Department Blog

Health Sciences Libraries

OpenHelix: bioinformatics & genomics tutorials (trial)

April 14th, 2015 by Mary Wood


Click here for trial access

[Note:  We have received some reports of problems viewing in Chrome and Firefox browsers when using the Web VPN.  No problems have been reported with Internet Explorer.]

To access and analyze the vast amounts of data available, the researcher and scientist must learn how to use the databases and tools that are used to store and analyze genomics and genomics related data.

To help faculty, staff and students quickly learn to use these resources, OpenHelix has created over 100 tutorial suites on critical databases and tools.

The University Library currently has a trial subscription and the opportunity to evaluate the OpenHelix bioinformatics and genomics tutorial suites.

“The tutorial suites include an introductory online narrated tutorials, can be viewed from beginning to end or navigated using chapters and forward and backward sliders.  In addition to the tutorials, training materials including the animated PowerPoint slides used as a basis for the tutorial, suggested script for the slides, slide handouts, and exercises.”


Questions and comments: and

USDA Petitions: Definition of Alternatives & Establish Standards

April 1st, 2015 by Mary Wood

USDA requests comment on a petition to

Define Alternatives to Procedures That May Cause Pain or Distress and
to Establish Standards Regarding Consideration of These Alternatives

This Proposed Rule document was issued by the Animal and Plant Health Inspection Service (APHIS)

For related information, Open Docket Folder

APHIS has received a petition requesting amendment of the Animal Welfare Act (AWA) regulations to define the term alternatives, clarify the existing definition of painful procedure, and establish standards governing the consideration of such alternatives at research facilities that are registered under the AWA regulations. This petition is available to the public and they are soliciting comments regarding the petition and any issues raised by the petition that should be taken into account.

Comments due on or before May 29, 2015.

Submit comments online or as noted.

Supplementary information

One Health Graduate Seminar

March 3rd, 2015 by Mary Wood

Sessions : Monday and Wednesday 6:00pm‐8:00pm

Global health problems are complex and require culturally-sensitive, socially-acceptable, and action-oriented approaches to create practical and cost-effective solutions using a case-based format. This course will examine major health problems created by the convergence of human, animal, and environmental influences.



SPRING 2015:
Sessions for this one unit course take place every Monday and Wednesday 6:00pm‐8:00pm from March 30th to April 29th
One hundred percent attendance is required.

Participants can attend in Davis (Genome, Room 6202) or Sacramento (Education Building, Room 3228B). The class size for this course is limited; thus, a selection process is often implemented in order to maintain appropriate numbers and representation across disciplines.

2015 One Health Graduate Seminar Flyer


New talks: Animal models in biomedical research

February 23rd, 2015 by Mary Wood





…..Henry Stewart Talks

…..Biomedical & Life Sciences Collection

Animal Models in Biomedical Research






Basic principles of animal models

  1. The moral status of invasive animal research
    Prof. Bernard E. Rollin  –  Colorado State University, USA
  1. Legal aspects of using animals for research in the U.S.
    Dr. B. Taylor Bennet  –  Management Consultant, USA
  1. Modern production of laboratory animals
    Dr. Martin Toft  –  Adlast, DK

Modern techniques for the creation of animal models

  1. Creating animal models by genetic techniques
    Mr. Emmanuel Gomas  –  Transgenic Technologies Training and Consulting, 3TC, FR
  1. Surgical models and perioperative care in swine
    Prof. M. Michael Swindle  –  Medical University of South Carolina, USA
    Prof. Mary Ann McCrackin  –  Medical University of South Carolina, USA
  1. Improving and humanizing animal models by microbiomic techniques)
    Prof. Axel Kornerup Hansen  –  University of Copenhagen, Denmark

Specific animal models

  1. Behavioral phenotyping of mouse models of neuropsychiatric and neurodevelopmental disorders
    Prof. Jacqueline N. Crawley  –  UC Davis MIND Institute, Robert E. Chason Endowed Chair in Translational Research, Professor, Department of Psychiatry and Behavioral Sciences, UC Davis School of Medicine
  1. Development of immunotherapies for type 1 diabetes. Value and limitations of mouse models.
    Prof. Matthias von Herrath  –  Novo Nordisk Ltd, USA

Interplay between Environmental Exposures and Obesity

January 27th, 2015 by Mary Wood

National Institute of Environmental Health Sciences (NIEHS) is home to the National Toxicology Program (NTP).
The Institute of Medicine (IOM) is the health arm of the National Academy of Science.


NIEHS announces IOM Workshop on the
Interplay Between Environmental Exposures and Obesity

March 2-3, 2015
Roundtable on Environmental Health Sciences, Research, and Medicine

The workshop will explore the role of chemical exposures in the development of obesity through sessions focused on a life span view, possible biologic pathways and environmental influences, and effects of food additives and antibiotics. Speakers will make links between exposure to environmental chemicals and increased incidence of weight gain, glucose tolerance and insulin sensitivity, inflammation, and aspects of metabolic syndrome in animal models and human studies. Two panels at the end of the workshop will provide a chance to discuss opportunities for new research and possible policy actions to address exposure to chemicals associated with the development of obesity.

Check the workshop page for registration information, an updated agenda and other workshop materials.


Previous IOM Workshop
March 19, 2014
Principles and Best Practices for Sharing Data form Environmental Health Research

Review Articles in BioMed Central Journals Now Open Access

January 22nd, 2015 by Deanna Johnson

BioMed Central publishes 274 open access journals in biology and medicine.

More than 60 subject-specific journals are in the BMC series

A number of the titles in BioMed Central’s portfolio are journals that transferred and converted from the subscription model to open access.

Review articles in the following journals will no longer require a subscription to read; they will be open access like the rest of the BioMed Central portfolio.

Alzheimer’s Research & Therapy

Arthritis Research & Therapy

Breast Cancer Research

Critical Care

Genome Biology

Genome Medicine

Stem Cell Research & Therapy

Henry Stewart Talks added to University Library collection

January 22nd, 2015 by Deanna Johnson

Henry Stewart Talks


UC Davis University Library has licensed the Henry Stewart Talks Biomedical & Life Sciences Collection for 2015. This collection currently contains 1800 lectures, of various lengths, by leading world experts.

Additional lectures are added monthly, a running list of which may be viewed here.


Recent lectures include:

Experimental Design and Statistics

January 14th, 2015 by Mary Wood

ILAR Journal Volume 55(3): Experimental Design and Statistics


The review articles in this issue discuss current methods of animal research to address what can be done to improve the quality of animal experiments, choice of animal model, and the systematic review and meta-analysis of animal experiments.


Select articles:

Festing, Nevalainen
Design and Statistical Analysis of Animal Experiments: Introduction to this Issue

Bailoo, Reichlin, Würbel
Refinement of Experimental Design and Conduct in Laboratory Animal Research

Animal Husbandry and Experimental Design

Evidence Should Trump Intuition by Preferring Inbred Strains to Outbred Stocks in Preclinical Research

O’Connor, Sargeant
Critical Appraisal of Studies Using Laboratory Animal Models

Hooijmans, IntHout, Ritskes-Hoitinga, Rovers
Meta-Analyses of Animal Studies: An Introduction of a Valuable Instrument to Further Improve Healthcare

de Vries, Wever, Avey, Stephens, Sena, Leenaars
Usefulness of Systematic Reviews of Animal Experiments for the Design of Preclinical and Clinical Studies

Significance of Meaning: Why Do Over 90% of Behavioral Neuroscience Results Fail to Translate to Humans, and What Can We Do to Fix It?

Teaching Experimental Design

Randomized Block Experimental Designs Can Increase the Power and Reproducibility of Laboratory Animal Experiments

Parker, Browne
Place of Experimental Design and Statistics in the 3Rs

Making the Most of Clustered Data in Laboratory Animal Research Using Multi-Level Models


Guidance for the Description of Animal Research in Scientific Publications
Committee members included Dr. Stephen W. Barthold (IOM), Center for Comparative Medicine, University of California, Davis

MD Consult retires 12/31/14

December 29th, 2014 by Mary Wood


Elsevier is retiring MD Consult as their delivery platform for electronic medical texts, including medical textbooks, Clinics of …, and some clinically oriented journals. The UC health sciences libraries representatives (UC Davis health sciences librarians are involved) has been negotiating for an alternative product with limited success, and continue to explore other options. With the Elsevier titles previously accessed through MD Consult unavailable starting January 2015, paper copies and/or alternative electronic versions may be possible.

For further information or guidance about how to access books and journals previously available from MD Consult, consult the “Farewell to MD Consult” guide or Harvest catalog.

We encourage you to contact us with your questions or concerns. | 916-734-3529

SciENcv: Science Experts Network Curriculum Vitae

December 15th, 2014 by Mary Wood


…  A researcher profile system for all individuals who apply for, receive or are associated with research investments from federal agencies.

SciENcv is a feature in My NCBI that helps you create online professional profiles that can be made public to share with others.

eRA Commons and ORCID account holders who have linked their accounts to My NCBI can have their SciENcv profiles automatically populated with the information stored in their biographical records.


Library Guide on Author IDs and ORCID


Earlier blog post re beta version, November 7th, 2013
SciENcv – Science Experts Nework
NIH Notice, NOT-OD-13-114