The largest database of trusted experimental protocols

24 protocols using anti p tbk1

1

Antibody Panel for Protein Detection

Check if the same lab product or an alternative is used in the 5 most similar protocols
The following antibodies were used in this study: anti‐HA‐tag (11867423001; Roche), anti‐FlagM2‐tag (F3165; Sigma‐Aldrich), anti‐GFP‐tag (Living Colors 632592; Clontech), anti‐Strep‐tag (34850; Qiagen), anti‐His‐tag (11922416001; Roche), anti‐vinculin (V4505; Sigma), anti‐tubulin (T9026; Sigma), anti‐TBK1 (#3013; Cell Signaling Technology), anti‐pTBK1 (pS172; #5483; Cell Signaling Technology), anti‐GAPDH (#2118; Cell Signaling Technology), anti‐PLEKHM1 (HPA025018; Sigma), anti‐p62 (162‐3; MBL), and anti‐OPTN (ab23666; Abcam). Secondary HRP‐conjugated antibodies goat anti‐mouse (sc‐2031; Santa Cruz), goat anti‐rabbit (sc‐2030; Santa Cruz), and goat anti‐rat (sc‐2006; Santa Cruz) IgGs were used for immunoblotting.
+ Open protocol
+ Expand
2

Western Blot Analysis of Mitochondrial Proteins

Check if the same lab product or an alternative is used in the 5 most similar protocols
NuPAGE™ 4-12% Bis-Tris Protein Gels and NuPAGE® MOPS SDS running buffer was applied for SDS-PAGEs and immunoblot analyses. The following antibodies were used for western blot analyses: Anti-RpL3 (Santa Cruz, sc-86828), anti-RpL7a (Cell Signaling, 2415S), anti-RpS19 (Santa Cruz, sc-100836), anti-RpS6 (Cell Signaling, 2317S), anti-C-IV s.1 (Abcam, ab14705), anti-C-I 30 (Abcam, ab14711), anti-C-I 75 (GeneTex, GTX105270), anti-CORE2 (Abcam, ab14745), anti-TOM20 (Santa Cruz, sc-17764, sc-11415), anti-TOM40 (Santa Cruz, sc-11414), anti-PINK1 (Abcam, ab23707), anti-GST (Sigma, G7781; for mRNP immunoblot), anti-GST (GenScript, A00865; for PLA), anti-myc (Cell Signaling, 2272S), anti-HA (Sigma, 11867423001), anti-GFP (Abcam, ab13970), anti-puromycin (Millipore, MABE343), anti-ABCE1 (a gift from Dr. R Hegde), anti-Pelo (Abcam, ab140615), anti-NOT4 (Abcam, ab72049), anti-dNOT4 (a gift from Dr. E Wahle), anti-dPelo (a gift from Dr. J Han), anti-Ub (Santa Cruz, sc-8017), anti-p-S65-Ub (Millipore, ABS1513-I), anti-K48-Ub (Abcam, ab140601), anti-K63-Ub (Millipore, 05-1308), anti-OPTN (Abcam, ab23666), anti-NDP52 (Abcam, ab68588), anti-P62 (PROGEN, GP62-C), anti-dP62/Ref2P (Abcam, ab-178440), anti-p-TBK1 (Cell Signaling, 5843S), anti-TBK1 (Cell Signaling, 3013S), anti-LC3B (Cell signaling, 2775S).
+ Open protocol
+ Expand
3

Immunofluorescence Analysis of Cellular Signaling

Check if the same lab product or an alternative is used in the 5 most similar protocols
After each treatment, the cells were washed with PBS, fixed in 4% paraformaldehyde for 30 min at room temperature, blocked with 5% (w/v) bovine serum albumin (BSA, Sigma Aldrich, USA) in PBST, and immunostained with anti-Nrf2 (1:100 dilution; Abcam, USA), anti-SIKE (1:100 dilution; Thermo Fisher Scientific, USA), anti-NF-κB (1:100 dilution; Abcam) and anti-p-TBK1 (1:100 dilution; Cell Signaling Technology, USA) antibody overnight at 4 °C, followed by incubation with a goat anti-mouse Alexa Fluor-488-conjugated secondary antibody and/or goat anti-rabbit Alexa Fluor-594-conjugated secondary antibody (Abcam). After washing with PBS, the cells were stained with DAPI (Beyotime, Shanghai, China) and observed under a fluorescence microscope. Immunofluorescence staining for liver sections was performed using anti-Nrf2 (1:100 dilution; Abcam) and anti-SIKE (1:100 dilution; Thermo Fisher Scientific) as described for cells with little modification. Immunofluorescence images were obtained using a fluorescence microscope. Images were analyzed with Image J software.
+ Open protocol
+ Expand
4

Immunoblot Analysis of Cell Lysates

Check if the same lab product or an alternative is used in the 5 most similar protocols
For immunoblot analysis of lysates under non-reducing conditions, whole-cell extracts were prepared in native lysis buffer as motioned above. Supernatant proteins from cell lysates were quantified and supplemented with native sample buffer (Bio-Rad). Proteins were separated by SDS-PAGE using a MiniProtean-TGX gel (4–15% polyacrylamide; Bio-Rad) and blotted on nitrocellulose membrane (Whatman) followed by incubation with indicated antibodies.
For immunoblot analysis of lysates under reducing conditions, whole-cell extracts were prepared in RIPA lysis buffer (Pierce) supplemented with protease and phosphatase inhibitors. Supernatant proteins from cell lysates were supplemented with LDS Sample Buffer (ThermoFisher) and heated under 95 °C for 5 min and then used for SDS-PAGE assay.
Anti-human PGAM5 antibody was obtained from Sigma, anti-mouse PGAM5 antibody was obtained from Santa Cruz Biotechnology, anti-pIRF3, anti-TBK1, anti-pTBK1 and anti-MAVS were obtained from Cell Signaling Technology, anti-mouse IRF3 and anti-β-actin antibodies were obtained from Abcam.
+ Open protocol
+ Expand
5

RNA N6-methyladenosine Regulation Analysis

Check if the same lab product or an alternative is used in the 5 most similar protocols
Antibodies used in this study were summarized at the dilutions listed: anti‐METTL14, 1:1000, (IB; Cell Signaling Technology, #: 51104S), anti‐N6‐methyladenosine modifications of RNA and DNA (m6A), 1:2000, (dot blot; Synaptic Systems, #: 202 003); anti‐IRF3, 1:1000, (IB; Cell Signaling Technology, #: 4302S); anti‐pIRF3, 1:1000, (IB; Cell Signaling Technology, #: 4947S) anti‐TBK1, 1:1000, (IB; Cell Signaling Technology, #: 3504S); anti‐pTBK1, 1:1000, (IB; Cell Signaling Technology, #: 5483S); anti‐RIG‐I, 1:1000, (IB; Cell Signaling Technology, #: D14G6); anti‐MDA5, 1:1000, (IB; Cell Signaling Technology, #: D74E4); anti‐FTO, 1:1000 (IB; Cell Signaling Technology, #: D6Z8W); anti‐METTL3, 1:1000 (IB; Cell Signaling Technology, #: E3F2A); anti‐ALKBH5, 1:1000 (IB; Abcam, #: ab195377); anti‐MAVS, 1:500, (IB; Santa Cruz Biotechnology, #: sc‐365333); anti‐FLAG (M2), 1:1000, (IB; Sigma‐Aldrich, #: F1804); anti‐β‐actin, 1:2000, (IB; ZSGB‐BIO, #:TA‐09). CHX (HY‐12320), actinomycin‐D, (HY‐17559), were obtained from MedChemExpress (MCE, NJ, USA); PMA (P1585) and Dynabeads mRNA Purification Kit (#: 61006) were purchased from Invitrogen; Click‐iT nascent RNA capture kit (#: C10365) was purchased from Life Technologies; EpiMark N6‐Methyladenosine Enrichment Kit (E1610S) was purchased from New England Biolabs.
+ Open protocol
+ Expand
6

Immunoblotting Assay for STING Signaling Pathway

Check if the same lab product or an alternative is used in the 5 most similar protocols
Cell lysates were prepared in Cell Extraction Buffer (Invitrogen) supplemented with protease inhibitor cocktail (Sigma-Aldrich, St Louis, MO, USA), 1 mM PMSF, and 200 µM sodium orthovanadate. Approximately 10~15 ug of whole-cell lysate was resolved by SDS PAGE using Bolt 10% Bis-Tris Plus gels (Thermo Fisher Scientific, Waltham, MA, USA) and transferred to Immobilon-FL PVDF membranes (EMD Millipore) for immunodetection of proteins. After 90 min blocking at RT in LI-COR blocking buffer, the blots were incubated overnight at 4 °C with primary antibodies and 90 min at RT with mouse or rabbit IRDye® secondary antibodies (LI-COR Biosciences, Lincoln, NE, USA). Blots were then imaged on an Odyssey FC (LI-COR). Immunoblot images were analyzed by Image Studio (Lite Ver 5.2). The primary antibodies used for immunoblotting include anti-TBK1 (3504, Cell Signaling Technology, 1:1000), anti-p-TBK1 (5483, Cell Signaling Technology, 1:1000), anti-IRF3 (Sc-33641 Santa Cruz, 1:500), anti-p-IRF3 (29047, Cell Signaling Technology, 1:1000), anti-STING (13647, Cell Signaling Technology, 1:500), anti-p-STING (50907, Cell Signaling Technology, 1:1000), and anti-GAPDH (97166, Cell Signaling Technology, 1:1000).
+ Open protocol
+ Expand
7

Protein Expression Analysis of Immune Signaling

Check if the same lab product or an alternative is used in the 5 most similar protocols
Cells were homogenized in radio-immunoprecipitation assay buffer supplemented with Pierce™ EDTA-free Protease Inhibitor Tablets and Pierce™ Phosphatase Inhibitor Mini Tablets (all Thermo Fisher Scientific) for 30 min at 4 °C, and then centrifuged at 10,000 g for 15 min at 4 °C. The protein concentrations were determined by a bicinchoninic acid Protein Concentration Determination Kit (Thermo Fisher Scientific). The proteins were separated by sodium dodecyl sulfate polyacrylamide gel electrophoresis. Protein expression was determined using anti-p-STAT1, anti-STAT1, anti-TBK1, anti-IRF3, anti-p-TBK1, anti-p-IRF3, anti-GAPDH (all Cell Signaling Technology), anti-IFN-β, or anti-GBP2 (all Abcam, Cambridge, UK) antibodies at 4 °C overnight. Finally, membranes were incubated with appropriate secondary antibodies (Abcam) and scanned by a Bio-Rad ChemiDoc MP imager (Bio-Rad). The antibodies used were listed in Additional file 1: Table S1.
+ Open protocol
+ Expand
8

Cell Line Maintenance and Antibody Validation

Check if the same lab product or an alternative is used in the 5 most similar protocols
Human embryonic kidney cell HEK293T, hepatic carcinoma cell HepG2, human lung carcinoma cell A549, and human colorectal adenocarcinoma Caco-2 were maintained in Dulbecco’s modified Eagle’s medium (DMEM) (HyClone, Logan, UT) containing 10% inactivated fetal bovine serum (BBI, Shanghai, China), penicillin (100 IU/ml), and streptomycin (100 mg/ml) at 37 °C in a 5% CO2 atmosphere. Sg25 cell is derived from HepG2 cell, in which TRIM25 has been knocked out through the CRISPR/Cas9 system.45 (link)Antibodies against STAT1, p-STAT1, and STAT2 were purchased from Abcam (Cambridge, MA, USA); anti-IRF3, anti-TBK1, anti-HA, anti-GST, anti-Flag, anti-GAPDH, CoraLite 594-conjugated IgG, and CoraLite 488-conjugated IgG secondary antibodies were obtained from Proteintech (Rosemont, IL, USA); anti-TRIM25, anti-IKKε, anti-pIKKε, anti-pTBK1, and anti-pIRF3 antibodies were from Cell Signaling technology (Danvers, MA, USA); anti-pSTAT2 antibody was from Sigma-Aldrich (St. Louis, MO, USA); anti-Lamin A/C antibody was from TransGen (Beijing, China); anti-SeV antibody was from MBL (Beijing, China); Human anti-SARS-CoV & CoV-2 NP antibody was from ZENBIO (Chengdu, China).
+ Open protocol
+ Expand
9

Western Blot Analysis of Cellular Signaling Proteins

Check if the same lab product or an alternative is used in the 5 most similar protocols
Cellular proteins were extracted with RIPA lysis buffer containing protease inhibitors and phosphatase inhibitors. Protein concentrations were measured by using a BCA protein assay kit (Thermo Fisher Scientific, USA). Protein samples were separated using 12.5% SDS-PAGE and transferred onto a polyvinylidenefluoride membrane (Millipore). Subsequently, membranes were blocked with 5% bovine serum albumin in PBS for 1 h and the appropriate antibodies at suitable concentrations were incubated overnight at 4 °C. The blots were then incubated with secondary antibodies at room temperature for 1 h. After extensive washing in TBST, protein bands were revealed with Super Singal West FemtoMaximum Sensitivity Substrate (Thermo Fisher Scientific, Rockford, USA) and visualized with Bio-Rad ChemiDocXRS system (Bio-Rad, USA). The primary antibodies were as follows: anti-GAPDH (Proteintech, 60004-1-lg), anti-p-ATM (Cell Signaling Technology, #5883), anti-p16 (Cell Signaling Technology, #80772), anti-p21 (Cell Signaling Technology, #2947), anti-cyclin E (Cell Signaling Technology, #4129), anti-cGAS (Cell Signaling Technology, #79978), anti-p-p53 (Cell Signaling Technology, #82530), anti-p-IRF3 (Cell Signaling Technology, #29047), anti-IRF3 (Cell Signaling Technology, #4302), anti-p-TBK1 (Cell Signaling Technology, #5483), and anti-TBK1 (Cell Signaling Technology, #3504).
+ Open protocol
+ Expand
10

Immunoblotting and Immunofluorescence Techniques

Check if the same lab product or an alternative is used in the 5 most similar protocols
For immunoblotting and immunofluorescence, the following antibodies were used in this study: anti-FLAG (mouse; Sigma-AldrichF1804; Sigma-Aldrich), anti-α-tubulin (mouse; B512; Sigma-Aldrich), anti-TBK1 (rabbit; EP611Y; Abcam), anti-p-TBK1 (Ser172; rabbit; D52C2; Cell Signaling Technology), anti-LAMP1 (mouse; sc-19992; Santa Cruz Biotechnology), anti-p62 (rabbit; PM045; MBL), anti-ubiquitin antibody, Lys48-specific (rabbit; 05-1307; Millipore), anti-ubiquitin antibody, Lys63-specific (rabbit; 05-1308; Millipore), and anti-polyubiquitin antibody FK2 (mouse; 0918-2; Nippon Bio-Test Laboratories). The secondary antibodies used for immunoblotting were horseradish peroxidase (HRP)-conjugated goat anti-rabbit IgG (111-035-003; Jackson ImmunoResearch) and HRP-conjugated goat anti-mouse IgG (115-035-003; Jackson ImmunoResearch). The secondary antibodies used for immunofluorescence were goat anti-rabbit Alexa Fluor 488 preabsorbed (ab1500085; Abcam) and goat anti-mouse IgG (H+L) cross-adsorbed Alexa Fluor 568 (A11004; Invitrogen). LLOMe was purchased from Sigma-Aldrich. Depending on the experiment, cells were treated for 1 h with 10 µM BAPTA-AM (Dojindo) or for 20 h with 250 nM bafilomycin A1 (Cayman Chemical).
+ Open protocol
+ Expand

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Sign up for free.
Registration takes 20 seconds.
Available from any computer
No download required

Sign up now

Revolutionizing how scientists
search and build protocols!