hESC transcriptome

  • This Human Embryonic Stem Cell
    (hESC, H1 cell line)
    transcriptome is identified by SpliceMap-LSC-IDP pipeline
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hESC transcriptome - H1 cell line

This website contains the data and the results in each section of our PNAS paper. You can click the section title to find the updated data, figures, tables and other results.

We keep optimizing the results by running the updated LSC and IDP. More and more reliable results will be updated. If you want to subscribe our update news, please contact Kin Fai Au: kinfaiau(at)gmail(dot)com

Latest publication

Kin Fai Au, Vittorio Sebastiano, Pegah Tootoonchi Afshar, Jens Durruthy Durruthy, Lawrence Lee, Brian A. Williams, Honoratus Van Bakel, Eric Schadt, Renee A. Reijo Pera, Jason Underwood, Wing Hung Wong
Characterization of the human ESC transcriptome by hybrid sequencing [preprint]
Proc. Natl. Acad. Sci. USA 2013 110 (50) E4821-E4830 [preprint]

SpliceMap-LSC-IDP pipeline

This hESC transcriptome is identified by SpliceMap-LSC-IDP pipeline.

SpliceMap takes short reads from the Second Generation Sequencing platforms, such as Illumina, to detect exon junctions.

LSC makes use of the high-quality short reads to correct the long reads from PacBio platform. The output is the error-corrected long reads.

IDP uses the junction detections and the alignment of error-corrected long reads to detect the relatively short isoforms at full-length and predict the very long isoforms by statistical modeling.

    

Latest News

11-26-2013: hESC transcriptome and IDP paper is released

Kin Fai Au, Vittorio Sebastiano, Pegah Tootoonchi Afshar, Jens Durruthy Durruthy, Lawrence Lee, Brian A. Williams, Honoratus Van Bakel, Eric Schadt, Renee A. Reijo Pera, Jason Underwood, Wing Hung Wong
Characterization of the human ESC transcriptome by hybrid sequencing

If you want to subscribe our update news, please contact Kin Fai Au: kinfaiau(at)gmail(dot)com.