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The DLD-1 is a laboratory equipment product from Thermo Fisher Scientific. It is designed for DNA separation and analysis. The core function of the DLD-1 is to perform DNA electrophoresis, a technique used to separate and analyze DNA molecules based on their size and charge.

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125 protocols using dld 1

1

Doxycycline-Inducible Cell Line Generation

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The following cell lines were purchased from American Type Culture Collection (ATCC): DLD-1 (male, adult, age not reported, Dukes’ type C colon cancer), DLD-1 cells were cultured in RPMI 1640 medium (ThermoFisher) supplemented with 10% fetal bovine serum and 100 U/mL penicillin/streptomycin. The DLD-1 cells harboring doxycycline-inducible p14ARF-miRFP670, p14ARFΔH1-3-miRFP670, miRFP670, were maintained in RPMI 1640 medium supplemented with 10% Tet system approved fetal bovine serum (ThermoFisher), and 250 μg/ml G418. All cell lines were incubated at 37°C in a humidified incubator with 5% CO2. Gene edited cell lines were authenticated by short tandem repeat (STR) profiling. Cells were tested negative for mycoplasma by the e-Myco PLUS Mycoplasma PCR Detection Kit (Bulldog Bio).
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2

Characterization of Colorectal and Cancer Cell Lines

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Colorectal cancer (CRC) cell lines DLD1, HCT116, RKO, SW480, LoVo, SW948, H460, T47D, HEK 293 T were purchased from the ATCC. Colorectal cancer (CRC) cell lines DLD1, HCT116, RKO, SW480, LoVo, SW948and genetically engineered isogenic cell lines DLD1 PIK3CA E545K cells and DLD1 PIK3CA WT cells were grown in McCoy’s 5 A medium (Gibco) supplemented with 10% of fetal bovine serum (Gibco). Lung cancer cell line H460 and breast cancer cell line T47D were cultured in RPMI 1640 medium (Sigma) containing 10% of FBS. Breast cancer cell line MDA-MB361 was maintained in Leibovitz’s L-15 medium (Gibco) with 20% of FBS. Human embryonic kidney HEK 293 T cells were cultured in DMEM medium (Sigma) containing 10% FBS. Penicillin/Streptomycin (1%) was added to tissue culture media for all cultures. Cells were incubated at 37 °C in a humidified atmosphere with 5% CO2. All cell lines were tested routinely to avoid Mycoplasma contamination (Yeasen, cat # 40601ES20). The cell lines were authenticated by the Genetica DNA Laboratories using STR profiling. Transfection was conducted using Lipofectamine 3000 reagent (Life Technologies) according to the manufacturer’s instructions.
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3

Colorectal Cancer Cell Lines Treated with TSA

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Human colon adenocarcinoma cell lines DLD-1 and SW480 were purchased from the American Type Culture Collection (ATCC, Manassas, VA) and cultured in 10% fetal bovine serum (FBS) (Gibco, Thermofisher Scientific, Waltham, MA) supplemented RPMI (Gibco) or DMEM (Gibco) medium, respectively. DLD-1 cells harboring an extra copy of chromosome 7 (DLD-1 + 7) were previously described9 (link) and maintained in 10% FBS supplemented RPMI medium with 100 μg/ml geneticin (G418) (Thermofisher). Cells were seeded 24 hours prior to treatment in a 96-well flat clear bottom black plate (Corning, Corning, NY), after which they were treated with different concentrations of TSA (Sigma-Aldrich, St. Louis, MO) for 24 hours. DMSO (Sigma-Aldrich) was used as vehicle control.
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4

Generating Drug-Resistant CRC Cell Lines

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CRC cell lines DLD-1 and RKO were purchased from ATCC (Manassas, VA). Their respective drug-resistant derivatives, DLD1-DR and RKO-DR were a kind gift from the lab of Zhenghe Wang (CWRU, Cleveland, OH). DLD1-DR cells were developed with resistance to 5ʹ-fluorouracil (5ʹ-FU) (Millipore-Sigma, St. Louis, MO), to an IC50 of 210.6 µM vs IC50 of 2.5 µM for DLD-1 cells, as previously described 55 (link). RKO-DR cells were developed with resistance to combined treatment of 10 µM 5ʹ-FU and 15 µM CB-839, a glutaminase inhibitor (Selleck Chemicals, Houston, TX), as shown in Figure S1A. The DLD-1 and DLD1-DR cells were cultured in McCoy's 5A medium (Thermo Fisher Scientific, Waltham, MA). The RKO and RKO-DR cells were cultured in RPMI-1640 medium (Millipore-Sigma). Both the media were supplemented with 10% fetal bovine serum and 100 Units/mL Penicillin/Streptomycin. All the cells were grown at 37 °C and 5% CO2.
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5

Culturing Colon Cancer and Lymphoma Cell Lines

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Three primary colon cancer cell lines (1, 2, and 3) were generous gifts from Prof. Weiping Zou (University of Michigan, USA). Colon cancer cell lines DLD-1, HT29, SW480, SW620, HCT116 and the lymphoma cell line Jurkat were obtained from the American Type Culture Collection (ATCC). DLD-1, SW480, SW620, Jurkat and primary colon cancer cell lines were cultured in RPMI-1640 medium (Gibco) containing 10% foetal bovine serum (FBS) (Science cell) and 1% penicillin/streptomycin. HT29 and HCT116 were cultures in McCoy's 5A medium (Gibco) with 10% FBS and 1% penicillin/streptomycin. Cells were maintained in a humidified incubator with 5% CO2 atmosphere at 37°C.
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6

Colon Cancer Cell-Myofibroblast Interaction Assay

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Human colon cancer epithelial cells DLD-1 (Male, Dukes’s stage C), HCT116 (Male, Dukes’s stage D), and colonic myofibroblast CCD-18co cells (Female) were obtained from the Korean Cell Line Bank, and SW48 (Female, Dukes’s stage C) was purchased from ATCC. DLD-1 and HCT116 cells were cultured in RPMI-1640 (Gibco, Carlsbad, CA, USA) and CCD-18co and SW48 were cultured in Dulbecco’s Modified Eagle Medium (DMEM) (Gibco, Carlsbad, CA, USA) with L-glutamine (300 mg/L) supplemented with 10% fetal bovine serum (Gibco), penicillin (100 U/mL), and streptomycin (100 μM). DLD-1 cells were treated with TGFβ (R&D systems, Minneapolis, MN, USA), PDGF-D (R&D systems), imatinib (Tocris Bioscience, Bristol, UK), 2-APB (Tocris), and ML-9 (Sigma Aldrich, St. Louis, MO, USA) for 8 or 16 h. The conditioned medium was obtained from the supernatant of cells collected 8 h after PDGF-D stimulation, and treated with fresh medium in a 1:1 ratio to CCD-18co cells. To prevent mycoplasma contamination, Plasmocin™ (Invitrogen, San Diego, CA, USA, ant-mpp) was added to the medium.
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7

Cell Line Maintenance and Transfection

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Human embryonic kidney 293 T (HEK293T) cells, human normal colon cells (CCD18Co), and human CRC cells (Colo205, WiDr, HT29, RKO, Caco2, LoVo, SW480, DLD-1, HCT15 and HCT116) were obtained from the American Type Culture Collection (ATCC; Manassas, VA). DLD-1, Colo205, HT29, RKO, Caco2, HCT15 and SW480 cells were maintained in RPMI 1640 medium (Gibco BRL, Carlsbad, CA, USA). HEK293T, LoVo, and WiDr cells were maintained in Dulbecco's modified Eagle's medium (Gibco BRL). HCT116 cells were maintained in McCoy's 5A medium (Gibco BRL). CCD18Co cells were grown in Dulbecco's modified Eagle's medium supplemented with 20% fetal bovine serum (Gibco BRL) and 1 × non-essential amino acids (Sigma-Aldrich, St Louis, MO, USA). All other media used were supplemented with 10% fetal bovine serum, 100 units per ml penicillin, and 100 μg ml−1 streptomycin (Gibco BRL). Cells were transfected using Lipofectamine transfection reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's instructions.
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8

Culturing Human Colon Cancer Cell Lines

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The human colon cancer cell line DLD‐1 and the human colon cancer lymph node metastasis cell line SW620 were purchased from ATCC. The DLD‐1 cell line was cultured in RPMI‐1640 medium (Gibco) with 10% FBS (Thermo Fisher Scientific). The SW620 cell line was cultured in Leibovitz’s L‐15 medium (Gibco) with 10% FBS (Thermo Fisher Scientific).
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9

Colorectal Cancer Cell Culture

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The colorectal cancer cell lines, DLD-1 and LoVo, were purchased from Bioresource Collection and Research Center, Taiwan. DLD-1 cells (Dukes' type C, human colorectal adenocarcinoma) were incubated in high glucose Dulbecco's modified Eagle's medium (Gibco) supplemented with 10% fetal bovine serum (Gibco) and 1% penicillin/streptomycin (Gibco). The LoVo cells (Dukes' type C, grade IV, human colorectal adenocarcinoma) were grown in DMEM/F12 medium (Gibco) contained with 10% fetal bovine serum and 1% penicillin/streptomycin. All cultured cells were maintained at 37C and 5% CO2.
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10

Comprehensive Cell Line Culture Protocols

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Human cancer cell lines HL-60, K562, Jurkat, HeLa, A549, MCF-7, HepG2, A431, and MIA PaCa-2, along with human normal cell lines WI-38 and 1C3D3, were obtained from the RIKEN Cell Bank (RIKEN BRC, Tsukuba, Japan). Human normal cell line YS-1 was obtained from the JCRB Cell Bank (Osaka, Japan). Human cancer cell lines U937, PC-3, DLD-1, Hep3B, WM266-4, SK-MEL-28, HT-1080, and BxPC-3 were purchased from the American Type Culture Collection (ATCC; Manassas, VA, USA). HL-60, K562, Jurkat, U937, MCF-7, DLD-1, and BxPC-3 cells were cultured in RPMI 1640 (Gibco, Thermo Fisher Scientific, Waltham, MA, USA) containing 10% fetal calf serum (Sigma-Aldrich), 50 units/mL penicillin G (Gibco), and 50 μg/mL streptomycin (Gibco). HeLa, A549, PC-3, HepG2, Hep3B, WM266-4, SK-MEL-28, HT-1080, A431, MIA PaCa-2, and WI-38 cells were cultured in Dulbecco’s modified Eagle’s medium (DMEM; Gibco) containing 10% fetal calf serum, 50 units/mL penicillin G, and 50 μg/mL streptomycin. YS-1 cells were cultured in DMEM containing 5% fetal calf serum, 50 units/mL penicillin G, and 50 μg/mL streptomycin. 1C3D3 cells were cultured in DMEM containing 5% fetal calf serum, 10% newborn bovine serum (SAFC Biosciences, Lenexa, KS, USA), 2.5% horse serum (Gibco), 50 units/mL penicillin G, and 50 μg/mL streptomycin. All cell lines were incubated at 37°C in a humidified atmosphere containing 5% CO2.
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