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41 protocols using sw982

1

Primary Cell Isolation and Culture

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The Santiago Hospital Ethics Committee (CAEIG-2016/258) approved the informed consent, the signature for which is mandatory for all participant donors. Articular issue samples from healthy and OA patients were, respectively, obtained from dead and total knee replacement surgery donors [77 (link)]. Primary joint cells (chondrocytes, osteoblasts, and synoviocytes), isolated from their respective articular tissues, murine chondrogenic ATDC5 (RIKEN Cell Bank, Tsukuba, Japan), human osteoblastogenic SaOs2, and human synovial-sarcoma SW982 (ATCC, Manassas, VA, USA), were initially cell-cultured in P100 plates with DMEN F12 cell medium supplemented with fetal bovine serum (FBS) at 5% (mouse cells) or 10% (human cells), 2% Glutamine, and 2% penicillin-streptomycin, plus 0.2% sodium selenite and 0.1% transferrin (mouse cells) [22 (link),23 (link),77 (link),78 (link)].
Only early cell passes (P) comprised of P0–P3 (primary cells) and P5–P35 (non-primary cells) were used to keep the cellular phenotype unaltered. Cells were seeded in cell plates (P12 or P100) and after 4 h, the medium was renewed with FBS deprived medium [22 (link),23 (link),77 (link),78 (link)]. All cell culture reagents were purchased from Sigma-Aldrich (Sant Louis, MO, USA) except otherwise mentioned.
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2

High-density SW982 cell culture model

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Cell line SW982 (ATCC:HTB-93) was purchased from ATCC and maintained in Dulbecco's modified Eagle medium (DMEM) supplemented with antibiotics and 10% fetal bovine serum (FBS). Conventionally, cells were seeded into tissue culture plates and incubated until attachment to plate base. To simulate pannus condition, cells were plated at a high density into each well of 96-well plate, the bottoms of which were not pretreated, and incubated for at least 4 days.
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3

Isolation and Infection of Primary Cells

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Primary synovial fibroblasts (synoviocytes) were isolated from synovial tissues obtained from patients undergoing total knee replacement surgery in accordance with the guidelines of the Ethical Committee of the INIGEM Institute, as previously described (Scian et al., 2013 (link)). Primary osteoblasts were isolated from newborn-mouse calvaria using the method described by Wong and Cohn (Wong and Cohn, 1975 (link)). The Swan71 cell line (kindly provided by Dr. Gil Mor, Yale University, New Haven, USA) was obtained by telomerase-mediated transformation of a 7-week cytotrophoblast isolate. Primary cells and the cell lines Caco-2 (ATCC HTB-37™), HT-29 (ATCC HTB-38), Swan71, SW982 (ATCC HTB-93™), and hFOB (ATCC CRL-11372™) were seeded in 24-well plates (5 × 104 cells per well) and inoculated with the different strains (multiplicity of infection [MOI], 100:1). Plates were centrifuged for 10 min at 170 RCF and then incubated in a 5% CO2 atmosphere at 37°C for 1 h. To determine the total number of bacteria associated to the cells, wells were washed three times with PBS and treated for 10 min at 37°C with 0.1% Triton X-100 (in PBS). Serial dilutions of the obtained lysates were done in PBS and plated on TSA with the appropriate antibiotics, and CFU were determined. All the results were expressed in reference to the wild-type strain, defined as 100%.
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4

Cell Culture Conditions for Sarcoma Lines

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CAL-72, ESS-I, HT-1080, SAOS-2 and Rh-30 were purchased by DSMZ. SW982 and RD-ES were purchased from ATCC. ESS-I (endometrial stromal sarcoma), SAOS-2 (osteogenic sarcoma), SW982 (synovial sarcoma) and RD-ES (Ewing’s sarcoma) were grown in RPMI 1640 (Gibco®, Thermo Fisher Scientific, Waltham, MA, USA), supplemented with 20% fetal bovine serum (FBS) (Lonza Group Ltd., Basel, Switzerland), penicillin (100 U/mL) and streptomycin (100 µg/mL) (Gibco®, Thermo Fisher Scientific). Rh-30 (rhabdomyosarcoma) was cultured in RPMI 1640, supplemented with 10% FBS, 100 U/mL penicillin and 100 µg/mL streptomycin. CAL-72 (osteosarcoma) and HT-1080 (fibrosarcoma) cell lines were cultured in DMEM-GlutaMAX™ (Gibco®, Thermo Fisher Scientific), respectively, supplemented with 20% FBS and 10% FBS, 100 U/mL penicillin and 100 µg/mL streptomycin. Cell lines were maintained at 37 °C, in a humidified atmosphere with 5% CO2.
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5

Culturing SW982 and THP-1 cell lines

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The immortalized human FLS cell line SW982 was obtained from the ATCC (Rockville, MD). The SW982 cell line was cultured in an α-Minimum Essential Medium (α-MEM) (Gibco) supplemented with 2 mM L-glutamine, 10% heat-inactivated fetal bovine serum (FBS) (Gibco), 100 U/ml penicillin, and 100 μg/ml streptomycin. The human monocytic cell line THP-1 was cultured in RPMI 1640 medium (Gibco) supplemented with 2 mM L-glutamine, 10% heat inactivated FBS, 100 U/ml penicillin, and 100 μg/ml. The cultures were maintained in a 5% CO2 atmosphere at 37°C.
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6

Culturing SW-982 Synovial Sarcoma Cells

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The human tumor cell line SW-982 (synovial sarcoma) was obtained from ATCC (Manassas, VA, USA) and cultured as according to ATCC specifications.
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7

Synovial Sarcoma Cell Line Arachidonic Acid Release Assay

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The human synovial sarcoma-derived cell line SW982 (ATCC, London, UK) was maintained as described previously [12 (link)]. All experiments were performed at 3 days post confluency in serum-free medium following overnight serum starvation to ensure synchronization of the cells. For arachidonic acid and oleic acid release, serum starvation included the addition of [3H]-arachidonic acid and [14C]- oleic acid (NEN Perkin Elmer); see [12 (link)] for details on the release assay. Cells were pre-treated for 2 h AVX001 and AVX002 before the addition of IL-1β (10 ng/mL). For PGE2 analysis, cell supernatants were aspired after 24 h of IL-1β stimulation, centrifuged to remove cell debris, aliquoted and stored at − 80 °C until analysis.
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8

Culture of Liposarcoma Cell Lines

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The human liposarcoma cell lines SW872 (an undifferentiated liposarcoma, ATCC catalog number: HTB-92) and SW982 (another undifferentiated liposarcoma as evaluated by histopathology, ATCC catalog number: HTB-93) were purchased from the ATCC (Rockville, MD). These cell lines were cultured in RPMI 1640 (Invitrogen, Carlsbad, CA) supplemented with 10% FBS, 100 units/ml penicillin and 100 μg/ml streptomycin (Invitrogen). Cells were incubated at 37°C in a 5% CO2-95% air atmosphere and passaged when near confluent monolayers were achieved using Trypsin-EDTA solution. Cells were free of Mycoplasma contamination, as tested by the MycoAlert Mycoplasma Detection Kit from Cambrex (Rockland, ME).
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9

Sequencing of Soft Tissue Sarcoma

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Four STS cell lines were used in this study, including SW-872, hSS-005R, SW-982 and HSF. SW-872, SW-982 and HSF were obtained from ATCC while hSS-005R was established by our laboratory. In the 37°C environment with 5% CO2, the cell lines were grown in Dulbecco’s modified Eagle medium (DMEM) supplemented with 10% fetal bovine serum (FBS).
We collected and further sequenced four pairs of STS samples as well as their corresponding normal tissues using Oxford Nanopore Technologies (Oxford, United Kingdom). The sequencing matrix is available under accession number GSE198568. We further verified corresponding expression for SRGs in this dataset.
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10

Sarcoma Cell Line Characterization

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Sarcoma cells, HT-1080 (National Infrastructure of Cell Line Resource 3111C0001CCC000070), and SW-982 (National Infrastructure of Cell Line Resource 3131C0001000700209) were purchased and authenticated originally by the National Infrastructure of Cell Line Resource program using short tandem repeat (STR) analysis; SK-UT-1 cell line was obtained from ATCC (Manassas, VA, USA). Cells were expanded and frozen at low passage within 1 month after receipt from the original stocks. Cells were then thawed and used within 15 passages. Cells were cultured in medium as suggested by the manufacturer supplemented with 10% fetal bovine serum, 100 units/ml penicillin, and 100 μg/ml streptomycin at 37°C in a humidified 5% CO2 incubator.
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