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davidcoffey - Physician Scientist
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Open to new opportunities

davidcoffey

Physician Scientist
Fred Hutchinson Cancer Research Center • Seattle • United States of America

Skills and expertise

Fields of interest
  • Immune system analysis
  • WES analysis
  • RNA-seq analysis
Languages
  • English
Programming languages
  • R

TOOLS MAINTAINED

LymphoSeq

Desktop

LymphoSeq

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Allows analysis of high-throughput sequencing (HST) of T and B cell receptor complementarity determining region 3 (CDR3) sequences. LymphoSeq performs multiple sequence alignment of all amino acid or…

Fields of interest

Immune system analysis
Provides several applications based on a Bayesian Markov Chain Monte Carlo…
Determines interaction between T cell receptors (TCRs) and peptides presented…
Predicts T-cell epitopes within an input antigen sequence, restricted to a…
WES analysis
Allows copy number variation (CNV) detection. iCNV can be applied in whole…
Annotates and filtrates variant files. VarAFT allows the comparison of several…
Analyzes structural variants (SVs) and allele-specific copy numbers of genomic…
RNA-seq analysis
Provides an online platform for normalization, calculation of performance…
Allows detection of collaborative transcription factor pairs. MMARGE consists…
Permits to reconstruct transcriptional regulatory networks. TReNA uses gene…