NCIH510_LUNG


Available Data

  • Vendor Karyotype
  • ecDNA Presence Verification from Literature
  • Amplicon Architect Prediction
  • Shatterseek Prediction

ID Value
ATCC HTB-184
DSMZ ACC-568
Cellosaurus NCI-H510A
Cosmic 753605.0

Property Value
% Polyploidy None
Ploidy Classification hyperdiploid
Modal Chromosome Number 54.0
Modal Range Numeric 46-57
Marker Chromosomes Average Field 25.0
Primary or Metastasis Metastasis
Count of SV's 7

Details

ecDNA Present (Y/N/P): Y

Literature source: https://aacrjournals.org/cancerdiscovery/article/13/4/928/725029/Extrachromosomal-DNA-Amplification-Contributes-to

HSR Classification: Y

ATCC Karyotype: hypotriploid; modal number = 54; range = 46 to 57. Twenty to 25 marker chromosomes were common to all cells. These included t(13q21q), der(1)t(1;21)(p36.1;q11), der(7)t(7;7)(p22;q22), 11p+, 12p+, and 15p+. Neither DM nor HSR were detected; structurally normal N1, N2, N13 and N21 were absent. Generally, there were 3 copies of both F group chromosomes; the X chromosomes were paired, and structurally normal Y chromosome was not found.

DSMZ Karyotype: No data

Heterogeneity Indications and Other Notes: 3 copies of both F group chromosomes; the X chromosomes were paired, and structurally normal Y chromosome was not found.

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Prediction

ecDNA Amplicon Predicted: Y

Predicted Amplicon Classes: ['ecDNA', 'Linear amplification']

Predicted Genes on ecDNA

['ARTN', 'ATP6V0B', 'B4GALT2', 'CCDC24', 'DMAP1', 'DPH2', 'ERI3', 'ERI3-IT1', 'IPO13', 'KDM4A', 'KDM4A-AS1', 'KLF17', 'KLF18', 'PTPRF', 'RNF220', 'SLC6A9', 'SNORA110', 'ST3GAL3', 'TM4SF20', 'CASC11', 'CASC21', 'CASC8', 'CCAT2', 'DCSTAMP', 'DPYS', 'HPYR1', 'KCNQ3', 'LRP12', 'LRRC6', 'MYC', 'PHF20L1', 'POU5F1B', 'PTCSC1', 'PVT1', 'RIMS2', 'SLA', 'TG', 'TMEM71', 'TMEM75', 'ZFPM2', 'FLJ42969', 'GRHL2', 'NACA4P', 'NCALD', 'ZNF706', 'ZNNT1', 'AKIRIN1', 'BMP8A', 'BMP8B', 'C1orf109', 'C1orf122', 'CDCA8', 'DNALI1', 'EPHA10', 'FHL3', 'GJA9', 'GJA9-MYCBP', 'GNL2', 'GRIK3', 'HEYL', 'HPCAL4', 'INPP5B', 'KIAA0754', 'MACF1', 'MANEAL', 'MEAF6', 'MTF1', 'MYCBP', 'MYCL', 'NDUFS5', 'NT5C1A', 'OXCT2', 'OXCT2P1', 'PABPC4', 'PABPC4-AS1', 'POU3F1', 'PPIE', 'PPIEL', 'RHBDL2', 'RRAGC', 'RSPO1', 'SF3A3', 'SNIP1', 'SNORA55', 'TRIT1', 'UTP11', 'YRDC', 'ZC3H12A', 'CLEC19A', 'COQ7', 'GDE1', 'ITPRIPL2', 'SYT17', 'TMC5', 'TMC7', 'SKAP1', 'SNX11', 'THRA1/BTR']

Predicted Features

Class Amplicon Complexity Score
ecDNA 1 0.4834128352
Image 1

Class Amplicon Complexity Score
ecDNA 1 0.6859541845
Image 2

Class Amplicon Complexity Score
ecDNA 1 1.487538912
Image 3

Class Amplicon Complexity Score
ecDNA 1 0.9296367302
Image 4

Class Amplicon Complexity Score
ecDNA 1 0.4632883219
Image 5

Class Amplicon Complexity Score
ecDNA 1 0.6870931543
Image 6

Class Amplicon Complexity Score
Linear amplification 2 0.0418075562
Image 7

Class Amplicon Complexity Score
Linear amplification 3 0.7182051265
Image 8

Class Amplicon Complexity Score
Linear amplification 4 0.5653147556
Image 9

Class Amplicon Complexity Score
Linear amplification 5 0.0
Image 10

Class Amplicon Complexity Score
Linear amplification 6 0.6456606469
Image 11

Class Amplicon Complexity Score
ecDNA 7 0.6903205391
Image 12

Class Amplicon Complexity Score
Linear amplification 8 0.6864726861
Image 13

Class Amplicon Complexity Score
ecDNA 9 1.085797334
Image 14

Prediction

ecDNA: None


Prediction

Shatterseek Prediction: Low Confidence

Shatterseek High Confidence Chromosomes: None

Shatterseek Low Confidence Chromosomes: 6, 8, 10, 18