Table 2 Location of transposons in the genome of MDA-MB-231 clonal cell lines. Chromosome location (chromosome number and position, region type, strand, gene name, intron/exon, number of isoforms with the insertion, analyzed or not in the microarray, microarray probe and Clone vs MDA-MB-231 logFC in microarray analysis
From: The role of clonal communication and heterogeneity in breast cancer
Cell line | Chromosome | posL | posR | Type | Strand | Name | Relative location | Isoforms | N° isoforms with the insertion | Microarray analysis | Microarray probe | Clone vs MDA-MB231 logFC |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
MDA-MB-231 | – | – | – | – | – | – | – | – | – | – | – | – |
GFP C3 | 10 | 33,272,491 | 33,272,496 | Gene | Reverse | ITGB1 | Intron | 2 | 0 | Yes | TC1000010265.hg.1 | Non significant |
lncRNA | Forward | RP11-462 L8.1 | Intron | 2 | 0 | No | – | |||||
mKO E10 | 10 | 69,810,770 | 69,810,775 | Gene | Reverse | HERC4 | Intron | 8 | 2 | Yes | TC1000010831.hg.1 | Non significant |
10 | 71,001,553 | 71,001,558 | Gene | Forward | HKDC1 | Intron | 2 | 0 | Yes | TC1000007890.hg.1 | Non significant | |
10 | 41,117,156 | 41,117,161 | Gene | Reverse | PPP1R14D | Intron | 2 | 0 | Yes | TC1500009127.hg.1 | Non significant | |
Sapphire D7 | 5 | 170,347,638 | 170,347,643 | Gene | Forward | RANBP17 | Intron | 10 | 0 | Yes | TC0500009411.hg.1 | Non significant |
8 | 145,570,348 | 145,570,353 | Intergenic | – | – | – | – | – | Yes | – | Non significant | |
9 | 113,552,211 | 113,552,216 | Gene | Forward | MUSK | Intron | 3 | 0 | Yes | TC0900008415.hg.1 | Non significant | |
9 | 78,576,637 | 78,576,642 | Gene | Forward | PCSK5 | Intron | 3 | 0 | Yes | TC0900007618.hg.1 | Non significant | |
10 | 112,724,387 | 112,724,392 | Gene | Forward | SHOC2 | Exon | 5 | 3 | Yes | TC1000008908.hg.1 | Non significant | |
X | 106,242,426 | 106,242,431 | Gene | Reverse | MORC4 | Intron | 3 | 0 | Yes | TC0X00010459.hg.1 | 0.484 |