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6 protocols using p rps6 s240 244

1

Histopathological Analysis of Xenograft Tumors

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Tumors from the subcutaneous xenograft model were harvested at sacrifice, fixed in 10% neutral buffered formalin and paraffin-embedded for histologic studies. Tissue sections were stained with hematoxylin and eosin for morphological analysis as previously described [6 (link)]. For immunohistochemistry, 5-μm sections were stained with antibodies to ALK (Ventana), pRPS6S240/244, and cleaved caspase 3 (Cell Signaling Technologies: 2215 and 9664, respectively) using standard methods, including heat-induced epitope retrieval with citrate buffer pH 6 for pRPS6S240/244 and cleaved caspase 3 or EDTA buffer for ALK.
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2

Comprehensive Protein Expression Analysis

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Commercial antibodies were used to detect PPP6C (rabbit, A300-844A; Bethyl Laboratories, Inc.), α-tubulin (mouse, DM1A; Sigma-Aldrich), MVH (rabbit, ab13840; Abcam), γH2AX (rabbit, 9718; Cell Signaling Technology, Inc.), p-CHK1 (S345) (rabbit, BS4041; Bioworld Technology, Inc.), p-CHK2 (T68) (rabbit, BS4043; Bioworld Technology, Inc.), p-p53 (S15) (rabbit, 12571; Cell Signaling Technology, Inc.), CHK1 (rabbit, BS1052; Bioworld Technology, Inc.), p-AKT (S473) (rabbit, 4060; Cell Signaling Technology, Inc.), p-AMPK (T172) (rabbit, 2535; Cell Signaling Technology, Inc.), p-mTOR (S2448) (rabbit, 5536; Cell Signaling Technology, Inc.), p-S6K (T389) (rabbit, 9234; Cell Signaling Technology, Inc.), p-rpS6 (S240/244) (Rabbit, 5364; Cell Signaling Technology, Inc.), GAPDH (rabbit, 5174; Cell Signaling Technology, Inc.) and β-actin (mouse, sc-47778, Santa Cruz). Secondary antibodies were purchased from ZhongShan Golden Bridge Biotechnology Co., LTD (Beijing).
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3

Investigating Translational Regulation Mechanisms

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eFT508 was acquired from eFFECTOR Therapeutics. BBN and BCPN were purchased from TCI Chemicals. Antibodies used were against phospho-eIF4E S209 (Abcam, ab76256), eIF4E (Santa Cruz Biotechnology Inc., sc-271480), rpS6 (Cell Signaling Technology, 2217), p-rpS6 (S240/244) (Cell Signaling Technology, 5364), p-rpS6 (S235/236) (Cell Signaling Technology, 4858), 4EBP1 (Cell Signaling Technology, 9644), p-4EBP1 (T37/46) (Cell Signaling Technology, 2855), eIF2α (Cell Signaling Technology, 2103), p-eIF2α (S51) (Cell Signaling Technology, 3597), eEF2 (Cell Signaling Technology, 2332), p-eEF2 (T56) (Cell Signaling Technology, 2331), puromycin (EMD Millipore, MABE343), and tubulin (MilliporeSigma, T8203).
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4

Western Blot Analysis of AMPK Pathway

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Western blot analysis was performed as described in our previous studies [28 (link),29 (link)]. Primary antibodies used in the study were as follows: p-AMPK (Thr172) (1:500, cat. # Y408289, ABM, Richmond, BC, Canada), t-AMPK (1:1000, cat. # 2523, Cell Signaling Technology, Danvers, MA, USA), p-ACC (S79) (1:1000, cat. # 2535, Cell Signaling Technology, USA), t-ACC (1:1000, cat. # 3662, Cell Signaling Technology, USA), Caspase-3 (1:1000, cat. # 9661, Cell Signaling Technology, USA), p-rpS6 (S240/244) (1:2000, cat. # 5364 Cell Signaling Technology, Danvers, MA, USA), rpS6 (1:2000, cat. # 2217, Cell Signaling Technology, Danvers, MA, USA), Bax (1:2000, cat. # ab32503 Abcam, Cambridge, UK) and tubulin (1:3000, cat. # CSB-MA000185 Cusabio Biotech, Wuhan City, China). Horseradish peroxidase-conjugated antibodies to rabbit immunoglobulins (1:60000, cat. # 111-035-003, Jackson Immuno Research, Cambridge, UK) were used as secondary antibodies. Following image capture of phosphorylated proteins, membranes were stripped of the phospho-specific antibodies using RestoreTM Western Blot Stripping Buffer (cat. # 21059, Thermo Fisher Scientific, Waltham, MA, USA). The membranes were then re-probed with primary antibodies for each respective total protein. A total protein staining (Ponceau S) and/or tubulin protein expression were used for normalization of Western blots.
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5

Antibody Validation for Signaling Pathways

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The β-actin (1:1000, sc-130656) and BCKDK (E-12) (1:1000, sc-374425) antibodies were purchased from Santa Cruz Technology, Inc. (Santa Cruz, CA, USA). Flag antibody (1:1000, #F1804, #F7425) was purchased from Sigma-Aldrich (St. Louis, MO, USA). His Mouse monoclonal antibody (1:1000, 4E6) was obtained from Pregene, Inc (Beijing, China). All the following antibodies were purchased from Cell Signaling Technology (Danvers, MA, USA): p-BCKDHA (S293) (1:500, #40368), BCKDHA (1:500, #90198), MEK1/2 (1:1000, #8727), p-MEK1/2 (S221) (1:1000, #2338), p-ERK1/2 (T202/Y204) (1:2000, #4370), ERK1/2 (1:2000, #4695), p-RPS6 (S235/236) (1:1000, #2211), p-RPS6 (S240/244) (1:1000, #2215), RPS6(1:1000, #2217), E-cadherin (1:500, #3195), N-cadherin (1:500, #13116), and Vimentin (1:500, #5741). p-BCKDK (Y246) antibody was prepared by Abiocode, Inc (shanghai, China). Rabbit (1:3000, #E030120) and mouse (1:3000, #E030110) antibodies were obtained from EarthOx Life Sciences (San Francisco, CA, USA). We purchased BT2 (Cat No. ZC-26488) from ZZBIO. CO.LTD (Shang Hai, China). Dasatinib (Cat No. S1021) was purchased from Selleckchem, Inc (Houston, TX, USA).
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6

Comprehensive Antibody Characterization and Validation

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All antibodies were purchased from commercial sources as indicated below: R&D Systems (Minneapolis, MN, USA): AXL (for IB) and pAXL-Y779. Cell Signaling Technology (Danvers, MA, USA): pAXL-Y702, pEGFR-Y1068, pMAPK (T202/Y204), MAPK, p-cRAF (S289/296/301), cRAF, p-AKT (S473), AKT, p-rpS6 (S240/244), rpS6, p-c-Jun (S73), c-Jun and GAPDH. Santa Cruz Biotechnology Inc. (Dallas, TX, USA): pEGFR-Y1173, AXL (for IP), and HRP-conjugated goat-anti-rabbit IgG, goat-anti-mouse IgG, donkey-anti-goat IgG. Life Technologies (Carlsbad, CA, USA): AXL (For IF). Abcam (Cambridge, MA, USA): EGFR. Calbiochem (Billerica, MA, USA): α-Tubulin.
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