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Photo Gallery, last updated 4/10/2021
I was the lead developer of SomaticSeq at Bina Technologies (acquired by Roche). SomaticSeq a machine learning algorithm to detect somatic mutations in cancer sequencing. SomaticSeq has placed Bina No. 1 in INDEL and No. 2 in SNV in the Stage 5 of the ICGC-TCGA DREAM Somatic Mutation Calling Challenge. Our paper describing the method was an Editor's pick in Genome Biology (2015).
At Roche, I led the project to establish the high-confidence somatic mutation data and call sets for the pair of tumor-normal reference samples established by the FDA-led MAQC-IV/SEQC2 Consortium. This work was published in Fang LT et al. Nat Biotechnol 2021 / PMID:34504347 / SharedIt Link along with the SEQC2 Collection on Nature Biotechnology. The collection includes a commentary of the SEQC2 Consortium by FDA's then acting commissioner Dr. Janet Woodcock. The following are some of the use cases for this work:
A quick 8-minute video explaining SomaticSeq
Fang LT, et al. Genome Biol (2015)
Establishing reference samples and call sets for cancer mutation detection using whole-genome sequencing
1st place presentation award at the 2021 MCBIOS & MAQC Annual Meeting
Somatic Mutation Working Group of the SEQC2 Consortium
Fang LT, et al. Nat Biotechnol (2021) / PubMed / SharedIt
This is my resume.
My Web Pages Elsewhere:
I maintain two identical mirrors in two different locations:
(1) My refurbished desktop with Duo Core AMD A4-5300B with 16GB RAM re-purposed as a low-end home server,
(2) the UCLA Chemistry Department's server that I have user access to.