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Table 1 Summary of RNA-Seq samples

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

Sample name Sample description BRCA1mutation 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
  1. * See Lee et al. [58] for more details
  2. 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.