NCIH2029_LUNG


Available Data

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

ID Value
ATCC CRL-5913
DSMZ None
Cellosaurus NCI-H2029
Cosmic 688011.0

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: No data

ATCC Karyotype: No data

DSMZ Karyotype: No data

Heterogeneity Indications and Other Notes: No data

Download Breakpoint Edges CSV

Prediction

ecDNA Amplicon Predicted: Y

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

Predicted Genes on ecDNA

['AKIRIN1', 'BMP8A', 'BMP8B', 'CAP1', 'CITED4', 'COL9A2', 'CTPS1', 'EDN2', 'EXO5', 'FHL3', 'FOXO6', 'FOXO6-AS1', 'GJA9', 'GJA9-MYCBP', 'HEYL', 'HIVEP3', 'HPCAL4', 'INPP5B', 'KCNQ4', 'KIAA0754', 'MACF1', 'MFSD2A', 'MYCBP', 'MYCL', 'NDUFS5', 'NFYC', 'NFYC-AS1', 'NT5C1A', 'OXCT2', 'OXCT2P1', 'PABPC4', 'PABPC4-AS1', 'POU3F1', 'PPIE', 'PPIEL', 'PPT1', 'RHBDL2', 'RIMS3', 'RLF', 'RRAGC', 'SCMH1', 'SF3A3', 'SLFNL1', 'SLFNL1-AS1', 'SMAP2', 'SNORA55', 'TMCO2', 'TRIT1', 'UTP11', 'ZFP69', 'ZFP69B', 'ZMPSTE24', 'ZNF684', 'ACIN1', 'AJUBA', 'AKAP6', 'BAZ1A', 'BCL2L2', 'BCL2L2-PABPN1', 'BRMS1L', 'C14orf119', 'C14orf93', 'CDH24', 'CEBPE', 'CFL2', 'CMTM5', 'EAPP', 'EFS', 'EGLN3', 'FAM177A1', 'HAUS4', 'HOMEZ', 'IGBP1P1', 'IL25', 'INSM2', 'LMLN2', 'LRP10', 'MBIP', 'MHRT', 'MMP14', 'MRPL52', 'MYH6', 'MYH7', 'NFKBIA', 'NGDN', 'NKX2-1', 'NKX2-1-AS1', 'NPAS3', 'PABPN1', 'PPP1R3E', 'PPP2R3C', 'PRMT5', 'PRMT5-AS1', 'PRORP', 'PSMA6', 'PSMB11', 'PSMB5', 'PTCSC3', 'RALGAPA1', 'RBM23', 'REM2', 'RNF212B', 'SFTA3', 'SLC22A17', 'SLC7A7', 'SLC7A8', 'SNORA101B', 'SNORA89', 'SNX6', 'SPTSSA', 'SRP54', 'SRP54-AS1', 'THTPA', 'ZFHX2', 'CALHM4', 'CALHM5', 'CALHM6', 'DCBLD1', 'DSE', 'FAM162B', 'GOPC', 'GPRC6A', 'KPNA5', 'NT5DC1', 'RFX6', 'ROS1', 'RSPH4A', 'RWDD1', 'TPBG', 'TRAPPC3L', 'TSPYL1', 'TSPYL4', 'UBE3D', 'VGLL2', 'ZUP1']

Predicted Features

Class Amplicon Complexity Score
ecDNA 1 0.9916141238
Image 1

Class Amplicon Complexity Score
ecDNA 2 0.933610127
Image 2

Class Amplicon Complexity Score
ecDNA 2 1.357864067
Image 3

Class Amplicon Complexity Score
ecDNA 2 0.5092680375
Image 4

Class Amplicon Complexity Score
Linear amplification 3 0.6907122425
Image 5

Prediction

ecDNA: None


Prediction

Shatterseek Prediction: High Confidence

Shatterseek High Confidence Chromosomes: 13

Shatterseek Low Confidence Chromosomes: None