NCI-60

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The NCI-60 cancer cell line panel is a group of 60 human cancer cell lines used by the National Cancer Institute (NCI) for the screening of compounds to detect potential anticancer activity. [1]

Contents

Purpose

The screening procedure is called the NCI-60 Human Tumor Cell Lines Screen, and it is one of the Discovery & Development Services of NCI's Developmental Therapeutics Program (DTP). [2] [3] [4] The screening rates for each cell line the cytostatic and cytotoxic impact of tested substances. [2]

Due to the diversity of the cell lines, it is possible to compare tested compounds by their effect patterns, high correlation potentially corresponding to similar effect mechanisms. [2] An automated comparison against a database of more than 88,000 pure compounds and more than 34,000 crude extracts (as of 6 January 2017) is provided by the COMPARE tool, which shows a list of substances ranked by the Pearson correlation coefficients for a given test substance. [5]

The same panel is used in the Molecular Target Program for the characterization of molecular targets. Measurements include protein levels, RNA measurements, mutation status and enzyme activity levels. [6]

Cell Lines

The panel holds cell lines representing leukemia, melanoma, non-small-cell lung carcinoma, and cancers of the brain, ovary, breast, colon, kidney, and prostate. [1] [2]

13 additional cell lines are evaluated for use in the screening program, among them two lines deriving from so far not represented small-cell lung carcinoma. [1]

All cell lines but one (as of 6 January 2017) are available to other laboratories, including the additional cell lines. [1]

Misidentification and Misclassification

Starting around the turn of the millennium, several cell lines were found to be misidentified or misclassified at the time of investigation or earlier: [7] [8] [9]

MDA-MB-435, originally classified as breast cancer cell line, was identified as being a melanoma cell line. [7] When investigated further, current MDA-MB-435 appeared to be derived from the same individual as cell line M14. [7] An examination of clones made clear that the mixup with M14 happened very early in the history of MDA-MB-435, before establishment in the Developmental Therapeutics Program. [7]

NCI/ADR-RES, originally classified as breast cancer cell line, was identified as being an ovarian tumor cell line. [8] NCI/ADR-RES appears to have been derived at some point in time from cell line OVCAR-8. [8] Originally the cell line was named MCF-7/ADR-RES; it was renamed together with the change in classification. [8]

Two brain cancer cell lines, SNB-19 and U251, were discovered to come from the same person. [9] This makes a mixup likely.

A 61st cell line, MDA-N, has been confirmed to being derived from the misclassified MDA-MB-435 cell line. [7] So it is also misclassified, really being a melanoma cell line, but as of 6 January 2018 the official website still lists it as breast cancer cell line. [1] This cell line is not available as of 6 January 2018. [1]

The International Cell Line Authentication Committee maintains a list of contaminated cell lines. [10] It includes the cell lines reported above, although usually with reporting dates and articles considerably later than the first dates and articles rising specific concern regarding the respective cell line. [10] [7] [8] [9]

Continued Use of Wrong Classification

As of 2014 Hundreds of research studies still use MDA-MB-435 as model of breast cancer, even after it was officially declared to be a melanoma cell line in 2007, and even in highest-rated international peer-reviewed journals. [11] Similar is true for other misidentified cell lines. [11]

List of NCI-60 Cell Lines

The NCI-60 cell lines used by NCI's Human Tumor Cell Lines Screen as described on the website of the Developmental Therapeutics Program. [1] [12] Links to corresponding Cellosaurus descriptions and Research Resource Identifiers (RRID) have been added. [12] The Cellosaurus identifier is a combination of the cell line name variant chosen by Cellosaurus, with the Cellosaurus accession ID, the latter written as RRID.
Cell lineTumor classification(Potentially) misidentifiedOriginal classificationUnavailableDoubling Time (Hours)Inoculation DensityCellosaurus identifier and link
CCRF-CEM Leukemia 26.740000 CCRF-CEM (RRID:CVCL_0207)
HL-60(TB) Leukemia28.640000 HL-60(TB) (RRID:CVCL_A794)
K-562 Leukemia19.65000 K-562 (RRID:CVCL_0004)
MOLT-4Leukemia27.930000 MOLT-4 (RRID:CVCL_0013)
RPMI-8226Leukemia33.520000 RPMI-8226 (RRID:CVCL_0014)
SR-786Leukemia28.720000 SR (RRID:CVCL_1711)
A549 Non-Small Cell Lung 22.97500 A-549 (RRID:CVCL_0023)
EKVXNon-Small Cell Lung43.620000 EKVX (RRID:CVCL_1195)
HOP-62Non-Small Cell Lung3910000 HOP-62 (RRID:CVCL_1285)
HOP-92Non-Small Cell Lung79.520000 HOP-92 (RRID:CVCL_1286)
NCI-H226Non-Small Cell Lung6120000 NCI-H226 (RRID:CVCL_1544)
NCI-H23Non-Small Cell Lung33.420000 NCI-H23 (RRID:CVCL_1547)
NCI-H322MNon-Small Cell Lung35.320000 NCI-H322M (RRID:CVCL_1557)
NCI-H460Non-Small Cell Lung17.87500 NCI-H460 (RRID:CVCL_0459)
NCI-H522Non-Small Cell Lung38.220000 NCI-H522 (RRID:CVCL_1567)
COLO 205 Colon 23.815000 COLO 205 (RRID:CVCL_0218)
HCC-2998Colon31.515000 HCC2998 (RRID:CVCL_1266)
HCT116 Colon17.45000 HCT 116 (RRID:CVCL_0291)
HCT-15Colon20.610000 HCT 15 (RRID:CVCL_0292)
HT-29 Colon19.55000 HT-29 (RRID:CVCL_0320)
KM12Colon23.715000 KM12 (RRID:CVCL_1331)
SW-620Colon20.410000 SW620 (RRID:CVCL_0547)
SF-268 CNS 33.115000 SF268 (RRID:CVCL_1689)
SF-295CNS29.510000 SF295 (RRID:CVCL_1690)
SF-539CNS35.415000 SF539 (RRID:CVCL_1691)
SNB-19CNSyesCNS34.615000 SNB-19 (RRID:CVCL_0535)
SNB-75CNS62.820000 SNB-75 (RRID:CVCL_1706)
U251CNSyesCNS23.87500 U-251MG (RRID:CVCL_0021)
LOX IMVI Melanoma 20.57500 LOX-IMVI (RRID:CVCL_1381)
MALME-3MMelanoma46.220000 Malme-3M (RRID:CVCL_1438)
M14Melanoma26.315000 M14 (RRID:CVCL_1395)
MDA-MB-435MelanomayesBreast25.815000 MDA-MB-435 (RRID:CVCL_0417)
SK-MEL-2Melanoma45.520000 SK-MEL-2 (RRID:CVCL_0069)
SK-MEL-28Melanoma35.110000 SK-MEL-28 (RRID:CVCL_0526)
SK-MEL-5Melanoma25.210000 SK-MEL-5 (RRID:CVCL_0527)
UACC-257Melanoma38.520000 UACC-257 (RRID:CVCL_1779)
UACC-62Melanoma31.310000 UACC-62 (RRID:CVCL_1780)
IGROV-1 Ovarian 3110000 IGROV-1 (RRID:CVCL_1304)
OVCAR-3Ovarian34.710000 OVCAR-3 (RRID:CVCL_0465)
OVCAR-4Ovarian41.415000 OVCAR-4 (RRID:CVCL_1627)
OVCAR-5Ovarian48.820000 OVCAR-5 (RRID:CVCL_1628)
OVCAR-8Ovarian26.110000 OVCAR-8 (RRID:CVCL_1629)
NCI/ADR-RES (originally MCF-7/ADR-RES)OvarianyesBreast3415000 NCI-ADR-RES (RRID:CVCL_1452)
SK-OV-3 Ovarian48.720000 SK-OV-3 (RRID:CVCL_0532)
786-O Renal 22.410000 786-O (RRID:CVCL_1051)
A498Renal66.825000 A-498 (RRID:CVCL_1056)
ACHNRenal27.510000 ACHN (RRID:CVCL_1067)
CAKI-1Renal3910000 Caki-1 (RRID:CVCL_0234)
RXF 393Renal62.915000 RXF 393L (RRID:CVCL_1673)
SN12CRenal29.515000 SN12C (RRID:CVCL_1705)
TK-10Renal51.315000 TK-10 (RRID:CVCL_1773)
UO-31Renal41.715000 UO-31 (RRID:CVCL_1911)
PC-3 Prostate 27.17500 PC-3 (RRID:CVCL_0035)
DU-145 Prostate32.310000 DU145 (RRID:CVCL_0105)
MCF7 Breast 25.410000 MCF-7 (RRID:CVCL_0031)
MDA-MB-231 Breast41.920000 MDA-MB-231 (RRID:CVCL_0062)
MDA-MB-468 Breast622000 MDA-MB-468 (RRID:CVCL_0419)
HS 578T Breast53.820000 Hs 578T (RRID:CVCL_0332)
MDA-NMelanomayesBreastunavailable22.515000 MDA-N (RRID:CVCL_1910)
BT-549 Breast53.920000 BT-549 (RRID:CVCL_1092)
T-47D Breast45.520000 T-47D (RRID:CVCL_0553)

List of Additional Cell Lines

Additional cell lines evaluated for use in NCI's Tumor Cell Lines Screen as described on the website of the Developmental Therapeutics Program. [1] Links to corresponding Cellosaurus descriptions and Research Resource Identifiers (RRID) have been added, as well as the species. [13]
Cell lineTumor classificationSpeciesInoculation DensityCellosaurus identifier and link
LXFL 529 Non-Small Cell Lung human10000 LXFL 529L (RRID:CVCL_D085)
DMS 114 Small Cell Lung human20000 DMS 114 (RRID:CVCL_1174)
SHP-77Small Cell Lunghuman40000 SHP-77 (RRID:CVCL_1693)
DLD-1 Colon human50000 DLD-1 (RRID:CVCL_0248)
KM20L2Colonhuman10000 KM20L2 (RRID:CVCL_D889)
SNB-78 CNS human20000 SNB-78 (RRID:CVCL_B321)
XF 498CNShuman20000 XF 498 (RRID:CVCL_8928)
RPMI-7951 Melanoma human20000 RPMI-7951 (RRID:CVCL_1666)
M19-MELMelanomahuman10000 M19-MEL (RRID:CVCL_B415)
RXF-631 Renal human10000 RXF 631L (RRID:CVCL_A780)
SN12K1Renalhuman10000 SN12K1 (RRID:CVCL_D106)
P388 Leukemia mouse50000 P388 (RRID:CVCL_7222)
P388/ADRLeukemiamouse50000 P388/ADR (RRID:CVCL_IZ75)

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References

  1. 1 2 3 4 5 6 7 8 "Cell Lines in the In Vitro Screen". Developmental Therapeutics Program . National Cancer Institute. 8 May 2015. Retrieved 6 January 2018.
  2. 1 2 3 4 "NCI-60 Human Tumor Cell Lines Screen". Developmental Therapeutics Program . National Cancer Institute. 26 August 2015. Retrieved 6 January 2018.
  3. "Discovery & Development Services". Developmental Therapeutics Program . National Cancer Institute. 26 August 2015. Retrieved 6 January 2018.
  4. "Welcome to the Developmental Therapeutics Program". Developmental Therapeutics Program . National Cancer Institute . Retrieved 6 January 2018.
  5. "COMPARE Analysis". Developmental Therapeutics Program . National Cancer Institute. 11 August 2015. Retrieved 6 January 2018.
  6. "Molecular Targets". Developmental Therapeutics Program . National Cancer Institute. 12 May 2015. Retrieved 7 January 2018.
  7. 1 2 3 4 5 6 "MDA-MB-435, and its derivation MDA-N, are Melanoma cell lines, not breast cancer cell lines". Developmental Therapeutics Program . National Cancer Institute. 8 May 2015. Retrieved 6 January 2018.
  8. 1 2 3 4 5 "Cell Line NCI/ADR-RES is an Ovarian tumor cell line, not a Breast line". Developmental Therapeutics Program . National Cancer Institute. 8 May 2015. Retrieved 6 January 2018.
  9. 1 2 3 "CNS cell lines SNB-19 and U251 are derived from the same individual". Developmental Therapeutics Program . National Cancer Institute. 8 May 2015. Retrieved 6 January 2018.
  10. 1 2 Database of Cross-Contaminated or Misidentified Cell Lines (PDF), 8.0, International Cell Line Authentication Committee (ICLAC), 1 December 2016, retrieved 6 January 2018
  11. 1 2 Prasad, Vidudala VTS; Gopalan, Ramprasad OG (2 June 2015). "Continued use of MDA-MB-435, a melanoma cell line, as a model for human breast cancer, even in year, 2014". npj Breast Cancer . 1: 15002–. doi:10.1038/npjbcancer.2015.2. PMC   5515196 . PMID   28721362.
  12. 1 2 "Cellosaurus search result: 61 hits for "NCI60 cancer cell line panel"". Cellosaurus . Swiss Institute of Bioinformatics . Retrieved 7 January 2018. The reference includes the list of linked pages in the search result.
  13. "Cellosaurus - a knowledge resource on cell lines". Cellosaurus . Swiss Institute of Bioinformatics . Retrieved 17 January 2018. The reference includes the pages found by searching with the respective cell line names as given in the List of Additional Cell Lines.