Joe Felsenstein

For my contact information and email address, see my CV.
  • In the issue of Nature published on 29 October 2014, they published a list of the top 100 most-cited scientific papers of all time. My 1985 bootstrap paper was #41. Overall 5 of the 100 were in phylogenetics (Saitou and Nei's 1987 paper on the Neighbor-Joining method was #20). There were also a number of bioinformatics papers, with papers on ClustalW and BLAST being #10 and #12, respectively.


    Ufeus felsensteini
      Bruce Walsh, of the University of Arizona, has named a species of small noctuid moth found in Arizona's Santa Catalina Mountains after me. It probably eats cottonwood leaves. For the paper describing it, see here.
   Books, etc.:
  Scientific papers:
  • Links to published papers (some viewable freely) will be found in the publications list in my C.V.
  • For papers since 1990, versions will be found here, many of them being preprint versions.
  • Courses I teach at the University of Washington (in each case the most recent course web page is linked to). Many have audio recordings of lectures and viewable PDFs of slides.
  • Summer courses I teach in regularly. (Lecture projections and audio recordings are available for some of these).:
    • Summer Institute in Statistical Genetics (in Seattle), module on Molecular Phylogeny, taught jointly with Mark Holder and Jeffrey Thorne. (Jeff, Mark, and I did not teach this in 2015, but we are teaching this year).
    • Workshop on Molecular Evolution, Marine Biological Laboratory, Woods Hole, Massachusetts. (This year I will not be lecturing in this Workshop).
    • Tutorial on Evolutionary Quantitative Genetics at the National Institute for Mathematical and Biological Synthesis, Knoxville, Tennessee, which I codirect with Stevan Arnold. (This year I was not be present but gave several talks by video link. That included being present in the group photo of the course -- I was there in real time and could see the camera's flash.)
  Videos: Links to videos of some lectures I have given:
  • At Microsoft Research in December, 2007 in a workshop on “Computational Aspects of Biological Information”, a lecture on “Reconstructing Phylogenies: How? How Well? Why?,” At the link you will be able to access the video in two formats, the audio recording in two formats, and the slides in two formats. If you want a clearer view of the slides, here they are as a PDF.
  • Systematics Association Julian Huxley Lecture, July 2008, auditorium of the Linnean Society, London. Richard Bateman is in the chair. At that web page you will also find the projection slides, which can be downloadable as a PDF. Here is the same video on Youtube. This talk covers the use of threshold models for discrete 0/1 traits and use of fossil species in model-based frameworks.
  • Lecture at 500th Convocation of the University of Chicago, (also available at Youtube here) October, 2009 (the sound for Marty Kreitman's introduction breaks up, but the rest of the sound is clear). If you want a clearer view of the projection slides, here they are as a PDF. This talk argues that the separate lines of work on within-species molecular population genetics and between-species molecular evolution are now merging in a major event, a Grand Reunion.
  • Evening at the Genome lecture in Seattle on 28 July 2010 in the Genome Sciences epartment public lecture series, on “Mitochondrial Eve and Y-chromosome Adam: Who do your genes come from?”  Video is in two parts. For greater clarity, here is a PDF of the slides.
  • A web talk on 24 January 2011 on the subject “What poultry breeders and guinea pigs have to tell us about statistical nonmolecular phylogenetics”, in Erick Matsen's interesting series of talks by various people working on phylogenies. It is available also in its original format, which uses Java and may require too much memory on your machine.
  • Mary Kuhner interviews me in the Distinguished Faculty Interview Series of our department on 5 June 2012. I ran over, which I can't say surprised anyone.
  • The Japanese television clip showing me receiving the International Prize for Biology on 18 November 2013, making some remarks, and Joan and I greeting the Emperor and Empress.
  • I gave a talk on "A Brief History of Computational Phylogenetics" on 4 August, 2016 in Erick Matsen's "phyloseminar" series of online talks. Video of the talk and of the discussion on YouTube here. (The sound gets a little disconnected from the image in the part at the end where you can see me talking).
  Disputation: Here are some postings by me on blogs regarding arguments by advocates of Intelligent Design or creationism:
          on the Panda's Thumb blog
          on the Skeptical Zone blog
  Silliness: The Amphioxus Song web page.
A video of me singing the Amphioxus Song (a Quicktime movie) shot by Anna Malaspinas at the 2010 annual retreat of the Bioinformatics and Computational Biology Program of the University of California, Berkeley, which was held at the Marconi Center, Marshall, California.
Another performance at the Workshop on Molecular Evolution at the Marine Biological Laboratory in Woods Hole, Massachusetts in 2011, thanks to Casey Dunn.
The 2013 performance which had more wind noise, me temporarily skipping a verse, but at least no mosquitos.
The 2015 performance which had no wind noise but I still had to be reminded of verses.
  Cool: Some cool stuff that should be better known.
  Rants: Some rants and diatribes that Joe often comes up with. They are gradually being accumulated here.
  Old:Older stuff that is less important is linked on this web page.

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