Getting more

Arlin StoltzfusResearch Biologist, National Institute of Standards and Technology

A project of the NESCent HIP (hackathons, interoperability, phyogenies) working group

THE PROBLEM

Tree-of-Life knowledge

• Mostly locked in pics• < 5% of trees archived • Hard to discover & access

Researchers, educators, & resource-providers who could use a good

species tree

?

What big-tree methods generateWhat users need

APG framework tree Fig. 5 from Butler & King, 2004

~ 5% TO 15% NON-STANDARD NAMES

Figure from Riek, 2011 Phylotastic tree after name corrections

Ovis ammon

Oreamnus americanus

Felis catus

Ovis aries

Oreamnos americanus

Felis silvestris

Species1Species2Species3

condition1condition2

Phylotastic

Species3

Species1

Species2

Sources & methods

Species1Species2Species3

condition1condition2

Phylotastic

Phylotastic

Goal: access to expert ToL knowledge that is convenient – much easier than DIY tree computable – logically encoded trees (not

pics) credible – useable in a scientific paper

HIP HACKATHONS

HIP Leadership Team

Participants

Phylotastic.org demos pruner

ANNOTATING SOURCE TREESusing a formal ontology

See Hilmar Lapp’s lightning talk

TNRS

Oreamnos americanus

Oreamnus americanus: No exact match

DATELIFE.ORG

The other kind of Dating with Fossils

Ask Brian O’Meara, Tracy Heath, or Klaus Schliep

-- scales trees by reference to prior calibrations

Dating with Fossils

Julie Allen (software bazaar)

Reconciled Tree (red=duplication, green=speciation)

PHYLOTASTIC.ORG

Questions? Ask Arlin or email to arlin@umd.edu

Work in progress

THANKS! www.phylotastic.or

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HIP Leadership Team

Participants