EFM192A_BREAST


Available Data

  • Vendor Karyotype
  • Amplicon Architect Prediction
  • Shatterseek Prediction

ID Value
ATCC None
DSMZ ACC-258
Cellosaurus None
Cosmic 1290798.0

Property Value
% Polyploidy 20.0
Ploidy Classification hypotriploid
Modal Chromosome Number 68.0
Modal Range Numeric 60-70
Marker Chromosomes Average Field 6.0
Primary or Metastasis Metastasis
Count of SV's 5

Details

ecDNA Present (Y/N/P): Y

HSR Classification: N

ATCC Karyotype: No data

DSMZ Karyotype: human flat-moded near-triploid karyotype with 20% polyploidy - 68(60-70)<3n>XXXX, +X, -1, -4, +9, -12, -17, -17, -18, -22, +6mar, add(1)(p22), add(1)(p?32), add(2)(q35/37), add(3)(q27/29), i(15q), add(17)(p12), dminx1 present at 38%

Heterogeneity Indications and Other Notes: dminx1 present at 38%

Download Breakpoint Edges CSV

Prediction

ecDNA Amplicon Predicted: Y

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

Predicted Genes on ecDNA

['ARID2', 'SCAF11', 'SLC38A1', 'SLC38A2', 'LAPTM4B', 'MATN2', 'MTDH', 'SNORD3H', 'TSPYL5', 'ZNNT1', 'ABCC3', 'ANKRD40', 'ANKRD40CL', 'ARL5C', 'ATP5MC1', 'B4GALNT2', 'BICD1', 'C17orf98', 'CA10', 'CACNA1G', 'CACNB1', 'CALCOCO2', 'CDK12', 'CISD3', 'CWC25', 'ERBB2', 'FBXL20', 'FBXO47', 'GIP', 'GRB7', 'GSDMA', 'GSDMB', 'HOXB-AS3', 'HOXB13', 'HOXB6', 'HOXB7', 'HOXB8', 'HOXB9', 'IGF2BP1', 'IKZF3', 'LASP1', 'LRRC37A11P', 'LRRC3C', 'LUC7L3', 'MBTD1', 'MED1', 'MIEN1', 'MLLT6', 'NEUROD2', 'NME1', 'NME1-NME2', 'NME2', 'ORMDL3', 'PCGF2', 'PGAP3', 'PIP4K2B', 'PLXDC1', 'PNMT', 'PPP1R1B', 'PRAC1', 'PRAC2', 'PSMB3', 'PSMD3', 'RDM1P5', 'RESF1', 'RPL19', 'RPL23', 'SNF8', 'SNORA21', 'SNORA21B', 'SPAG9', 'STAC2', 'STARD3', 'TCAP', 'TOB1', 'TOB1-AS1', 'TTLL6', 'UBE2Z', 'UTP18', 'WFIKKN2', 'ZPBP2', 'ADNP-AS1', 'ATP9A', 'BCAS1', 'CBLN4', 'CYP24A1', 'DOK5', 'DPM1', 'KCNG1', 'MOCS3', 'NFATC2', 'PFDN4', 'SALL4', 'SUMO1P1', 'TSHZ2', 'ZFP64', 'ZNF217', 'AARD', 'ANGPT1', 'ANXA13', 'ATAD2', 'C8A', 'C8B', 'C8orf76', 'CASC11', 'CASC19', 'CASC21', 'CASC8', 'CCAT1', 'CCAT2', 'CCDC26', 'CCN3', 'COL14A1', 'COLEC10', 'CSMD3', 'DEPTOR', 'DERL1', 'DSCC1', 'EIF3E', 'EIF3H', 'EMC2', 'ENPP2', 'EXT1', 'FABP12', 'FABP4', 'FABP5', 'FABP9', 'FAM83A', 'FAM83A-AS1', 'FAM91A1', 'FBXO32', 'FER1L6', 'FER1L6-AS1', 'FER1L6-AS2', 'FYB2', 'GSDMC', 'HAS2', 'HAS2-AS1', 'KLHL38', 'LRATD2', 'MAL2', 'MAL2-AS1', 'MED30', 'MRPL13', 'MTBP', 'MTSS1', 'MYC', 'NDUFB9', 'NSMCE2', 'PAG1', 'PCAT1', 'PCAT2', 'PMP2', 'POU5F1B', 'PRKAA2', 'PRNCR1', 'PVT1', 'RAD21', 'RAD21-AS1', 'RALYL', 'RNF139', 'RNF139-AS1', 'RSPO2', 'SAMD12', 'SAMD12-AS1', 'SLC30A8', 'SLCO5A1', 'SMILR', 'SNORD168', 'SNTB1', 'SQLE', 'SULF1', 'TAF2', 'TATDN1', 'TBC1D31', 'TMEM65', 'TMEM75', 'TNFRSF11B', 'TRIB1', 'TRMT12', 'TRPS1', 'UTP23', 'WASHC5', 'WDYHV1', 'ZBTB10', 'ZHX1', 'ZHX1-C8orf76', 'ZHX2', 'ZNF572', 'ZNF704', 'C8orf88', 'CALB1', 'DECR1', 'FLJ46284', 'LRRC69', 'NBN', 'NECAB1', 'OTUD6B', 'OTUD6B-AS1', 'PIP4P2', 'RUNX1T1', 'SLC26A7', 'TMEM64', 'TBC1D27P']

Predicted Features

Class Amplicon Complexity Score
ecDNA 1 1.337537882
Image 1

Class Amplicon Complexity Score
ecDNA 1 0.4641451682
Image 2

Class Amplicon Complexity Score
ecDNA 1 0.6905713189
Image 3

Class Amplicon Complexity Score
ecDNA 1 0.9571554815
Image 4

Class Amplicon Complexity Score
ecDNA 1 1.545004089
Image 5

Class Amplicon Complexity Score
ecDNA 1 0.6931458655
Image 6

Class Amplicon Complexity Score
Linear amplification 3 0.562136324
Image 7

Class Amplicon Complexity Score
Linear amplification 4 0.5681681475
Image 8

Class Amplicon Complexity Score
ecDNA 5 0.5947752215
Image 9

Class Amplicon Complexity Score
Linear amplification 6 1e-10
Image 10

Prediction

ecDNA: None


Prediction

Shatterseek Prediction: Low Confidence

Shatterseek High Confidence Chromosomes: None

Shatterseek Low Confidence Chromosomes: 11, 12, 17