title: cPAS-based sequencing on the BGISEQ-500 to explore small non-coding RNAs.
abstract: We present the first sequencing data using the combinatorial probe-anchor synthesis (cPAS)-basedBGISEQ-500sequencer. Applying cPAS, we investigated the repertoire of human small non-coding RNAs and compared it to other techniques.
  
  
  
  Starting with repeated measurements of different specimens including solid tissues (brain and heart) and blood, we generated a median of 30.1 million reads per sample. 24.1 million mapped to the human genome and 23.3 million to themiRBase. Among six technical replicates of brain samples, we observed a median correlation of 0.98. Comparing BGISEQ-500 to HiSeq, we calculated a correlation of 0.75. The comparability to microarrays was similar for both BGISEQ-500 and HiSeq with the first one showing a correlation of 0.58 and the latter one correlation of 0.6. As for a potential bias in the detected expression distribution in blood cells, 98.6% of HiSeq reads versus 93.1% of BGISEQ-500 reads match to the 10 miRNAs with highest read count. After using miRDeep2 and employing stringent selection criteria for predicting new miRNAs, we detected 74 high-likely candidates in the cPAS sequencing reads prevalent in solid tissues and 36 candidates prevalent in blood.
  
  
  
  While there is apparently no ideal platform for all challenges of miRNome analyses, cPAS shows high technical reproducibility and supplements the hitherto available platforms.
authors.affiliation: Clinical Bioinformatics, Saarland University, 66125 Saarbrücken, Germany.
authors.forename: Tobias
authors.initials: T
authors.lastname: Fehlmann
authors.affiliation: Department of Human Genetics, Saarland University, Saarbrücken, Germany.
authors.forename: Stefanie
authors.initials: S
authors.lastname: Reinheimer
authors.affiliation: BGI-Shenzhen, Shenzhen, China.
authors.forename: Chunyu
authors.initials: C
authors.lastname: Geng
authors.affiliation: BGI-Shenzhen, Shenzhen, China.
authors.forename: Xiaoshan
authors.initials: X
authors.lastname: Su
authors.affiliation: BGI-Shenzhen, Shenzhen, China ; Complete Genomics (a BGI company), Mountain View, CA USA.
authors.forename: Snezana
authors.initials: S
authors.lastname: Drmanac
authors.affiliation: BGI-Shenzhen, Shenzhen, China ; Complete Genomics (a BGI company), Mountain View, CA USA.
authors.forename: Andrei
authors.initials: A
authors.lastname: Alexeev
authors.affiliation: BGI-Shenzhen, Shenzhen, China.
authors.forename: Chunyan
authors.initials: C
authors.lastname: Zhang
authors.affiliation: Clinical Bioinformatics, Saarland University, 66125 Saarbrücken, Germany.
authors.forename: Christina
authors.initials: C
authors.lastname: Backes
authors.affiliation: Department of Human Genetics, Saarland University, Saarbrücken, Germany.
authors.forename: Nicole
authors.initials: N
authors.lastname: Ludwig
authors.affiliation: Department of Human Genetics, Saarland University, Saarbrücken, Germany.
authors.forename: Martin
authors.initials: M
authors.lastname: Hart
authors.affiliation: BGI-Shenzhen, Shenzhen, China.
authors.forename: Dan
authors.initials: D
authors.lastname: An
authors.affiliation: BGI-Shenzhen, Shenzhen, China.
authors.forename: Zhenzhen
authors.initials: Z
authors.lastname: Zhu
authors.affiliation: BGI-Shenzhen, Shenzhen, China ; Complete Genomics (a BGI company), Mountain View, CA USA.
authors.forename: Chongjun
authors.initials: C
authors.lastname: Xu
authors.affiliation: BGI-Shenzhen, Shenzhen, China.
authors.forename: Ao
authors.initials: A
authors.lastname: Chen
authors.affiliation: BGI-Shenzhen, Shenzhen, China.
authors.forename: Ming
authors.initials: M
authors.lastname: Ni
authors.affiliation: BGI-Shenzhen, Shenzhen, China.
authors.forename: Jian
authors.initials: J
authors.lastname: Liu
authors.affiliation: BGI-Shenzhen, Shenzhen, China.
authors.forename: Yuxiang
authors.initials: Y
authors.lastname: Li
authors.affiliation: BGI-Shenzhen, Shenzhen, China.
authors.forename: Matthew
authors.initials: M
authors.lastname: Poulter
authors.affiliation: BGI-Shenzhen, Shenzhen, China.
authors.forename: Yongping
authors.initials: Y
authors.lastname: Li
authors.affiliation: Clinical Bioinformatics, Saarland University, 66125 Saarbrücken, Germany.
authors.forename: Cord
authors.initials: C
authors.lastname: Stähler
authors.affiliation: BGI-Shenzhen, Shenzhen, China ; Complete Genomics (a BGI company), Mountain View, CA USA.
authors.forename: Radoje
authors.initials: R
authors.lastname: Drmanac
authors.affiliation: BGI-Shenzhen, Shenzhen, China.
authors.forename: Xun
authors.initials: X
authors.lastname: Xu
authors.affiliation: Department of Human Genetics, Saarland University, Saarbrücken, Germany.
authors.forename: Eckart
authors.initials: E
authors.lastname: Meese
authors.affiliation: Clinical Bioinformatics, Saarland University, 66125 Saarbrücken, Germany.
authors.forename: Andreas
authors.initials: A
authors.lastname: Keller
mesh_terms: D001769:Blood; D001923:Brain Chemistry; D020869:Gene Expression Profiling; D059014:High-Throughput Nucleotide Sequencing / Q000295:instrumentation* / Q000379:methods; D006801:Humans; D009206:Myocardium / Q000737:chemistry*; D020411:Oligonucleotide Array Sequence Analysis; D058727:RNA, Small Untranslated / Q000097:blood / Q000235:genetics*; D017423:Sequence Analysis, RNA / Q000379:methods*
chemical_list: D058727:RNA, Small Untranslated
keywords: BGISEQ; Biomarker discovery; Next-generation sequencing; miRNA