Dan Baggott

Software engineer. Empiricist. Simplifier.

Things I’ve built, a few things I’ve written, and the papers from my years in biology research.

Projects

Landfall

Web app

A map for listings posted at a location. Screen the candidates, see where they are, and plan the drive to the ones worth a visit.
Sweet Land Math

Game

Grow a field of crops by practicing times tables, harvest them, and build a community with what you sell.
Oasis SMP

Minecraft server

A hosted Paper server that Java and Bedrock players share, with its image, plugins and config in the open.
claude-plugins

Claude Code plugins

A workflow for agent sessions: every change through a worktree and a draft PR, issues written to survive a cold handoff, and an independent bot reviewing before a human merges.
aws-use

Command-line tool

Switch AWS SSO accounts and roles fast, across several SSO sessions at once, and set the profile in your current shell.
git-tidy

Command-line tool

A git subcommand that deletes branches whose work has already landed, removes their worktrees, fast-forwards the default branch and runs git gc.

Comparative analysis of chicken chromosome 28 provides new clues to the evolutionary fragility of gene-rich vertebrate regions

Gordon L, Yang S, Tran-Gyamfi M, Baggott D, Christensen M, Hamilton A, Crooijmans R, Groenen M, Lucas S, Ovcharenko I, Stubbs L. 2007. Genome Research 17(11): 1603–13.
A comprehensive catalog of human KRAB-associated zinc finger genes: Insights into the evolutionary history of a large family of transcriptional repressors

Huntley S, Baggott DM, Hamilton AT, Tran-Gyamfi M, Yang S, Kim J, Gordon L, Branscomb E, Stubbs L. 2006. Genome Research 16(5): 669–677.
Evolutionary expansion and divergence in the ZNF91 subfamily of primate-specific zinc finger genes

Hamilton AT, Huntley S, Tran-Gyamfi M, Baggott DM, Gordon L, Stubbs L. 2006. Genome Research 16(5): 584–594.
The yeast clathrin adaptor protein complex 1 is required for the efficient retention of a subset of late Golgi membrane proteins

Valdivia RH, Baggott D, Chuang JS, Schekman RW. 2002. Developmental Cell 2(3): 283–94.
Repression of yeast Ste12 transcription factor by direct binding of unphosphorylated Kss1 MAPK and its regulation by the Ste7 MEK

Bardwell L, Cook JG, Voora D, Baggott DM, Martinez AR, Thorner J. 1998. Genes & Development 12(18): 2887–2898.
Cloning, sequencing and expression of a full-length cDNA copy of the M1 double-stranded RNA virus from the yeast, Saccharomyces cerevisiae

Russell PJ, Bennett AM, Love Z, Baggott DM. 1997. Yeast 13(9): 829–36.