Lab News

2018

November

Sarah Hilton's paper examining how site-specific models affect phylogenetic estimates of divergence times is published in Virus Evolution.

October

Tyler Starr joins the lab as a postdoc supported by a WRF fellowship.

September

Sarah Hilton is one of a small number of graduate students worldwide who is invited to attend the Heidelberg Laureate Forum.

Hannah Itell joins the lab as a MCB rotation student.

August

Juhye Lee's paper (in collaboration with the Bedford lab) on using deep mutational scanning to understand the evolution of human influenza in nature is published in PNAS. The Hutch writes a nice news story about the work.

We hold our second annual joint-lab retreat at Sahalie Lodge. This year we are joined by the Harms lab, the Harris lab, and the Barber lab. Check out the group photo!

July

Our collaboration with the Vaccine Research Center (led by Adam Dingens) to functionally map vaccine-elicited antibodies to HIV is published in PLoS Pathogens.

June

MCB graduate student Caelan Radford joins the lab.

May

Katherine Xue receives the James F. Crow Early Career Award award at PEQG18.

Heather Machkovech defends her thesis!

Juhye Lee has been awarded a F30 from the NIAID to support her thesis project "Comprehensive antigenic mapping of seasonal influenza viruses."

April

Sarah Hilton is selected to attend the 6th annual Heidelberg Laureate Forum.

Mike Doud and Juhye Lee's complete mapping of escape mutations to strain-specific and broadly neutralizing anti-H1 influenza hemagglutinin antibodies is published in Nature Communications

Lauren Gentles receives a NSF Graduate Fellowship!

All the hard work on travel grant applications to conferences pays off! Lauren Gentles, Kate Dusenbury, Shirleen Soh, and Alistair Russell all receive travel grants to the ASV meeting. Sarah Hilton receives a SPAC travel grant to attend the SMBE meeting.

March

Hugh Haddox and Adam Dingens publish in eLife a comparative study of the effects of mutations to the Env proteins of two different HIV strains.

Katherine Xue receives the Weintraub Graduate Student Award!

Juhye Lee presents her work at the Influenza Epidemiology and Evolution workshop in Hanoi, Vietnam.

Undergrad Noah Cassidy is awarded a Mary Gates Scholarship for his work with Jeremy Roop in our lab and the lab of Julie Overbaugh.

Allie Greaney joins the lab as an MD/PhD student.

February

Alistair Russell's paper using single-cell mRNA sequencing to look at influenza-infected cells is published in eLife.

Katherine Xue's review on within-host evolution of human influenza is published in Trends in MicrobiologyCheck out the cool figures!

January

Katherine Xue's paper reporting an absence of cooperating flu viruses in clinical samples is published in mSphereDirect. See also the nice article by Rachel Tompa.


2017

December

Adam Dingens is selected to speak at the Norm Letvin Early Career Investigator Session of the CAVD meeting.

October

Jacob Kowalsky is awarded a Washington Research Foundation (WRF) Undergraduate Research Fellowship to support his work in the lab.

August

Jeremy Roop is awarded a Damon Runyon postdoctoral fellowship.

Hugh Haddox defends his thesis, giving a great seminar!

Joint lab retreat with the Bedford and Hensley labs at Sahalie Lodge in July
Joint lab retreat with the Bedford and Hensley labs at Sahalie Lodge in July

July

Sarah's paper describing the phydms software package is published in PeerJ.

Our lab holds a joint-lab retreat with the Bedford and Hensley labs at Sahalie Lodge. Lots of great talks and hiking!

June

Katherine's paper on influenza virus evolution within infected humans is published in eLife. She also wrote a broader-interest account of the work for The Conversation, and there is press coverage in The Atlantic and WIRED.

Adam's paper on comprehensively mapping HIV's escape from antibodies is published in Cell Host and Microbe. There is also a nice accompanying preview article.

We welcome three new lab members for the summer: Allie Greaney (rotation student), Alexandria Wilson (undergraduate), and Rachel Eguia (post-bac student in the UW PREP program).

The Baker lab's cool work on designing influenza-binding proteins is published in Nature Biotechnology. We helped out a tiny bit with this work.

April

Katherine gives a great public lecture on "How Flu Evolves in You" at the University of Washington's Engage Program.

March

Orr Ashenberg's paper on mapping sites in influenza nucleoprotein that affect sensitivity to MxA is published in PLoS Pathogens.

Mike Doud's paper on complete mapping of antibody escape is published in PLoS Pathogens on March 13 -- the same day that he defends his thesis. Congratulations Mike!

Jacob Kowalsky is awarded a Mary Gates Scholarship to support his undergraduate reserach in the lab. Congratulations to both Jacob and his mentor Alistair.

January

Jesse's paper on leveraging deep mutational scanning to improve the detection of positive selection in natural sequences is published in Biology Direct.


2016

December

Hugh Haddox's tour-de-force deep mutational scanning of HIV's envelope protein is published in PLoS Pathogens!

November

Adam Dingens receives a Young Investigator Scholarship to present at CROI 2017 the research that he has been performing in the Bloom and Overbaugh labs.

Jeremy Roop joins the lab as a postdoc. Jeremy is a joint-advised by the Overbaugh and Bloom labs. He completed his PhD at Berkeley, working with Rachel Brem.

September

Katherine Xue receives the Parker Travel Award for the best graduate student presentation at the Genome Sciences department retreat.

August 

Mike Doud wins the award for the best abstract in virology and pathogenesis at the Options for Control of Influenza IX meeting.

July

Danny Lawrence (an MD/PhD student and Genome Sciences graduate student) joins the lab.

June

Our lab's research is featured in a news article on evolution in Science News.

Mike's paper on improved deep mutational scanning of influenza hemagglutinin is published in Viruses.

Sarah Hilton (a Genome Sciences graduate student) joins the lab.

Shirleen Soh has been awarded a Damon Runyon Foundation postdoc fellowship

March

Katherine's paper on cooperating influenza viruses is published in eLife. Her paper receives extra coverage here and here

Sarah Hilton (a first-year Genome Sciences student) joins the lab for the next few months as a rotation student.

January

Jolie Carlisle (a first-year Genome Sciences student) joins the lab for the next few months as a rotation student.


2015

October

Shirleen Soh joins the lab as a postdoctoral fellow. Shirleen is supported by a Mahan Fellowship from the Computational Biology Program at the Hutch. She comes to the lab after completing her PhD with David Page.

Anja Ollodart (a first-year MCB student) joins the lab for the next few months as a rotation student.

August

Heather's paper demonstrating selection in CD8+ T-cell epitopes of human influenza nucleoprotein is published in the Journal of Virology.

July 

Mike and Orr's paper that uses deep mutational scanning to compare the site-specific amino-acid preferences of two protein homologs is published in MBE.

We bid Alec Heckert farewell as he heads off to Berkeley to begin his PhD.

Katie Hooper successfully defended her thesis in June 2015, becoming the first Bloom Lab Ph.D. graduate
Katie Hooper successfully defended her thesis in June 2015, becoming the first Bloom Lab Ph.D. graduate

June

Katie Hooper defends her thesis, becoming the first Bloom lab PhD graduate!

Jai Padmakumar recieves a Microbiology Undergraduate Research Fellowship for his work in the lab (mentored by Orr Ashenberg)

Genome Sciences graduate student Katherine Xue joins the lab; she will be joint-advised by Josh Akey.

Jesse is named a Pew Scholar

Jesse is awarded a Burroughs Wellcome Young Investigator in the Pathogenesis of Infectious Diseases grant.

May

Congratulations to Alistair Russell, who has been awarded a Damon Runyon Foundation postdoc fellowship.

Congratulations to graduate student Hugh Haddox, who has been awarded a spot on the CMB Training Grant.

Congratulations to graduate student Heather Machkovech, who has been awarded a spot on the Viral Pathogenesis Training Grant.

Congratulations to Berkeley-bound Bloom lab undergraduate Alec Heckert, who has been awarded the University of Washington Chemistry Department's Award for Distinguished Research in Chemistry for work he did in the Gabriele Varani lab prior to joining the Bloom lab.

April

Congratulations to Genome Sciences rotation student Hannah Pliner, who has been awarded an NSF Graduate Research Fellowship.

Congratulations to Genome Sciences rotation student Katherine Xue, who has been awarded a Hertz Fellowship.

March

Congratulations to undergraduates Alec Heckert and Khrystyna Dilai, who have matriculated for graduate school at the Berkeley MCB and University of Washington Genome Sciences programs, respectively.

February

Jesse is awarded the 2015 Young Investigator Prize in Virology.

January

Katie Hooper's second paper on influenza viruses that use neuraminidase as the receptor-binding protein is published in the Journal of Virology.

Katie Hooper is selected as an invitee to present her work at the St. Jude National Graduate Student Symposium.


2014

November

We bid Bargavi Thyagarajan farewell as she heads to New York to begin work at the HIV Vaccine Enterprise after a very productive postdoc.

Our lab makes a small contribution to the Hensley lab's excellent study in PNAS showing how original antigenic sin might help explain the high rate of pdmH1N1 infections in middle-aged adults during the last flu seasion.

October

Our lab contributes to a perspective article in eLife on assessing influenza pandemic risk.

September

Alistair Russell joins the lab as a postdoc.

July

Bargavi's paper on using deep mutational scanning to profile the inherent mutational tolerance and antigenic evolvability of influenza hemagglutinin is published in eLife.

Jesse's paper that applies experimentally informed evolutionary models to beta-lactamase is published in Molecular Biology and Evolution.

Bloom and Fowler labs get a shout-out on Safeco Field scoreboard
Bloom and Fowler labs get a shout-out on Safeco Field scoreboard

June

Every lab gets its 15 seconds of fame! The Bloom and Fowler labs take a joint trip to the ballpark. The Mariner's lose the game, but the labs get a shout-out on the scoreboard.

May

Mike is awarded a spot on the Viral Pathogenesis Training grant

Jesse's paper on experimentally determined evolutionary models in phylogenetics is published in Molecular Biology and Evolution

Ian's paper on epistasis and adaptation is published in PLoS Genetics

April

Katie's collaboration with Aeron Hurt's group is published in PLoS Pathogens

Adam is awarded an NSF Graduate Fellowship

Former Bloom Lab undergraduate Donna Leet is awarded a Goldwater Scholarship


2013

December

Orr receives PhRMA Foundation Post Doctoral Fellowship in Informatics

OrrIan, and Jesse's paper on the evolutionary conservation of mutational effects on protein stability is published in PNAS

September

Katie's paper on an influenza virus that uses neuraminidase to bind to cells is published in Journal of Virology

Center News | Researchers discover a new way that influenza can infect cells: Study may have implications for immunity against flu

August

Katie is named one of the top two TAs for the entire University of Washington School of Medicine for her TA-ing efforts in the Spring of 2013

Hugh is awarded a position on the Molecular Biophysics Training Grant

Ari and Donna present at the Summer Undergraduate Research Program Poster Session. Donna wins Best Poster Design Award.

July

Scientific American story on cryptic mutations discusses Bloom Lab's work

Mike Doud, a UW Genome Sciences graduate student, joins Bloom Lab

June

Hugh Haddox, a UW MCB graduate student, joins Bloom Lab

May

Katie is awarded a position on the Cell and Molecular Biology Training Grant

Orr and Hugh are awarded scholarships to attend the Summer Institute in Statistics and Modeling of Infectious Diseases

Bloom Lab publishes its first paper in eLife

April 

Donna wins Amherst College's William C. Young prize, awarded annually to a single student from the Biology Department to undertake a summer course or research

February

Orr Ashenberg, a new post-doc, joins Bloom Lab

Orr receives PhRMA Foundation Post Doctoral Fellowship in Informatics
Orr receives PhRMA Foundation Post Doctoral Fellowship in Informatics
Jesse Bloom and Katie Hooper
Jesse Bloom and Katie Hooper
Ari and Donna present at the Summer Undergraduate Research Program Poster Session.
Ari and Donna present at the Summer Undergraduate Research Program Poster Session.

2012

September

Bloom Lab is awarded its first R01 grant (1R01GM102198-01)

July

Jesse is awarded a Creative and Novel Ideals in HIV Research (CNIHR) grant from the International AIDS Society. The CNIHR initiative, which totals $5 million, will fund 12 research projects for up to two years

June

Katie Hooper, a UW MCB graduate student, joins Bloom Lab

April

Jesse is named one of 15 Searle Scholars for 2012 and awarded $300,000 for the next three years

February

Center News | Jesse Bloom's $50,000 award supports molecular evolution research of proteins and viruses

Jesse is awarded the 2012 Sloan Research Fellowship for early-career scientists and scholars of outstanding promise


2011

October

Center News | How H1N1 flu escaped Tamiflu: Dennis Chao, Jesse Bloom and colleagues map global spread of mutated, drug-resistant influenza

Bargavi Thyagarajan, a new post-doc, joins Bloom Lab

September

Ian wins program cover design competition for the 2011 Basic Sciences Retreat

July

Center News | Evolutionary biologist Bloom joins Center: Basic Sciences and Public Health Sciences divisions’ Jesse Bloom brings protein evolution, computational expertise to stimulate broad cross-disciplinary research

Quick takes: Jesse Bloom