Wanted – info on workshops in and around Northern California on bioinformatics & genomics

I have been asked by multiple students about this topic and figured I would just put it out there.  I am trying to compile information  on workshops and short courses on topics relating to genomics or bioinformatics that are in the general area of Northern California (you know, Davis, Sacramento, SF, Berkeley, Stanford, Santa Cruz, etc).  This would include using specific tools (e.g., R, Galaxy, QIIME, and more) and specific fields (e.g., ecology, microbiology, genetics, plant biology).  Any information would be appreciated.

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Meeting announcement: “Modeling the Spread and Control of Ebola in W. Africa”, Atlanta, GA, Jan 22-23, 2015

Of possible interest:

Modeling the Spread and Control of Ebola in W. Africa
Historic Academy of Medicine @ Georgia Tech
Atlanta, GA, USA
Jan 22-23, 2015

Website: bit.ly/ebm_gt

Please see attached for an image and pdf meeting flyer. The organizing committee includes Pinar Keskinocak and Fred Vannberg from Georgia Tech, as well as Rustom Antia (Emory), John Drake (UGA), Jonathan Dushoff (McMaster), John Glasser (CDC) and Lauren Meyers (UT-Austin).

The meeting will begin at 8:30am on Jan 22 and conclude by 1:30pm on Jan 23. Note that there is a $50 registration fee for all participants before Jan 8, 2015. This fee includes access to all events, as well as breakfasts, lunches and coffee breaks for the 1.5 day meeting.

We have a maximum capacity of 200 individuals on-site. We also expect to be able to offer travel awards targeted to young researchers and participants from developing countries – preference will be given to those who intend to present a poster at the meeting.

Please distribute to colleagues, questions should be addressed to:



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Call for Participant Applications: Sustaining Biological Infrastructure

Of possible interest …

Dear NSF Division of Biological Infrastructure Principal Investigator:

The Ecological Society of America (ESA) announces the training course “Sustaining Biological Infrastructure (SBI): Strategies for Success – A Short Course for Project Directors.” Please see the call for applications below for more details about the course and how to apply. We hope that this course will be of particular interest to you and your colleagues. If you have any questions please contact us!

The SBI Team

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Cool opportunity: Postdoctoral Scholar: Disease transmission in societies


Postdoctoral Scholar: Disease transmission in societies

Campus/Location: University Park Campus Date Announced: 11/27/2014

Work Unit: College of Agricultural Sciences Job Number: 54802

Department: Entomology

The laboratories of Drs David Hughes, Ephraim Hanks and Matt Ferrari are seeking a Postdoctoral Scholar. This position is in collaboration with the lab of Dr Shweta Bansal at Georgetown University, another position is available at Georgetown University, and funded by the NSF-NIH-USDA-BBSRC Ecology and Evolution of Infectious Disease (EEID) Program. The position is available in the Centre for Infectious Disease Dynamics (www.cidd.psu.edu), The Pennsylvania State University, University Park Campus.

The Postdoctoral Scholar position at Penn State involves the development of mathematical models to understand the transmission of diverse agents inside ant colonies. These agents range from beneficial agents such as food to agnostic agents like beads to detrimental agents such as parasites. The position is a mixture of both theoretical work and empirical work (with ant colonies in a lab setting). Possibilities for both field work and molecular work exist. We are seeking expertise in compartmental models of disease spread and statistical and agent-based models of animal behavior. Candidates should demonstrate a track record of publication; have strong organizational, written, and oral communication skills; and be able to work both independently and as part of a collaborative team. For further information, please feel free to contact Dr Hughes (dph14; +1 814- 863-6073). Interested applicants should submit a curriculum vitae, a 1-2 page statement of research interests that explicitly describes professional qualifications for this position, and contact information for three referees. Review of applications will begin immediately, and continue until a suitable candidate is found.

David Hughes: Hughes, is a behavioral ecologist who has studied social insects and their diseases in 11 countries on 5 continents. He has worked with diverse diseases as well as the behavior of healthy and infected ants under field (rain- and temperate forests) and laboratory conditions. www.hugheslab.com

Ephraim Hanks: Hanks is a spatial statistician and has worked extensively in the modeling of animal movement and connectivity. He has studied the spatial spread of disease in black spruce and mule deer, and the spatial properties of random walk models on networks. http://sites.psu.edu/hanks/

Matt Ferrari: Ferrari is a computational epidemiologist and statistician who has worked extensively on the analysis of time-series surveillance data to predict epidemic dynamics and evaluate management interventions. http://theferrarilab.com/

Shweta Bansal: Bansal is a network epidemiologist and has worked extensively on the effects of immunity on network structure and disease dynamics. She is studying infectious disease-related network structure in several wildlife populations including Australian bottlenose dolphins and Mojave Desert tortoises. Bansal is based in Georgetown University which is 3.5hrs drive away.http://bansallab.com/

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California Council on Science and Technology – CCST S&T Policy Fellowship Applications Open

Just received this from the Moore Foundation

Dear Friends and Colleagues,

Please help us spread the word!

We have opened up the application period for the 7th year of CCST Science and Technology Policy Fellowship (see below) that places professional scientists and engineers in the California State Legislature for one-year appointments. We greatly appreciate your help spreading the word about the fellowship program to your colleagues at academic institutions with doctoral programs as well as federal state, and industry labs, alumni organizations and professional scientific organizations. Please forward this email to anyone you feel would be interested in the CCST Science and Technology Policy Fellowship.

The Fellowship program is proving to be an extraordinarily effective way of bridging the science and policy communities. Fellows are actively engaged in the most important policy issues being addressed in California. Energy, healthcare, water, business climate, conservation, security—you name it and we can point to a current or former Fellow in Sacramento working on the topic. See attached for the current cohort of fellows who just began their one-year fellowship.

Applications are due February 28, 2015.

Learn more here: ambermace or (916) 492-0996.





Offered by the California Council on Science and Technology (CCST), the CCST Science and Technology Policy Fellowship places professional scientists and engineers in the California State Legislature for one-year appointments. The program is designed to enable Fellows to work hands-on with policymakers in addressing complex scientific issues as well as assume all the other legislative responsibilities of full-time legislative staffers. The Legislature benefits from having the expertise of a trained Ph.D.-level scientist, who brings significant analytical, problem solving, research, and communication skills applied through the lens of the scientific method and the Fellows gain an invaluable, hands-on learning experience about the intersection of science, technology, and policy.

Building on the successful and highly acclaimed national model of the Science and Technology Policy Fellowships offered by the American Association for the Advancement of Science (AAAS) in the federal public policy arena, the CCST Science and Technology Policy Fellowship creates a similar interface in the California Legislature. The fellows learn the intricacies of the California legislative process and serve as fulltime legislative staff to provide recommendations, answers to technical questions, and clarification of policy options for a wide variety of issues, including those with science and technology related attributes.

Please explore our website to learn more about the CCST Science and Technology Fellowships and to complete the application and instructions.

Year 6 CCST S&T Fellows[2].pdf

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Today at #UCDavis: Zach Lewis on “Influences on the Infant Intestinal Microbiome”

MIC 291: Selected Topics in Microbiology

Work-in-Progress Seminars

Zachery Lewis
Exit Seminar
(Mills Lab)

"Influences on the Infant Intestinal Microbiome"

Wednesday, December 10, 2014

4:10 pm

1022 Life Sciences

Host: Prof. John Roth, Dept. of Microbiology & Molecular Genetics

Lewis 12-10-14.doc

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PhD Opportunity in Birmingham, UK on the ‘Omics of oil spills w/ @hollybik

Just got this by email from Holly Bik who was a PostDoc in my lab until a few months ago ..
Dear Colleagues,

I wanted to bring to your attention a PhD opportunity in my group at the University of Birmingham, UK – apologies for any cross-posting:

Using ‘omic methods to determine how sediment communities of microbial eukaryotes respond to oil spills and environmental disturbance -http://www.findaphd.com/search/ProjectDetails.aspx?PJID=59530&LID=124

The focus of the project would span both shallow-water and deep-sea sediments, including natural hydrocarbon seeps and locations impacted by the 2010 Deepwater Horizon oil spill. The project would be ideal for candidates looking to develop skills in bioinformatics and computational biology.

This studentship is available to UK and EU candidates that meet NERC’s requirements for both academic qualifications and residential eligibility (http://www.nerc.ac.uk/funding/application/studentships).



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Faculty position – Integrative Genetics – University of Akron

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Talk at #UCDavis 12/11 by Evelyn Lincoln “Publication Anxiety in Early Modern Italy”

Please join Innovating Communication and Scholarship (ICIS), the Center for Science and Innovation Studies (CSIS), and Science and Technology Studies for a lunchtime event with Evelyn Lincoln on:

Publication Anxiety in Early Modern Italy

When: Thursday December 11th from 12:10 – 1:30 PM

Where: Room SS&H 1246 (STS /CSIS Room)

Discussant: Alessandro Delfanti

Lunch provided. Please RSVP if you plan to attend.

Abstract: Publishing a book in

early modern Rome meant braving the Inquisition and the difficulties of

Renaissance business relationships to enter a conversation taking place

in print that was often less than civil.

Authors worried about being accused of claiming to be more

knowledgeable than they really were. On the other hand, they also

actually may have been presenting themselves as something they were not,

and worried about being found out. Some authors found themselves

with time on their hands as their books languished in the presses,

encouraging them to pen long blaming screeds against the publishers who

were forced to include them in the finished book. Strategies for

managing publication anxiety on the part of both publishers

and authors were inventive, original, and different in every book, and

they came to shape the combative and dialogical character of late

sixteenth-century Roman book printing.

Evelyn Lincoln is Professor of the History of Art & Architecture and Italian Studies at Brown University. Her first book,

the Invention of the Italian Renaissance Printmaker (Yale, 2000) traced the careers of pictorial printmakers in Italy in the first century of its development. Brilliant Discourse. Pictures and Readers in Early Modern Rome (Yale, 2014) looks at the role played by the publication of

illustrated technical manuals in forming networks of printers,

publishers, artists and patrons, all of whom were also readers. Her

research investigates knowledge networks formed through making

and using pictures in the early modern world.

After you RSVP, you will be emailed with the paper to be discussed.

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Talk at #UCDavis 12/2: Parasite manipulation of host phenotype: mechanisms, behavior, ecology, and evolution

Kelly Weinersmith

Exit seminar Tuesday (Dec 2nd) at 9AM in 2120J Wickson Hall.

"Parasite manipulation of host phenotype: mechanisms, behavior, ecology, and evolution."

Exit Seminar Flyer Weinersmith.pdf

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