Identification of gene fusion transcripts by transcriptome sequencing in BRCA1-mutated breast cancers and cell lines

Table 1 Summary of RNA-Seq samples

Sample name	Sample description	*BRCA1*mutation	Sequencing strategy
HCC1937	Cell line	5266dupC	SE
SUM149PT	Cell line	2769delT	PE
SUM1315O2	Cell line	30_31delAG	PE
HCC3153	Cell line	815_824dup	PE
T92	Primary tumor	5266dupC	PE
T50	Primary tumor	4327C>T	PE
T160	Primary tumor	5521A>C*	PE
HCC2337	Lymphocyte cell line	5266dupC	PE
MCF10A	Non-tumorigenic breast epithelial cell line	-	PE
SEC1	Primary tumor	-	PE
SEC2	Primary tumor	-	PE

* See Lee et al. [58] for more details
Ten breast cancer samples (eight with known germline BRCA1 mutations and two secretory breast cancers) and one non-tumorigenic breast epithelial control was sequenced using the Illumina Genome Analyzer IIx. Only HCC1937 was sequenced using a single-end (SE) strategy, while the rest was sequenced using paired-end (PE). The cell line HCC2337 is a lymphocytic cell line derived from the same patient as HCC1937. Known BRCA1 mutations are based on RefSeq accession NM_008294.3.

ISSN: 1755-8794