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The SF98-4 is a laboratory equipment product from Thermo Fisher Scientific. It is a 4-channel spectrophotometer designed for accurate absorption measurements in a variety of applications. The core function of the SF98-4 is to provide precise quantitative analysis of samples by measuring the absorption of light at specific wavelengths.

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12 protocols using sf98 4

1

Melanoma Cell Pellet Microarray Construction

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CLAs were constructed from 38 melanoma cell line and 3 NHM pellets that were fixed in 10% buffered formalin (SF98-4, Fisher) for 16-24h, washed twice in 70% ethanol, clotted in 2% low-melting agarose (BP165-25, Fisher), processed, and embedded in paraffin wax (23-021-400, Fisher). Cell pellet blocks were sectioned and H&E-stained to verify the quality of the cell clots and guide CLA construction. Three 1-mm diameter cores were removed from each cell pellet block and randomly embedded into recipient CLA blocks, which were cut into 5 micron-thick sections.
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2

Immunofluorescence Staining of Brain Sections

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Immunofluorescence staining was performed as previously described with modifications12 (link). Slides containing brain sections were first post-fixed in 10% neutral buffered formalin (Fisher Scientific, SF98-4) for 5–10 min, then washed three times with PBS. Antigen retrieval was performed using the Antigen Unmasking Solution (Vector Laboratories, H-3300) at 95 °C for 20–60 min in a water bath with gentle shaking (60 rpm). Slides were cooled to room temperature and permeabilized with 0.3% Triton X-100 in PBS, then blocked with 5% normal donkey serum in 0.3% Triton X-100 in PBS. Slides were incubated at 4 °C overnight with the primary antibodies in blocking buffer. The slides were washed three times with 0.3% Triton X-100 in PBS, then incubated with secondary antibodies in blocking buffer at room temperature for two hours. The slides were then washed twice with 0.3% Triton X-100 in PBS, and then once with PBS. Autofluorescence quenching was carried out to reduce background autofluorescence using the Vector TrueVIEW Autofluorescence Quenching Kit (Vector Laboratories, SP-8400) and all slides within one experiment were treated similarly. Slides were counterstained with DAPI and then mounted using VECTASHIELD Vibrance mounting media (Vector Laboratories, H-1700).
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3

Tissue Microarray Construction for Ewing Sarcoma

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Pellets from the Ewing sarcoma cell lines were fixed in 10% buffered formalin (SF98-4, Fisher Scientific) for 16-24 hours, washed twice in 70% ethanol, clotted in 2% low-melting agarose (Fisher), and then embedded in paraffin wax. Blocks were sectioned and stained with hematoxylin and eosin (H&E, Hematoxylin 7211, Eosin 7111, Richard-Allan). Three 1 mm cores were removed and embedded into recipient CLA block. For TMA construction, Ewing sarcoma cases (n = 25) and controls (breast carcinoma, and PTEN-deleted sarcoma) were selected from The University of North Carolina Surgical Pathology and St. Jude Children’s Research Hospital archives under an IRB-approved protocol. Hematoxylin and eosin (H&E) stained slides were re-reviewed and representative areas of tumor were marked for coring. TMA blocks, containing triplicate 0.6 mm cores per case were constructed. TMA and CLA blocks were cut into 4 and 5 micron sections respectively and placed on positively charged glass slides.
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4

Histopathological Analysis of Liver Cancer

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Analysis of histopathological changes in liver cancer was performed according to the standard HE staining procedure. Liver samples were obtained and fixed in 10% formalin (SF98-4; Fisher) overnight at room temperature. Then, the tissues were dehydrated, embedded in paraffin, and cut into 5 mm-thick sections. According to the manufacturers’ procedures, sections were stained with haematoxylin-eosin. Additionally, IHC analysis for IL-6 and Ki-67 was also performed in liver samples. Sections were incubated with goat anti-mouse IL‑6 polyclonal antibody (R&D) at 5 µg/mL for 1 h at room temperature and antibodies specific to Ki-67 (Abcam) at 10 µg/mL overnight at 4 °C. The numbers or areas of IL-6+ and Ki-67+ cells were quantified by morphometry or manual counting.
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5

Histological Analysis of Lung Tissue

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The left lung lobe was inflated with 10% formalin (Fisher SF98-4), fixed overnight, and kept in 70% ethanol until processing. Paraffin-embedded tissue was sectioned (5 µm) and stained using hematoxylin and eosin (H&E) or IHC antibodies and scored in a blinded fashion by an experimental pathologist. IHC was performed using primary antibodies against Ly6G (1:250, BD Biosciences 551459) and S. pneumoniae (1:1000; Novus Biologicals NB100-64502), and detected using ImmPress polymer reagents (Vector Laboratories). Antigen expression was visualized with 3,3’Diaminobenzidine and alkaline phosphatase according to manufacturer’s protocol (Vector Laboratories). Sections were counterstained with Hematoxylin QS and slides were coverslipped using VectaMount medium (Vector Laboratories).
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6

Analysis of Cardiac Graft Morphology

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Cardiac grafts were harvested 5 and 7 days after transplantation. Samples were transversely sliced and fixed in 10% formalin (catalog no. SF98-4; Fisher) at 4°C until use. The fixed tissues were dehydrated and processed for paraffin embedding, and 5-μm sections were stained with H&E.
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7

Immunohistochemical Analysis of PDAC Metastases

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Both lungs, all lobes of the liver and PDAC metastases therein were collected during necropsy and fixed in formalin (Fisher, #SF-98-4) overnight before embedding in paraffin. Slides were cut on a microtome (5–7 μm) and deparaffinised before immunohistochemistry (IHC). Antigen retrieval was performed using citrate buffer, pH 6.0 (Thermo, #AP-9003-500) in a steamer for 40 min before cooling and washing with PBS. Peroxidase blocking was achieved using 3% hydrogen peroxide, 5% normal horse serum (Invitrogen, #26050070) and 1% normal goat serum (Invitrogen, #16210064) for protein blocking, and primary antibodies were diluted 1:100 in protein block solution. Secondary antibodies were diluted 1:500 in protein block, and colorimetric reaction was accomplished using diaminobenzidine (DAB, Vector Laboratories #SK-4105). Counterstaining was accomplished using Gill’s haematoxylin #3 (Fisher, #NC9964763), and slides were dried and coverslipped using Permount (Fisher, #SP-15-100).
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8

Quantifying Cell Adhesion Dynamics

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A total of 5 × 104 cells per dish were seeded onto 60 mm dishes coated with fibronectin, type I collagen, laminin, or vitronectin. The cells were allowed to adhere for specific predetermined time points, followed by gentle washing with flowing PBS at 37°C for 20 seconds. Subsequently, the plates were fixed using 10% formalin (Fisher Scientific SF98–4) and stained with crystal violet. Images of three random fields were captured. The number of cell adhesion events and projections per cell were determined and quantified using ImageJ software (v1.53t).
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9

Histological Assessment of Intestinal Morphology in Calf-FMT Mice

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The calf-FMT C57BL/6 mouse intestines were processed by using the Swiss roll technique as described by [27 (link)]. Right after euthanasia, the intestines were dissected and placed in ice-cold PBS (Gibco, # 10010031). The cecum was dissected and discarded, and the small intestine was flushed by ice-cold PBS, following cold modified Bouin fixative (5% acetic acid, 50% ethanol in deionized water) [23 (link),27 (link)]. The intestinal rolls were then formed as described by Grigaleviciute et al., and tissues were placed in tissue processing cassettes, fixed overnight in 10% neutral formaldehyde (Fisher Scientific, # SF98-4, Waltham, MA, USA), processed and embedded by an automatic tissue processor. Tissue sections were then stained with Hematoxylin-Eosin (HE) stain to characterize tissue architecture and Alcian blue (AB) staining to visualize mucins [23 (link)]. Tissue sections were then evaluated, and the inflammation as well as tissue architecture was scored by a pathologist using the method described by Erben et al. [28 (link)].
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10

Histological Analysis of Transplanted Tissues

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After 7 days of transplantation, cardiac grafts and liver samples were collected. The collected samples were cross-sectioned and subjected to fixation in 10% formalin (SF98-4; Fisher) at 4°C until further use. Next, the fixed tissues were dehydrated, embedded in paraffin, and sliced into 5-µm sections. Finally, H&E staining was carried out.
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