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53 protocols using be 2 c

1

Acquisition and Characterization of Cancer Cell Lines

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The prostate carcinoma cell line PC-3 was obtained from DSMZ (Braunschweig, Germany) and the MYCN-amplified neuroblastoma cell lines Be(2)-C and IMR-32 from ATCC (Manassas, VA, USA). The alveolar rhabdomyosarcoma cell line Rh30 was kindly provided by Dr. P.J. Houghton (St. Jude's Children's Research Hospital, Memphis, Tennessee). The MYCN-amplified neuroblastoma cell lines UKF-NB-2, UKF-NB-3, and UKF-NB-4 were established from stage 4 neuroblastoma patients [21 (link),22 (link),35 (link)].
The following drug-adapted cell lines were derived from the resistant cancer cell line (RCCL) collection (http://www.kent.ac.uk/stms/cmp/RCCL/RCCLabout.html): IMR-32rVCR10 (vincristine), UKF-NB-2rVCR10, UKF-NB-3rCDDP1000 (cisplatin), UKF-NB-3rDOX20 (doxorubicin), UKF-NB-3rPCL10 (paclitaxel), UKF-NB-3rVCR10, Rh30rVCR10. Parental chemosensitive cell lines had been adapted to growth in the presence of anti-cancer drugs by continuous exposure to increasing drug concentrations as described previously [21 (link),35 (link),36 (link)].
All cells were propagated at 37°C in IMDM supplemented with 10 % FBS, 100 IU/ml penicillin, and 100 μg/ml streptomycin. Cells were routinely tested for mycoplasma contamination and authenticated by short tandem repeat profiling.
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2

Neuroblastoma Cell Line Cultivation and Differentiation

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Neuroblastoma cell lines BE(2)-C (CRL-2268), IMR32 (CCL-127), SH-SY5Y (CRL-2266), SK-N-AS (CRL-2137), and SK-N-DZ (CRL-2149) were obtained from ATCC (Manassas, VA), LA1-55n from Sigma-Aldrich (06041203, St. Louis, MO), and SMS-KCNR from the Childhood Cancer Repository at Texas Tech University Health Sciences Center. IMR32, SH-SY5Y, SK-N-AS, and SK-N-DZ were cultured in DMEM (HyClone SH30022); BE(2)-C in DME/F-12 1:1 (HyClone SH30023); and LA1-55n and SMS-KCNR in RPMI 1640 (HyClone SH30027) from Thermo Fisher Scientific (Waltham, MA). All media were supplemented with 10% FBS (S11050, Atlanta Biologicals, Flowery Branch, GA). Mouse neuroblastoma sphere-forming cell lines were established as described previously25 (link) and were cultured in complete neural crest cell culture medium50 (link). For cell growth analysis, numbers of viable cells were determined by trypan blue exclusion assay. For differentiation assay, cells were treated with 5 µM all trans-retinoic acid (R2625, Sigma-Aldrich), with 0.1% DMSO as vehicle control. Phase contrast images were captured using an EVOS digital inverted microscope (Advanced Microscopy Group, Mill Creek, WA) or an Axio Observer microscope and AxioVision software (Carl Zeiss MicroImaging, Thornwood, NY).
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3

Cell Line Culture and Characterization

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BE(2)C (ATCC #CRL-2268), PA-1 (ATCC #CRL-1572), IMR90 (ATCC #CRL-186), SK-N-AS (ATCC #CRL-2137), SH-SY5Y (ATCC #CRL-2266), 293T(ATCC #11268), SK-N-DZ (ATCC #CRL-2149) and Kelly cells (Sigma #92110411-1VL) were maintained in 1:1 DMEM/F12:MEM media with 10% inactivated fetal calf serum, 1ug/ml penicillin, and 1U/ml streptomycin. All cell lines were purchased for the purposes of this study, are not among commonly misidentified cell lines (per ICLAC), and tested negative for mycoplasma contamination.
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4

Culturing Human Neuroblastoma Cell Lines

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The human neuroblastoma cell lines BE(2)-C (CRL-2268; ATCC, Manassas, VA, USA), SK-N-DZ (CRL-2149; ATCC), SK-N-F1 (CRL-2141; ATCC), and SHEP144 (link) cells were cultured in a 1 : 1 mixture of DMEM and Ham's nutrient mixture F12 supplemented with 10% fetal bovine serum (Invitrogen, Carlsbad, CA, USA). Cells were examined and phase-contrast images captured using an Axio Observer microscope and the software AxioVision (Carl Zeiss MicroImaging, Thornwood, NY, USA).
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5

Cell culture and gene knockdown protocol

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BE(2)-C (CRL-2268) and SH-SY5Y (CRL-2266) were acquired from the ATCC and cultured in EMEM:Ham’s F12 (1:1) with 10% FBS at 37°C and 5% CO2, according to ATCC guidelines. Silencer Select siRNAs were used for gene product knockdowns and were from ThermoFisher ((MAB21L1 (s8383 (#2), s8384 (#1)), ARHGAP36 (s46108(#1), s46110(#2)), LOC100507194 (n506417), and Negative Control #1 (4390846)).
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6

Culturing BE(2)-C and SH-SY5Y Cell Lines

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Cell lines BE(2)-C (CRL-2268, RRID:CVCL_0529, male) and SH-SY5Y (CRL-2266, RRID:CVCL_0019, female) were acquired from the ATCC immediately before experiments and considered authenticated. Cells were cultured according to ATCC guidelines in EMEM:Ham’s F12 (1:1) with 10% FBS at 37°C and 5% CO2. Experiments were performed with cells passaged fewer than 25 times.
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7

In vitro Neuroblastoma Cell Testing

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Drug testing was conducted in vitro on three human NB cell lines: BE(2)-C (purchased in 2011 from ATCC, Manassas, VA), SMS-KCNR (kindly donated by Dr. John Maris in 2004, The Children's Hospital of Philadelphia, PA), and CHLA90 (kindly donated by Patrick Reynolds in 2006, The Children's Hospital of Los Angeles, CA). SMS-KCNR cells were also used for drug testing in vivo. Two of the cell lines tested were MYCN amplified (BE(2)-C and SMS-KCNR) and one was non-amplified (CHLA90). All cell lines were validated by comparing STRs in May 2012 (DNA Diagnostics Center, Fairfield, OH). Cells were cultured in RPMI-1640 with 10% (vol/vol) certified fetal bovine serum (FBS), 100 U/mL penicillin, and 100 mg/mL streptomycin. Incubation was at 37°C with 5% CO2. All cell culture reagents were purchased from Life Technologies (Grand Island, NY). Cells were grown in 6-well or 96-well plates and were allowed to grow to 60-70% confluence prior to addition of drugs.
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8

Culturing Ovarian and Neuroblastoma Cell Lines

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SKOV-3
(ATCC, HTB77), OVCAR-3 (ATCC, HTB-161),
OVCAR-8 (inherited from Laurent Brad’s previous laboratory),
and CAOV-3 (ATCC, HTB75) ovarian cancer cells were grown in complete
DMEM media (Gibco, 11965). IGROV-1 (Sigma, SCC203) and 2008 (kindly
provided by Dr. François X. Claret, University of Texas M.D.
Anderson Cancer Center) ovarian cancer cells were grown in complete
RPMI medium (Gibco, 22400). ES2 (ATCC, CRL-1978) was grown in McCoy’s
5A complete medium (ATCC, 30-2007). BE(2)C (ATCC, CRL-2268), SH-EP1
(ATCC, CRL-2269), SH-SY5Y (ATCC, CRL-2266), KELLY (Sigma, 92110411),
SK-N-AS (Sigma, 94092302), and LAN-5 (COG, http://www.cogcell.org) neuroblastoma
cell-lines were maintained in RPMI1640 media (Gibco, 11875) supplemented
with 10% heat-inactivated FBS. TH-MYCN+/+ cells were derived by mechanical
dissociation of tumors obtained from TH-MYCN homozygous mice51 (link)−53 (link) and were maintained in RPMI1640 media (Gibco, 11875) supplemented
with 20% heat-inactivated FBS, 10–5 mM 2-mercaptoethanol, 1
mM sodium pyruvate, and 1× nonessential amino acids (Gibco, 11140076).
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9

Cell Line Culture and Characterization

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BE(2)C (ATCC #CRL-2268), PA-1 (ATCC #CRL-1572), IMR90 (ATCC #CRL-186), SK-N-AS (ATCC #CRL-2137), SH-SY5Y (ATCC #CRL-2266), 293T(ATCC #11268), SK-N-DZ (ATCC #CRL-2149) and Kelly cells (Sigma #92110411-1VL) were maintained in 1:1 DMEM/F12:MEM media with 10% inactivated fetal calf serum, 1ug/ml penicillin, and 1U/ml streptomycin. All cell lines were purchased for the purposes of this study, are not among commonly misidentified cell lines (per ICLAC), and tested negative for mycoplasma contamination.
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10

NB Cell Line Drug Testing Protocol

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Single drug tests were conducted on the following NB cell lines: BE(2)‐C (ATCC, Manassas, VA), SMS‐KCNR (graciously donated by Dr. John Maris in 2004, The Children's Hospital of Philadelphia, PA), CHLA‐90 (kindly donated by Patrick Reynolds in 2006, The Children's Hospital of Los Angeles, CA), and SH‐SY5Y (ATCC, Manassas, VA). Cell lines were certified by short tandem repeat (STR) analysis (DNA Diagnostics Center, Fairfield, OH). Drug tests were additionally conducted on two Stage 4 relapsed primary NB patient cells MGT‐015‐08 and MGT9‐102‐08 (Helen DeVos Children's Hospital, Grand Rapids, MI). Cells were cultured in RPMI‐1640 with 10% (vol/vol) certified fetal bovine serum (FBS), 100 U/mL penicillin, and 100 mg/mL streptomycin. Incubation was at 37˚C with 5% CO2. All cell culture reagents were purchased from Life Technologies (Grand Island, NY). Cells were grown in 6‐well or 96‐well plates. For all experiments using 96‐well plates, BE(2)‐C, CHLA90, and all preliminary cell lines were plated at 3500 cells/well, and SMS‐KCNR and SH‐SY5Y cells were plated at 5000 cells/well. All plated cells were allowed to adhere overnight and grown to 60–70% confluence within the well prior to drug treatment.
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