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5 protocols using anti usp15

1

Western Blot Analysis of Cellular Signaling Proteins

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Primary antibody dilutions were prepared at 1:1000 to 1:500 in 5% BSA or dry milk in TBS with 0.05% v/v Tween. Protein samples prepared directly from lysate were prepped in 5X SDS sample buffer. Westerns were run in BioRad equipment in SDS buffer, using BioRad gradient gels, at 175 V for 42 min. Precision plus dual color protein marker (BioRad) was used in parallel to samples. Proteins were wet-transferred onto nitrocellulose membranes (0.2 µM, BioRad) at 100 V for 1 h. Membranes were blocked in 5% BSA or milk for 1 h RT depending on antibodies to be used. Membranes were incubated with primary antibodies overnight at 4° and washed for a total of 30 min in TBST before adding secondary diluted to 1:10,000 through 1:5,000 in 5% milk. Antibodies used in immunoblots are as follow: Anti-USP15 (Proteintech 14354-1-AP) used at 1:500-1:1000, Anti-Vinculin E1E9V XP (Cell Signaling Technologies #13901) used at 1:1000, Anti-KEAP1 P586 (Cell Signaling Technologies #4678) used at 1:500, Anti-NRF2 (Cell Signaling Technologies #12721) used at 1:500, anti-GAPDH D16H11 XP (Cell Signaling Technologies #5174) used at 1:1000, anti-pan-Actin (Cell Signaling Technologies #4968) used at 1:1000.
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2

Investigating Ubiquitination and Deubiquitination of MDM2 and NFATc2

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Total cell lysates or subcellular extracts were prepared and subjected to IB assays as described41 (link). The Santa Cruz anti-USP15 (2D5) and the Proteintech anti-USP15 antibodies were used for detecting human and mouse USP15, respectively. The Millipore anti-MDM2 and the Sigma anti-MDM2 antibodies were used for detecting human and mouse MDM2, respectively. For ubiquitination assays, MDM2 and NF-ATc2 were isolated by IP under denaturing conditions39 (link), and the ubiquitinated MDM2 and NFATc2 were detected by IB using a ubiquitin antibody specifically detecting K48-linked ubiquitin chains (Millipore). For transfection models, MDM2 or NFATc2 was transfected into HEK293 cells along with HA-ubiquitin, and the ubiquitinated MDM2 and NFATc2 were isolated by denaturing IP and detected by anti-HA IB. For deubiquitination assays, the isolated MDM2–ubiquitin conjugates were incubated with purified USP15 or its catalytic mutant in a deubiquitination buffer42 (link) for 4 h and then subjected to IB using anti-ubiquitin.
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3

Investigating Ubiquitination and Deubiquitination of MDM2 and NFATc2

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Total cell lysates or subcellular extracts were prepared and subjected to IB assays as described41 (link). The Santa Cruz anti-USP15 (2D5) and the Proteintech anti-USP15 antibodies were used for detecting human and mouse USP15, respectively. The Millipore anti-MDM2 and the Sigma anti-MDM2 antibodies were used for detecting human and mouse MDM2, respectively. For ubiquitination assays, MDM2 and NF-ATc2 were isolated by IP under denaturing conditions39 (link), and the ubiquitinated MDM2 and NFATc2 were detected by IB using a ubiquitin antibody specifically detecting K48-linked ubiquitin chains (Millipore). For transfection models, MDM2 or NFATc2 was transfected into HEK293 cells along with HA-ubiquitin, and the ubiquitinated MDM2 and NFATc2 were isolated by denaturing IP and detected by anti-HA IB. For deubiquitination assays, the isolated MDM2–ubiquitin conjugates were incubated with purified USP15 or its catalytic mutant in a deubiquitination buffer42 (link) for 4 h and then subjected to IB using anti-ubiquitin.
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4

Antibody Usage for Immunoblotting, IP, IHC, and IF

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Antibodies used for immunoblot (IB), immunoprecipitation (IP), immunohistochemistry (IHC) and immunofluorescence (IF) were as follows. Anti-TBX3 antibodies for IB Anti-TBX3 (#ab99302, Abcam, 1:500). Anti-Flag (#3165, 1:1000), Anti-α-Tubulin (T5168, 1:15000) was purchased from Sigma. Anti-HA (#3724, 1:1500), Anti-Ubiquitin (#3936, 1:500), Anti-GST (#2622, 1:1000), was purchased from Cell Signaling Technology. Anti-USP15 (#A300-923A, BETHYL, 1:1000), Anti-USP15 (#67557-1-Ig, Proteintech 1:200), Anti-Ki-67 (#ab15580, Abcam, 1:100), Anti-Tpo (#ab278525, Abcam, 1:200), Anti-Tg (#ab156008, Abcam, 1:200), Anti-Nis (#MA5-12308, Thermo, 1:400), Anti-Gr-1 (#108401, BioLegend, 1:200), Anti-PAX8 (#ab53490, Abcam, 1:10), Anti-TTF1 (#ab76013, Abcam, 1:200) were employed according to the instructions. Reagents used in this study included MG132 (#S2619, Selleck), Puromycin (#P8230, Solario), CHX (#HY-12320, MCE), Blasticidin (#B9300, Solario), PLX4032 (#S1267, Selleck), SCH772984 (#S7101, Selleck), SR11302 (#E2813, Selleck).
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5

Immunohistochemical Analysis of USP15 Expression

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Two-step immunohistochemistry was used in our study. Firstly, tissue sections were treated to retrieval antigen using EDTA buffer; and then tissues were incubated with primary antibody anti- USP15 (1:800, Proteintech) at 4°C overnight. Next sections were incubated with secondary antibody (HRP-labeled anti-mouse antibody, DAKO), then visualized using diaminobenzidine (DAB) and hematoxylin re-dying after washed with PBS. The immunohistochemical results were valuated by pathologists, and scored as follows: negative for 0, “+” for 1, “++” for 2 and “+++” for 3. The positive staining rate was defined according to the proportion of positive stained cancer cells: “Negative” is 0, “1%-20%” for 1, “21%-40%” for 2, “41-60%” for 3, “61-80%” for 4, “81-100%” for 5. Take the product of “dyeing intensity” score and “dyeing positive rate” score as the total score.
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