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10 protocols using hct 15

1

Cell Line Characterization and Cultivation

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Human lung (H157),
colon (HCT-15 and
LoVo), and pancreatic (PSN-1) carcinoma cells were obtained from the
American Type Culture Collection (ATCC, Rockville, MD, USA). Human
cervical carcinoma A431 cells were kindly provided by Prof. F. Zunino
(Division of Experimental Oncology B, Istituto Nazionale dei Tumori,
Milan). Human ovarian adenocarcinoma 2008 cells were kindly provided
by Prof. G. Marverti (Dipartimento di Scienze Biomediche, Università
di Modena University, Italy). Human colon cancer cells resistant to
doxorubicin (LoVo MDR) were kindly provided by Prof. M. P. Rigobello
(Dipartimento di Scienze Biomediche, Università di Padova,
Italy). The LoVo-OXP cells were derived, using a standard protocol,
by growing LoVo cells in increasing concentrations of OXP and following
17 months of selection of resistant clones, as previously described.23 (link)Cell lines were maintained in the logarithmic
phase at 37 °C in a 5% carbon dioxide atmosphere using the following
culture media containing 10% fetal calf serum (EuroClone, Milan, Italy),
antibiotics (50 units/mL penicillin and 50 μg/mL streptomycin),
and 2 mM l-glutamine: (i) RPMI-1640 medium (EuroClone) for
A431, PSN-1, H157, HCT-15, and 2008 cells and (ii) Ham’S F-12
(Sigma Chemical Co.) for LoVo, LoVo MDR, and LoVo-OXP cells.
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2

Genomic profiling of colon cancer using patient samples

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Genomic DNA (gDNA) from cell lines HCT-15 (Sigma, Aldrich) and Human genomic DNA (Promega) were used as mutant and wildtype control respectively. Snap-frozen colon adenocarcinoma stage II/III and paired normal tissue biopsies from treatment-naïve patients were obtained from the Massachusetts General Hospital Tumor Bank and gDNA was extracted using the Blood and Tissue kit (Qiagen). For serial dilution samples, normal and tumor gDNA were randomly fragmented using dsDNA Shearase Plus (ZYMO Research, CA, USA) and tumor DNA were serially mixed into normal DNA. Plasma from healthy volunteers and from stage I/II colon adenocarcinoma treatment-naïve patients were obtained under consent and Institutional Review Board approval by the Dana Farber Cancer Institute GI Bank and cfDNA was isolated using QIAamp Circulating Nucleic Acids Kit (Qiagen). The concentration of isolated DNA was quantified on a Qubit 3.0 fluorometer using dsDNA HS assay kit (Thermo Fisher Scientific). The MSI status of clinical tumor was examined by Promega MSI Analysis kit v.1.2 (supplementary methods).
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3

Culturing Human Colon Cancer Cell Lines

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The human colon adenocarcinoma cell lines of HCT-15, SW-480 and Caco-2 were obtained from the American Tissue Culture Collection (ATCC) Manassas, VA, USA. HCT-15 and SW-480 cell lines were maintained in RPMI 1640 medium (SAFCO) (Sigma Aldrich, Castle Hill, NSW) supplemented with foetal calf serum (FCS, 10 %) (Hyclone Quantum Scientific, Clayton South, VIC), glutamine (10 mM), 4-2-hydroxyethyl-1-piperazineethanesulfonic acid (HEPES 10 mM) and penicillin (100U/ml)/streptomycin (100 μg/ml) (Sigma Aldrich, Castle Hill, NSW). The Caco-2 cell line was maintained in Dulbecco’s Modified Eagle’s Medium (DMEM) (Sigma Aldrich, Castle Hill, NSW) supplemented with 20%FCS and penicillin (100U/ml)/streptomycin (100 μg/ml), 2 mM/L glutamine, 0.1 mM non-essential amino acids. Cells were grown at 37 °C in 5 % CO2 humidified atmosphere.
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4

Diverse Cancer Cell Lines Cultivation

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Human breast (MCF-7), colon (HCT-15), lung (A549) and pancreatic (BxPC3) carcinoma cell lines together with melanoma (A375) cells were obtained from American Type Culture Collection (ATCC, Rockville, MD). The human ovarian cancer cell line 2008 and its cisplatin resistant variant, C13*, were kindly provided by Prof. G. Marverti (Department of Biomedical Science of Modena University, Italy). Human cervical carcinoma (A431) cells were kindly provided by Prof. F. Zunino (Division of Experimental Oncology B, Istituto Nazionale dei Tumori, Milan, Italy). Cell lines were maintained in the logarithmic phase at 37 °C in a 5% carbon dioxide atmosphere using the following culture media containing 10% fetal calf serum (Euroclone, Milan, Italy), antibiotics (50 units/mL penicillin and 50 μg/mL streptomycin) and 2 mM L-glutamine: (i) RPMI-1640 medium (Euroclone) for 2008, C13*, MCF-7, HCT-15, A431 and BxPC3 cells, (ii) F-12 HAM’S (Sigma Chemical Co.) for A549 cells, iii) DMEM (Sigma Chemical Co.) for A375 cells.
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5

Colon Cancer Cell Line Cultivation

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The colon cancer cell lines (HCT116, LoVo, RKO, LS174T, Colo205, Colo201, SW620, LS180, SW837, SW480, HCT15, and SW48) used in the present study were originally obtained from the American Type Culture Collection (Manassas, VA, USA). RKO, LS174T and LS180 cells were cultured in Dulbecco's modified Eagle's medium supplemented with 10% fetal bovine serum (both from Thermo Fisher Scientific, Inc., Waltham, MA, USA). SW480, LoVo, HCT15, SW48, SW620 and HCT116 cells were cultured in RPMI-1640 (Sigma-Aldrich; Merck KGaA, Darmstadt, Germany) supplemented with 10% fetal bovine serum. The monolayer cells were maintained in a 37°C incubator with 5% CO2, observed regularly under a light microscope (×40) and subcultured when 80–90% confluence was reached.
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6

Cultivation of Colorectal Cancer Cell Lines

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Four human colorectal cancer cell lines were used in the present study. HT29, colo 201, HCT116, HCT15, and CCD-18Co cells were purchased from the American Type Culture Collection (Manassas, VA, USA). HT29 and HCT116 cells were maintained in McCoy's 5A (Gibco, Grand Island, NY, USA) medium containing 10% fetal bovine serum (FBS) (Gibco), 100 U ml−1 of penicillin G, and 100 μg ml−1 of streptomycin at 37 °C in a humidified 5% CO2 atmosphere. HCT-15 cells were maintained in Eagle's minimum essential medium (Sigma-Aldrich, St Louis, MO, USA) containing 10% FBS (Gibco), 100 U ml−1 of penicillin G, and 100 μg ml−1 of streptomycin at 37 °C in a humidified 5% CO2 atmosphere. colo 201 cells were maintained in Roswell Park Memorial Institute 1640 Medium (Sigma-Aldrich) containing 10% FBS (Gibco), 100 U ml−1 of penicillin G, and 100 μg ml−1 of streptomycin at 37 °C in a humidified 5% CO2 atmosphere. CCD-18Co cells were maintained in Eagle's minimum essential medium (Sigma-Aldrich) containing 10% FBS, 100 U ml−1 of penicillin G, and 100 μg ml−1 of streptomycin at 37 °C in a humidified 5% CO2 atmosphere.
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7

Cell Culture Protocol for Common Cancer Cell Lines

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HCT116, DLD-1, HCT15, SW480 and HEK293 cells were purchased from the ATCC (#CCL-247, #CCL-221, #CCL-225, #CCL-228, #CRL-1573, respectively). HCT116, DLD-1, HCT15 and HEK293 cells were cultured in Dulbecco’s modified Eagle’s medium (DMEM; Sigma-Aldrich, St. Louis, MO, USA) supplemented with 10% fetal bovine serum (FBS; HyClone, Logan, UT, USA). SW480 cells were cultured in Leibovitz’s L-15 medium (Thermo Fisher Scientific, Gibco Cell Culture, Rockford, IL, USA) supplemented with 10% FBS.
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8

CRC Cell Lines Modulation of LINC00022

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CRC cell lines (DLD1, HCT116, CaCo-2, SW480, HCT-15, and RKO) were obtained from Procell Life Science&Technology Co,.Ltd. (Wuhan, China). HCT116 cells were cultured in McCoy’s 5A medium (NO. PM150710; Procell, Wuhan, China). CaCo-2 and RKO cells were cultured in Minimum Eagle's Medium (NO. 41500–067; Gibco, Grand Island, NY, USA). DLD1, SW480, and HCT-15 cells were cultured in Roswell Park Memorial Institute (RPMI)-1640 medium (NO. R1383; Sigma-Aldrich, St.Louis, MO, USA). All the culture media contained 10% fetal bovine serum (FBS; NO. B548117; Sangon Biotech, Shanghai, China) and cell cultures in respective culture media were placed in an incubator at 37℃ with 5% CO2. To up-regulate LINC00022 expression, the sequence of LINC00022 was cloned into a lentiviral expression vector, named Lv-LINC00022. To silence LINC00022 expression, short hairpin RNA (shRNA)-1 and shRNA-2 specifically targeting LINC00022 were cloned into a lentiviral vector named Lv-anti-LINC00022-1 and Lv-anti-LINC00022-2. Cells were infected with lentivirus for 72 h and then used in subsequent experiments.
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9

Establishing Carcinoma Cell Line Cultures

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Human breast (MCF-7), colon (HCT-15), and pancreatic (BxPC3, MIA Paca-2, AsPC-1, Capan-1, PANC-1) carcinoma cell lines along with melanoma (A375) cells and nontransformed embryonic kidney (HEK293) were obtained from American Type Culture Collection (ATCC, Rockville, MD). The human ovarian 2008 cancer cell line was kindly provided by Prof. G. Marverti (Dept. of Biomedical Science of Modena University, Italy). Human cervical carcinoma (A431) cells were kindly provided by Prof. F. Zunino (Division of Experimental Oncology B, Istituto Nazionale dei Tumori, Milan, Italy). Cell lines were maintained in the logarithmic phase at 37 °C in a 5% carbon dioxide atmosphere using the following culture media containing 10% fetal calf serum (Euroclone, Milan, Italy), antibiotics (50 units/mL penicillin and 50 μg/mL streptomycin) and 2 mM L-glutamine: (i) RPMI-1640 medium (Euroclone) for 2008, MCF-7, HCT-15, A431, AsPC-1 and BxPC3 cells; (ii) F-12 HAM'S (Sigma Chemical Co.) for A549 cells; iii) DMEM (Sigma Chemical Co.) for MIA Paca-2, PANC-1, A375 and HEK293 cells; IMDM (Sigma Chemical Co.) for Capan-1 cells.
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10

Culturing Various Cancer Cell Lines

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Human breast (MCF-7), colon (HCT-15 and LoVo), lung (A549), and pancreatic (BxPC3) carcinoma cell lines along with melanoma (A375) cells were obtained from American Type Culture Collection (ATCC, Rockville, MD). The human ovarian cancer cell line 2008 and its cisplatin resistant variant, C13*, were kindly provided by Prof. G. Marverti (Dept. of Biomedical Science of Modena University, Italy). The human colon carcinoma LoVo-OXP cells were derived, using a standard protocol, by growing LoVo cells in increasing concentrations of oxaliplatin and following 17 months of selection of resistant clones, as previously described. [28] Cell lines were maintained in the logarithmic phase at 37 °C in a 5% carbon dioxide atmosphere using the following culture media containing 10% fetal calf serum (Euroclone, Milan, Italy), antibiotics (50 units/mL penicillin and 50 μg/mL streptomycin) and 2 mM L-glutamine: (i) RPMI-1640 medium (Euroclone) for 2008, C13*, MCF-7, HCT-15 and BxPC3 cells; (ii) F-12 HAM'S (Sigma Chemical Co.) for A549, LoVo and LoVo-OXP cells; iii) DMEM (Sigma Chemical Co.) for A375 cells.
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