236B4), rabbit monoclonal Cell Signaling #2855 GFP (cross reacts with EGFP), chicken polyclonal abcam #ab13970 Histone H3 protein, rabbit polyclonal abcam #ab1791 LC3B, rabbit polyclonal Cell Signaling #2775 mCherry, mouse monoclonal Affinity Biosciences #T0090 MuRF1/TRIM63, goat polyclonal R&D Systems #AF5366 NR1D1, rabbit polyclonal Proteintech #14506-1-AP p62/SQSTM1, rabbit polyclonal abcam #ab155686 RFP (cross reacts with mCherry), rabbit polyclonal MBL #PM005 RpS6 ribosomal protein (total; clone 54D2), mouse monoclonal Cell Signaling #2317 RpS6Ser240/244-P (clone D68F8), rabbit monoclonal Cell Signaling #5364 Ubiquitin (clone FK2), mouse monoclonal Calbiochem #ST1200 ULK1 (clone D8H5), rabbit monoclonal Cell Signaling #8054 Ulk1Ser757-P (clone D7O6U), rabbit monoclonal Cell Signaling #14202 α-actinin (clone EA-53), mouse monoclonal IgG1 Sigma-Aldrich #A7732 Secondary, Alexa FluorTM 488 goat anti-mouse IgG1 Invitrogen #A21121 Secondary, Alexa FluorTM 488 goat anti-chicken IgY(H+L) Invitrogen #A11039 Secondary, Alexa FluorTM 488 goat anti-mouse IgG(H+L) Invitrogen #A11001 Secondary, Alexa FluorTM 488 goat anti-rabbit IgG(H+L) Invitrogen #A11008 Secondary, Alexa FluorTM 555 goat anti-mouse IgG(H+L) Invitrogen #A21422 Secondary, Alexa FluorTM 568 goat anti-mouse IgG2a Invitrogen #A21134 Secondary, Alexa FluorTM 633 goat anti-rabbit IgG(H+L) Invitrogen #A21071 Secondary, AmershamTM ECLTM HRP sheep anti-mouse GE Healthcare #NA931 Secondary, AmershamTM ECLTM HRP donkey anti-rabbit GE Healthcare #NA934 Secondary, HRP rabbit anti-goat IgG(H+L) abcam #ab6741 .. MathWorks https://www.mathworks. com/ Microsoft® Excel® for Microsoft 365 MSO (version 2202 Build 16.0.14931.20764), 64-bit Microsoft https://www.microsoft.co m/en-us/microsoft365/excel/ NEBuilder® Assembly Tool NEB https://nebuilder.neb.com/ OligoArchitectTM Sigma-Aldrich http://www.oligoarchitect.com/ Primer-BLAST NIH https://www.ncbi.nlm.nih.gov/tools/primer-blast/ R (version 4.1.2) The R Foundation https://www.r-project.org/ RStudio (version 2021.09.1 Build 372) Rstudio, PBC https://posit.co/ Script (MATLAB), idTracker analysis Michael Green https://groups.google.co m/g/idtracker-users/ SnapGene (version 7.2.0) SnapGene https://www.snapgene.com/ ZEN 2.3 SP1 FP1 (black), 64-bit Carl Zeiss https://www.zeiss.co.uk/ Zebrafish Information Network (ZFIN) Zebrafish Information Network (ZFIN) https://zfin.org/ ZebraZoom (version 1.33.13) (21) https://github.com/oliviermirat/ZebraZoom/ ZEN 2.3 SP1 FP1 (black), 64-bit Carl Zeiss https://www.zeiss.co.uk/ Other Camera (app version 8.7.250.494820638.44) Google Pixel 6 CellStarTM 96-Well, Cell CultureTreated, Flat-Bottom Microplate, White, Sterile Greiner Bio-One #655083 AmershamTM HybondTM P PVDF Membrane, 0.45 μm GE Healthcare #GE10600023 CellStarTM 96-Well, Cell CultureTreated, Flat-Bottom Microplate, White, Sterile Greiner Bio-One #655083 ChemiDocTM Imaging System Bio-rad N/A Depression slide Sigma-Aldrich #BR475505 Gel DocTM XR+ Imaing System Bio-rad N/A LED Strips Ustellar N/A Leica MZ16F microscope with iDS camera Leica/ iDS N/A LSM 5 Exciter microscope Carl Zeiss N/A LSM 880 with Airyscan microscope Carl Zeiss N/A MicroAmpTM Optical 384-Well Reaction Plate with Barcode Applied Biosystems #4309849 MicroAmpTM Optical Adhesive Film Applied Biosystems #4311971 Mini-PROTEAN® TGXTM Precast Gels Bio-rad #456-1094 and #456-1096 Mithras LB 940 plate reader Berthold Technologies N/A Platinum (Pt) wire, ø0.4 mm Goodfellow #PT00-WR-000142 QuantStudioTM 7 Flex Real-Time PCR System Thermo Fisher Scientific N/A Soniprep 50 Sonicator MSE N/A Spectrophotometer DeNovix #DS-11 Supported Nitrocellulose Membrane, 0.45 μm Bio-rad #1620094 Timer Switch Status #TE-10 Transilluminator UVP #TM-20E ViiATM 7 Real-Time PCR System Thermo Fisher Scientific N/A Weighing Balance Ohaus #YA102
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