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22 protocols using de17 602e

1

Gene Silencing and miRNA Modulation in Cancer Cell Lines

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PC-3M-luc2 cells and Du145 cells were cultured in EMEM (Lonza, 12–125) supplemented with 10% FCS, 1% L-glutamine (Lonza, BE17-605E) and 1 % penicillin-streptomycin (Lonza, DE17-602E). MDA-MB-231 and PANC-1 cells were cultured in DMEN (Lonza, BE12-614F), T778 cells in RPMI 1640 (Gibo, 31870025), each supplemented with 10% FCS, 1% L-glutamine (Lonza, BE17-605E) and 1 % penicillin-streptomycin (Lonza, DE17-602E). RNAi knockdown was performed using Dharmafect 2 (Thermo Scientific, T-2002-01) in PC- 3M-luc2 cells, PANC1 cells and MDA-MB-231 cells, and Dharmafect 4 (Thermo Scientific, T-2004-01) in Du145 cells using 25 nM siRNA (final concentration) according to the manufacturer′s instruction. The following siRNAs were used for RNAi-mediated knockdown:

siCtrl 5′-GAAAGUCCUAGAUCCACACGCAAAU-3′.

siPRK1 5′-GAACAUGAUCCAGACCUACAGCAAU-3′.

sip38 5′-CAGACCATTTCAGTCCATCATTCAT-3′.

siPXN 5′-CATACCCAACTGGAAACCACACATA-3′.

siELK1 5′-CACATCCCTTCTATCAGCGTGGATG-3′.

The following miRNAs were used for stable miRNA expression:

miR-Ctrl 5′-GAAATCGCTGATTTGTGTAGTCGTTTTGG CCACTGACTGACGACT ACACATCAGCGA TTT-3′.

miR-SPAG9 5′-GATTTCTGGTGGTTTATCCATCGTTTTGG CCACTGACTGACGA TGGATACCACCAG AAAT-3′.

miR-NT5E 5′-GTACACGGTGAACCAGATAGTGGTTTTG GCCACTGACTGACCACTATCTTTCACCG TGTA-3′.

miR-NEDD9 5′-GTAATGAGCACAGCCACCATCCGTTTTG GCCACTGACTGACGGATGGTGTGTGCTC ATTA-3′.

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2

Isolation and Culture of Chicken Primary Keratinocytes

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Chicken feet were disinfected with iodine and 70% ethanol. Skin fragments were excised and incubated with 0.5 mg/mL thermolysin (#T7902-100MG, Sigma) either 2 h at 37°C for 19-day old chickens or overnight at 4°C for older chickens. After its separation from the dermis, the epidermis was enzymatically digested 10 min at 37°C in a 0.05% trypsin-EDTA solution (#11580626, Gibco). Isolated chicken primary keratinocytes (CPKs) were filtered through a 40 μm mesh strainer (Falcon) and centrifuged 7 min at 1400 rpm. The CPKs pellet was resuspended in 3 mL William’s E medium (#32551–020, Gibco) supplemented with 3% chicken serum, 2% fetal calf serum, 1% L-glutamine and 1% penicillin-streptomycin (#DE17-602E, Lonza).
For the infectivity assay, 1 mL of the CPK suspension was added on two wells of a 6-well plate containing a confluent layer of CESCs. After an overnight co-culture, cells were washed with PBS and then cultivated 3 to 4 days with William’s E medium (#32551–020, Gibco) supplemented with 1.5% chicken serum, 1% fetal calf serum, 1% L-glutamine and 1% penicillin-streptomycin (#DE17-602E, Lonza).
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3

Cultivation of HUVEC and PC-3 Cell Lines

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Human umbilical venous endothelial cells (HUVEC) obtained from male newborns were purchased from Lonza (CC2519) and grown in plastic flasks in EBM-2 medium (Lonza, CC3156), containing 1% streptomycin/penicillin (Lonza, DE17-602E) and 10% of heatinactivated fetal bovine serum (FBS, Gibco, 10270-106) . HUVEC were used between the second and fourth passage.
Prostate cancer cell line PC-3 were purchased from ATCC (CRL-1435) and grown in plastic flasks in complete RPMI 1640 medium (ThermoFisher, 11875-085), containing 2 mM of Lglutamine, 20 mM of HEPES, 1% streptomycin/penicillin (Lonza, DE17-602E) and 10% of heat-inactivated fetal bovine serum (FBS, Gibco, 10270-106) . PC-3 were used between the first and fifth passage.
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4

HeLa Cell Culture and Transfection

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HeLa cells were cultured in DMEM (1 g/L D-Glucose, [−] Phenol Red; Gibco by LifeTechnologies) supplemented with 10% Foetal Bovine Serum (S1810–500, Dutscher), 1% of Pen-Strep solution (100 units of Potassium Penicillin and 100 μg of Streptomycin Sulfate per 1 mL of culture media – final concentration; DE17-602E, Lonza, BioWhitaker) and 1% L-Glutamine (2 mM; BE17-605E, Lonza, BioWhitaker) at 37 °C with 5% CO2. Cells were transiently transfected with different plasmids on the next day after seeding using jetPEI transfection reagent (PolyPlus Transfection) following the supplier’s protocol −2 µL of jetPEI for 1 µg of plasmid DNA.
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5

Culturing U266 Multiple Myeloma Cells

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The U266 human MM cell line was purchased from the ATCC and were grown at 37°C under 5% CO2 RPMI medium (Gibco BRL, Paisley, UK) supplemented with 10% fetal calf serum (Gibco BRL, 10270), 50 units/ml penicillin, 50 mg/ml streptomycin (Lonza, DE17-602E) and 1 mM sodium pyruvate (Lonza, BE13-115E).
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6

LSD1 Knockdown in Prostate Cancer Cells

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PC-3M-luc cells and DU145 cells were cultured in EMEM (Lonza, Basel, Switzerland, 12–125) supplemented with 10% FCS, 1% L-glutamine (Lonza, BE17-605E) and 1% penicillin-streptomycin (Lonza, DE17-602E). RNAi knockdown was performed using Dharmafect 2 (Thermo Scientific, Waltham, MA, USA, T-2002-01) in PC-3M cells and Dharmafect 4 (Thermo Scientific, T-2004-01) in DU145 cells using 25 nM siRNA according to the manufacturer's instruction. For knockdown of LSD1 the following siRNAs were used: siCtrl: 5′-AACGTACGCGGAATACTTCGA-3′ and siLSD1 5′-acacaaggaaag cuagaagaa-3′. For others siCtrl 5′-GAAAGTCCTAGATCCACACGCAAAT-3′, siLPAR6 5′-UCAGCAUGGUGUUUGUGCUUGGGUU-3′, siPXN 5′-CATACCCAACTGGAAACCACACATA-3′, siTLN1 5′-CATTGTACTTGATACGGCCAGTGAT-3′, siZYX 5′-CAGGGAGAAGGTGAGCAGTATTGAT-3′ and siPIK3R2 5′-CCCTCAGGAAAGGCGGGAACAATA-3′. Dharmafect Duo (Thermo Scientific, T-2010-01) was used for plasmid transfection as described in the manual. Puromycin (Sigma, St Louis, MO, USA, P8733, 5 μg/ml) was administered to cells 24 h post transfection. 293T cells were cultured in DMEM supplemented with 10% FCS, 1% L-glutamine and 1% penicillin-streptomycin. Viral production was performed as described.12 (link) PC-3M cells were infected with FU-GFP or FU-GFP-LSD1 and subjected to migration assay 24 h post transduction.
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7

C57BL/6J Murine Syngeneic Glioma Model

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Adult, female (8 to 10 weeks old) C57BL/6J mice were purchased from Harlan (Horst, The Netherlands). The mice were housed in conventional pathogen-free conditions. All animal experiments were approved by the bioethics committee of the KU Leuven that follows international guidelines.
Methylcholanthrene-induced murine C57BL/6J syngeneic GL261 glioma cells were kindly provided by Dr. Eyüpoglu (University of Erlangen, Germany). The cells were maintained in DMEM supplemented with 10% heat-inactivated FCS (Sigma-Aldrich, F7524), 2 mM L-glutamine, 100 U/mL penicillin and 100 mg/mL streptomycin (both from Lonza, BE17-605E and DE17-602E, respectively). Cell morphology was evaluated by microscopic examination multiple times per week.
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8

Microglia Cell Culture Protocols

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All the chemicals used in this study are commercially purchased and used without further purification. Lipofectamine (LPS) was purchased from Thermo Fisher (00‐4976‐93); Beta Amyloid (1–42) was procured from Anaspec (AS24224), Mammalian protein extraction reagent (MPER; #78 505)), EDTA, Protease inhibitor (78 425) were purchased from Thermo Fischer Scientific. For 2D cell culture, murine microglia BV2 cell was used, human microglia HMC3 and cultured in Dulbecco's modified Eagle's media (12‐707F; Lonza) supplemented with 10% fetal bovine serum (FBS), L‐Glutamine (25‐005‐Cl; Corning), and Penicillin/streptomycin (DE17‐602E; Lonza). Cells were cultured in a 37 °C incubator with water‐saturated air and a 5% CO2 atmosphere and splitting was done every 2–3 days using trypsin (BE17‐161E; Lonza).
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9

Cytotoxicity Evaluation of NovioSense Glucose Sensor

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Cytotoxicity tests were outsourced and conducted
by Toxikon Europe
NV, Belgium according to ISO 10993-5, 2009, Biological Evaluation
of Medical Devices; Part 5: Tests in vitro cytotoxicity and ISO 10993-12,
2012, Biological Evaluation of Medical Devices; Part 12: Sample Preparation
and Reference Materials. The study was conducted in accordance with
Good Laboratory Practice (GLP). The test was based on the measurement of
viability of L929 mouse fibroblasts (105 cells/mL) in response
to an extract of the NovioSense Glucose Sensor functionalized with
GOx dummy device via XTT assay (Roche). The NovioSense Glucose Sensor
devices were extracted in 0.9% sodium chloride at a ratio of 60 cm2/20 mL. The NovioSense Glucose Sensor device extract was finally
diluted in serum-supplemented Minimum Essential Medium (MEM-complete)
at a ratio of 1/4. The L929 cells were exposed in quadruplicate at
this 1/4 dilution. MEM-complete contained following: MEM (LONZA:BE12-125F),
penicillin/streptomycin (LONZA: DE17-602E), fetal bovine serum (Greiner-bio-one
FBSEU500), l-glutamine (LONZA:BE17-605E), Hepes buffer (LONZA:
BE17–737E).
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10

Culturing Murine Melanoma B16.F10 Cells

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Murine melanoma B16.F10 (ATCC, CRL-6475) cancer cells were cultured in Dulbecco’s Modified Eagle medium (DMEM, Lonza), supplemented with 10% heat-inactivated fetal bovine serum (FBS), 100 IU/ml penicillin and 100 µg/ml streptomycin (DE17-602E, Lonza), and 4 mM L-Glutamine (BE17-605E, Lonza). Cancer cells were maintained as a monolayer at 37°C in a 5% CO2 humidified atmosphere.
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