6/10 at #UCDavis: Workshop on “The Social Life of Medical Data”

The Social Life of Medical Data

A one-day workshop on sharing, pooling and appropriating medical information


Wednesday, June 10, 10 am to 5 pm
UC Davis campus (location TBA)

Once digitized, medical information – such as data, images, standards, and codes – travels across different spaces and communities. Smartphones produce and transmit data coming from our bodies, which is shared and discussed in social media platforms and then gathered and analyzed in data centers. Medical information intended for professional use can be appropriated, circulated and used to create communities of caring or participate in biomedical research. At the same time new power asymmetries can emerge, as public institutions and private corporations claim control over increasingly valuable health data.

In this one-day workshop we will analyze the trajectories of digitized medical data. We will discuss how patient communities, care providers, social activists, governments and corporations are designing, fostering and managing alternative approaches to healing and increasingly look towards open source, distributed, and participatory research to do this. Data created from bodies has the potential to expand our understanding of health-related research and scholarly communication practices.

In addition, we will explore different ways of including patient communities in participatory design of tools that assist in the management and analysis of health data. We aim to foster a discussion amongst anthropologists, media scholars and biomedical researcher about the emergent forms of sociality and the politics of health and illness in our digital era.

Speakers include:

Nick Anderson, UC Davis
Carlos Andres Barragan, UC Davis
Dav Clark, UC Berkeley
Alessandro Delfanti, UC Davis
Joe Dumit, UC Davis
Allison Fish, UC Davis
Marina Levina, University of Memphis
Hélène Mialet, UC Berkeley
Kim Surkan, MIT
Orkan Telhan, University of Pennsylvania

Detailed program TBA

Lunch will be served. Please RSVP at this link if you plan to attend http://bit.ly/1PxzbQ6

UC Davis Innovating Communication in Scholarship

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Post-doctoral position in Human Microbiome Research and Women’s Health


The Institute for Genome Sciences at the University of Maryland School of Medicine encompasses an inter-disciplinary, multi-departmental team of collaborative investigators with a broad research program related to the genomics of infectious diseases, human microbial metagenomics, functional genomics, and bioinformatics.

TWO POSTDOCTORAL FELLOW positions are currently opened at the Institute for Genome Sciences for collaborative projects between Drs. Jacques Ravel and Rebecca Brotman. Qualified candidates will be enthusiastic, highly motivated and interested in studying the role of the human microbiome in relation to women’s health. The research in this position will focus on how the vaginal microbiome provides protection from sexually transmitted infections (STIs) and in the development of bacterial vaginosis (BV). Projects will apply computational, statistical and bioinformatics approaches on multi-omics’ datasets such as genome sequences, metabolomics, metagenomics, and metatranscriptomics.

The ideal applicant will possess a demonstrable understanding of bioinformatics and computational biology with a background in molecular biology, microbial ecology, statistics and/or molecular epidemiology. The candidate will have a doctoral degree in Genetics, Biology, Microbiology, Computer Science or a related field. Programming and statistical skills in languages such as Perl, Python, C/C++ and R, though not essential, are a plus.

Postdoctoral fellows at IGS benefit from a community of interactive research labs, bioinformatics experts and a variety of state of the art sequencing, and computational resources in a world-class institute dedicated to genomic, basic, and translational research.

To apply, please send a CV, a statement of research interests (2 pages maximum), and contact information for three references to IGS-jobs.

Additional inquiries about the position can be sent to Drs. Jacques Ravel and Rebecca Brotman


Ravel Brotman bioinformatics postdoc description.pdf

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CPB Seminar at #UCDavis today: Environmental gradients and interactions with soil biota shape adaptation in teosinte

CPB Spring Quarter Seminar Reminder – Tuesday, May 19, 2015 – 4:10pm – 1022 Life Sciences

May 19: Anna O’Brien
Graduate Student, Population Biology Graduate Group, UC Davis
Title: “Environmental gradients and interactions with soil biota shape adaptation in teosinte”

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At #UCDavis today Sam Diaz-Munoz, 11:15 am

Department of Microbiology & Molecular Genetics Recruitment Seminar

Samuel Diaz-Munoz, Ph.D.

"The Evolution of Viral Social Interactions"

Monday, May 18, 2015

11:15 am*

197 Briggs*

*note time and location

Diaz-Munoz Seminar 5-18-15.doc

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Talk at #UCDavis today: Michael Fischbach on Small molecules from the human microbiota – GBSF noon

Seminar today

“Insights from a global view of secondary metabolism: Small molecules from the human microbiota”

Michael Fischbach, Ph.D.

Assistant Professor, Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco

Friday, May 15, 2015 12:10 – 1:00 PM

Genome and Biomedical Sciences Facility Auditorium (GBSF 1005)


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Michael Fischbach at #UCDavis 5/15 noon: Insights from a global view of secondary metabolism: Small molecules from the human microbiota

FridayGBSF 1005

Dr. Michael Fischbah of UCSF
"Insights from a global view of secondary metabolism: Small molecules from the human microbiota”

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5/18 at #UCDavis Hunter Fraser on “Exploring the impact of noncoding genetic variation in humans”

“Exploring the impact of noncoding genetic variation in humans”

Hundreds of genome-wide association studies (GWAS) have found that the vast majority of human genetic variation impacting complex traits occurs outside of protein-coding regions, yet our understanding of these noncoding variants is still quite poor. I will describe our recent efforts to explore the impact of these functional variants. We have developed new experimental approaches to detect which variants affect key components of transcriptional regulation such as transcription factor binding, DNA methylation, and histone modification. We are also developing new computational methods for detecting natural selection in noncoding regions, revealing a dominant role of cis-regulatory changes in recent human adaptation.

Speaker: Hunter Fraser

Assistant Professor

Stanford University

Monday, May 18, 2015

4:10-5:00 PM

1022 Life Sciences

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5/13 at #UCDavis: Alex Csiszar on “The Scientific Journal: A Political History” #ICIS

Please join us for Alex Csiszar (Harvard University) speaking on "The Scientific Journal: A Political History"

Wednesday, May 13, 2015, 12:00 pm – 1:30 pm
2nd Floor Instruction Room, Shields Library

Lunch will be served – Please RSVP at this link if you plan to attend http://goo.gl/forms/4D9nm6NXps

Scientific journals are expected to do a lot of different things. They are often identified with both the cumulative and the present state of knowledge possessed by scientific communities. Journals are supposed to be public enough that any interested reader might access them; yet at the same time they are rigorously exclusive. To publish in a particular set of journals is to be deemed an expert in the corresponding scientific field. When questions arise as to what scientific consensus is on some matter of concern, governmental bodies, the public, and journalists routinely look to the reputable journal literature dealing with that subject. The list of a researcher’s papers is a unit by which careers are measured and a dominant factor in decisions about hiring, tenure, and grants. Scientific journals are both permanent archive and breaking news, both complete record and painstaking selection, both public forum and the esoteric domain of experts.

This talk will explore how and why this improbable state of affairs came into being over the course of the nineteenth century. The shift whereby the authority of science came to be vested increasingly in serialized print did not come about through any deliberate decision taken by scientists based on the fitness of the periodical press to play this role. Far from emerging out of a timeless need for a secure communications medium and format, the ascendancy of the scientific journal occurred as European scientific elites sought to establish their collective legitimacy to speak authoritatively about nature following the political upheavals of the Napoleonic Wars. Since that time, the scientific journal has been a nodal point where expert cultures of credibility have intersected, uneasily, with public criteria of accountability.

Alex Csiszar is an Assistant Professor of the History of Science at Harvard University. His research concerns the history of scientific authorship, publishing, refereeing practices, and information management from the French Revolution to the twentieth century.

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FuturePhy, Call for Participation

Just got this via the email tubes:

FuturePhy is an NSF-sponsored, three-year program of conferences, workshops and hackathons on the Tree of Life. The project aims to promote novel, integrative data analyses and visualization, interdisciplinary syntheses of phylogenetic sciences, and cross-cutting uses of phylogenetics to develop and address new research questions and applications.

The first phase of this mission is critical: to bring together a broad community of people from diverse backgrounds who are active in phylogenetics research, who use the tree of life in research or education, who will benefit in applied or practical ways from a comprehensive tree of life, or who come from a background that offers new perspectives on defining, addressing or transcending key challenges in phylogenetics.

Help accelerate progress in all aspects of phylogenetics research by joining FuturePhy today. Diverse opportunities will be available to attend FuturePhy sessions in person or virtually, and to link FuturePhy to existing projects and initiatives.

We invite you to participate in the project in several ways:

1. Register on http://futurephy.org Scientists from all aspects of the phylogenetic sciences, educators, members of the tree-using community, and others interested in phylogenetics are welcome.

2. Contribute to the discussion forum on http://futurephy.org This is the best way to log your interest and contribute ideas.

3. See our main themes, comment on them and take the survey to rank them: https://www.surveymonkey.com/s/8CWXMRF

4. Email contact with ideas or comments

5. Tweet to the FuturePhy community: @FuturePhy

6. Comment in the FuturePhy thread on http://phylobabble.org

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At #UCDavis 5/8 – Special seminar on bees and parasites

Special Seminar: Entomology, Bee biology

"Pesticides, parasites and pollinators: the impacts of environmental stressors on bees"

Prof Nigel Raine Univ of Guelph

Date: Friday May 8
Time: 1 PM
RM: 366 Briggs Hall

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