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7 protocols using ki67 d3b5

1

Immunohistochemical Protein Marker Panel

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We used KRT5 (PRB-160P, Covance Biologicals), KRT17 (AB183330, Abcam), Pro-SPC (AB3796, Chemicon), p16 (E6H4, Roche Tissue Diagnostics, 705-4793), Ki67 (D3B5, Cell Signaling Technology), and LY6D (PA5-64167, Thermo Fisher Scientific).
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2

Tumor and Neurotoxicity Assessment in Mouse Brains

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Mouse brains were harvested after formalin perfusion and cryopreserved using Optimal Cutting Temperature compound (Fisher Healthcare). Sections were cut 5-μm thick using Thermo Scientific Cryotome FSE cryostats. Tumors were confirmed using hematoxylin & eosin (H&E) staining, Ki67 (D3B5) (Cell Signaling Technology, #12202), H3.3K27M (D3B5T) (Cell Signaling Technology, #74829), and luciferase (Abcam, #ab185924) staining. Neurotoxicity was assessed via H&E and immunohistochemistry for glial fibrillary acidic protein (GFAP) (Agilent, #Z033429-2), Ionized calcium binding adaptor molecule 1 (Iba1) (Abcam, #ab5076), and cluster of differentiation 3 (CD3) (Abcam, # ab16669). Staining and immunohistochemistry were performed by the Weill Cornell Pathology Core. Slides were reviewed by D.J.P., a board-certified neuropathologist, for neurohistopathological changes observed in the treatment group against vehicle-treated animals.
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3

Immunohistochemical Analysis of Subcutaneous Tumors

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Formalin-fixed (HT501128, Sigma-Aldrich) paraffin-embedded sections of subcutaneous tumors were dewaxed and hydrated through a graded decrease alcohol series. For immunohistochemistry (IHC), slides were immunostained with the Automatic Leica BOND RX system (Leica Microsystems GmbH, Wetzlar, Germany). Antigen-retrieval was performed using sodium citrate buffer at 100 °C. Primary antibodies anti-Ki-67 (dilution 1/200; Ki-67 (D3B5) #12202, Cell Signaling Technology, Inc.) and anti-cleaved caspase-3 (1/400; Cleaved Caspase-3 (Asp175), #9661, Cell Signaling Technology, Inc.) were developed with Bond Polymer Refine Detection (Leica, DS9800). Bright-field images were acquired with an Aperio AT2 digital scanner (Leica Biosystems) and Aperio ImageScope software (v12.4.3.5008, Leica Biosystem).
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4

Immunohistochemical and Trichrome Analysis of Mouse Tissue

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Mouse tissue was paraffin-embedded and sectioned into 5-micron sections. Samples were deparaffinized and rehydrated in a graded alcohol series. For antibody staining, 1:200 Ki67 (D3B5, Cell Signaling) and 1:200 Goat-anti rabbit secondary antibody (BA-1000, Vector Laboratories, Newark, CA) were used. Images were acquired using an Olympus IX71 inverted microscope and cellSens software. For connective tissue staining, Trichrome Collagen Stain Kit (ab150686, Abcam, Cambridge, United Kingdom) was utilized. Images were taken using Aperio Imagescope and analyzed with the trichrome extension.
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5

Immunohistochemical Analysis of SFXN1 in HCC

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Tissues were fixed overnight in Mildform 20N (Wako, Osaka, Japan), embedded in paraffin, and sectioned at 4 μm thickness. Sections were immersed in sodium citrate (pH 6.0) buffer for antigen retrieval, and subsequently incubated at 4 °C overnight with primary antibodies as follows; SFXN1 (12296-1-AP, 1:400; ProteinTech, Rosemont, IL), Ki-67 (D3B5, 1:400; Cell Signaling Technology, Danvers, MA) and cleaved caspase-3 (5A1E, 1:2000; Cell Signaling Technology). They were probed with anti-rabbit IgG antibody labelled with Histofine Simple Stain MAX-PO (Nichirei Bioscience, Tokyo, Japan) and visualized with diaminobenzidine (Wako). The TUNEL assay was conducted using DeadEnd Colorimetric TUNEL System (Promega, Madison, WI) according to the manufacture’s protocol. Nuclei were stained with hematoxylin. The intensity score of SFXN1 staining was determined in HCC tissues and adjacent liver tissues of each sample, ranging from 0 to 4. Tumor samples with a score of 0 or 1 and with a score of 2, 3 or 4 were categorized into the low and high expression groups, respectively.
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6

Immunohistochemical Analysis of Tissue Samples

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Tissues were fixed overnight in 4% paraformaldehyde, embedded in paraffin, and sectioned (4 μm thick). Sections were immersed in sodium citrate (pH 6.0) buffer for antigen retrieval, and subsequently incubated with primary antibodies against CD8 (D4W2Z, 1:500; Cell Signaling Technology), glutamine synthetase (ab64613, 1:100; Abcam) and Ki-67 (D3B5, 1:200; Cell Signaling Technology) at 4 °C overnight. They were probed with anti-mouse or anti-rabbit IgG antibody labelled with peroxidase Histofine Simple Stain MAX-PO (Nichirei Bioscience, Tokyo, Japan), and visualized with diaminobenzidine. Nuclei were stained with hematoxylin.
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7

Ki67 Immunostaining in Tumor Samples

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Indirect immunoperoxidase immunostaining was performed on 4% PFA-fixed paraffinembedded tumor samples by an automated immunostaining platform (Leica Microsistems Bond RXm). Sections were incubated with the primary antibody Ki67 (D3B5) (#9129, Cell Signaling) and then with the corresponding secondary antibody. Slides were counterstained with hematoxylin, dehydrated, and coverslipped.
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