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Subject: SMB Digest v14i31
SMB Digest July 28, 2014 Volume 14 Issue 31
ISSN 1086-6566
Editor: Richard Schugart richard(dot)schugart(at)gmail(dot)com
Note:
Information about the Society for Mathematical Biology, including an
application for membership, may be found in the SMB Home Page,
http://www.smb.org/ .
Access the Bulletin of Mathematical Biology, the official journal of
SMB, at http://www.springer.com/11538 .
Inquiries about membership or BMB fulfillment should be sent to
membership(at)smb(dot)org .
Issue's Topics:
Short Course: R Programming, Sep 3, UT Sydney
Workshop: Persistent Homology for..., Oct 8, Michigan St U
Colloquium: Modeling of Infectious..., Dec 10-11, Lyon, France
Conference: Artificial Life..., Feb 5-7, U Newcastle, Australia
Best Paper Prize: Mathematical Medicine & Biology
Post-doc: Modeling Growth & Nutrition, NIDDK, NIH, MD, USA
Post-doc: Modeling Food Intake, Food..., NIDDK, NIH, MD, USA
Post-doc: Interdisciplinary Research, INRIA, Lyon, France
Lead Scientist Po.: Allen Institute for Brain Science, WA, USA
SMBnet Reminders
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From: Advanced Analytics <AdvancedAnalytics@uts.edu.au>
Date: July 27, 2014 10:13:48 PM
Subject: Short Course: R Programming, Sep 3, UT Sydney
AAI Short Course - 'R Programming - an Introduction' - on Wednesday
3 September 2014
https://shortcourses-bookings.uts.edu.au/ClientView/Schedules/ScheduleDetail.aspx?ScheduleID=1675
R is a very popular open source programming language that excels in
statistics, visualisation and data analysis. Its most significant
advantage is that there are now several thousand add-on packages that
are available to perform specific analysis tasks, and the whole
ecosystem is free of charge. This course will teach the basics of using
R, focusing on data import and manipulation, visualisation, and simple
statistical tests.
About the presenter:
Sam Ferguson is a Lecturer in the School of Software, Faculty of
Engineering and IT at the University of Technology, Sydney. He has used
R in a many of his approximately 35 publications in areas as diverse as
spatial hearing and loudness research, to sonification, emotion, and
table top computing.
Please register at
https://shortcourses-bookings.uts.edu.au/ClientView/Schedules/ScheduleDetail.aspx?ScheduleID=1675
An important foundation short course in the AAI series of advanced data
analytic short courses ? please view this short course and others here
http://www.uts.edu.au/research-and-teaching/our-research/advanced-analytics-institute/short-courses/upcoming-courses
----------------------------------------------------
From: xiakelin@msu.edu <xiakelin@msu.edu>
Date: July 25, 2014 2:55:29 PM
Subject: Workshop: Persistent Homology for..., Oct 8, Michigan St U
Workshop on Persistent Homology for Biosciences
October 18, 2014
at East Lansing, Michigan State University
This workshop will feature leading experts on topological modeling and
computation of biosciences from around the globe, and bring together a
number of distinguished researchers from mathematics, biology and
computer sciences.
The registration is now open and will be accepted on a first-come
first-serve basis.
Further information, including the list of invited speakers and
registration can be found on the conference website:
www.math.msu.edu/~wei/WPHB/
----------------------------------------------------
From: ecofect@universite-lyon.fr <ecofect@universite-lyon.fr>
Date: July 28, 2014 3:48:39 AM
Subject: Colloquium: Modeling of Infectious..., Dec 10-11, Lyon, France
EMOTIONS 2014, first international colloquium on modeling of infectious
diseases: SAVE THE DATES : December 10th et 11st in Lyon!
To explore the epidemiological, ecological, molecular and evolutionary
dimensions of infections (human, wildlife) is the main objective of
EMOTIONS 2014 - Ecological and Molecular mOdeling of infecTIONS.
This first international colloquium organized by the Laboratory of
Excellence ECOFECT - eco-evolutionary dynamics of infectious diseases
(http://ecofect.universite-lyon.fr/en) is open to a wide community of
students and researchers from biology and mathematical/computer science
from all over the world.
At the program, internationally renowned speakers:
-Minus van Baalen (Université Pierre et Marie Curie, France)
-Elhanan Borenstein (University of Washington, USA)
-Sam Brown (University of Edinburgh, UK)
-Thomas House (University of Warwick, UK)
-Jeroen Raes (Vlaams Instituut voor Biotechnologie, Belgium)
-Jonathan Read (University of Liverpool, UK)
-Vanessa Sperandio (University of Texas, USA)
Registrations (free but compulsory) are open!
For more information : http://emotions2014.sciencesconf.org/
----------------------------------------------------
From: ACALCI 2015 Organiser <acalci2015@gmail.com>
Date: July 23, 2014 1:29:14 AM
Subject: Conference: Artificial Life..., Feb 5-7, U Newcastle, Australia
CfP: Australasian Conference on Artificial Life and Computational
Intelligence (ACALCI 2015), 5-7 February 2015, The University of
Newcastle, Australia
http://newcastle.edu.au/ACALCI2015
PAPER DEADLINE: 1 September 2014
DESCRIPTION: While Artificial Life (AL) attempts to understand nature
through modelling and simulation, Computational Intelligence (CI)
attempts to translate this understanding into algorithms for learning
and optimisation. The forum also hopes to encourage ALCI applied
research in domains as diverse as the creative arts, health and finance
(to name a few). ACALCI encourages presentations, demonstrations,
performances and discussions on new innovative research and
interdisciplinary projects. Invited are high-quality papers relevant to
AL or CI where the topics of interest include but are not limited to:
Adaptive Ecologies, Affective Computing, ALCI in Design and Music, Ant
Colony Optimisation, Applications of ALCI, Autonomous Agents,
Architecture and ALCI, Artificial Neural Networks, Artificial Societies
and Markets, Augmented and Virtual Realities, Big Data, Bioinformatics,
BCIs, Braintheory, Chatbots, Cognitive Neuroscience, Complex Systems,
Computational Neuroscience, Consciousness and Mind, Creative Arts and
CI, Data Mining, Deep Learning, Developmental Learning, Digital
Societies, Dimensionality Reduction, Embodiment and Robotics, Emergence
of Collaborative Behaviour, Emotional AI, Engineering of Consciousness
and Mind, Epidemiology Simulations, Ethics and Security in CI,
Evolutionary Computation, Evolutionary Design, Facial Expression
Analysis, Game Playing Agents, Human-Machine Interaction, Humanities and
ALCI, Humanoid Robots, Implementation Techniques, Information Theoretic
Learning, Intelligent Home Automation, Language Processing, Machine
Learning, Mathematical Models, Medical Image Analysis, Memetic
Algorithms, Metalearning, Models of Emotions, Multi-Agent Systems,
Non-player Game Characters, Pattern Recognition, Philosophy of
Artificial Life, Reservoir Computing, Self-Organisation, Simulation and
Modelling, Smart Grid Techniques, Social Networks and ALCI, Space
Perception, Statistical Learning Theory, Swarm Algorithms, Synthetic
Life Computations, Visual Information Processing.
SUBMISSION and PRESENTATION: Authors are invited to submit papers that
have between 6 and 14 pages in Springer LNAI style including results,
figures and references. Longer papers up to 20 pages can be considered
in exceptional cases. All relevant papers will be fully peer-reviewed by
at least three reviewers from the ACALCI 2015 International Program
Committee before acceptance for publication in the proceedings.
All accepted papers that are presented at the conference would be
published in the ACALCI 2015 proceedings as a LNAI volume by
Springer-Verlag. The LNAI volumes are indexed by the following services:
Scopus, Zentralblatt MATH, IO-Port, MathSciNet, ACM Digital Library,
dblp, EI Engineering Index (Compendex and Inspec databases), and the ISI
Conference Proceedings Citation Index - Science (CPCI-S), included in
ISI Web of Science.
LOCATION and VENUE: The University of Newcastle Conservatorium of Music
Concert Hall, Newcastle, Australia. This is a stylish venue about 2.5
hours north of Sydney.
WORKSHOPS, TUTORIALS and PERFORMANCES: If you would like to organise a
workshop, tutorial or performance in connection with ACALCI2015 please
contact the organisers as soon as possible.
CONFERENCE WEBPAGE with further details and latest updates:
http://www.newcastle.edu.au/ACALCI2015
CONTACT email of the conference chair: ACALCI2015@gmail.com
----------------------------------------------------
From: Oliver Jensen <oliver.jensen@manchester.ac.uk>
Date: July 25, 2014 2:14:24 PM
Subject: Best Paper Prize: Mathematical Medicine & Biology
To celebrate the 30th year of publication of the IMA journal
Mathematical Medicine & Biology, a GBP1000 best paper prize will be
awarded to the most outstanding research published in the Journal. To be
eligible for the prize, papers must be submitted between June 2013 and
December 2014, and subsequently accepted for publication in the Journal.
For full details see
http://www.oxfordjournals.org/our_journals/imammb/prize.html
Oliver Jensen
Co-Editor, Math. Med. Biol.
----------------------------------------------------
From: Hall, Kevin (NIH/NIDDK) [E] <kevinh@niddk.nih.gov>
Date: July 24, 2014 1:13:08 PM
Subject: Post-doc: Modeling Growth & Nutrition, NIDDK, NIH, MD, USA
NIH & Gates Foundation Postdoctoral Fellowship: Mathematical Modeling of
Growth and Malnutrition
A postdoctoral fellowship is available in the Laboratory of Biological
Modeling at the National Institute of Diabetes & Digestive & Kidney
Diseases, one of the National Institutes of Health located in Bethesda,
Maryland. The successful candidate will develop mathematical models of
human growth and metabolism, with an emphasis on understanding
malnutrition and its treatment across the lifecycle. The fellowship is
sponsored by the Bill & Melinda Gates Foundation as part of the Healthy
Birth, Growth and Development initiative.
Applicants should possess a Ph.D. degree in Applied Mathematics,
Engineering, Physics, Biochemistry, Physiology, Nutrition, or a related
field. The successful candidate will have strong quantitative and
mathematical abilities and an interest in studying the regulation of
metabolism in humans. Salary will be commensurate with experience
according to NIH guidelines.
Please send your CV and a list of 3 references to:
Kevin Hall, Ph. D.
Laboratory of Biological Modeling
National Institute of Diabetes & Digestive & Kidney Diseases
National Institutes of Health
12A South Drive, Room 4007
Bethesda, MD 20892-5621
Email: kevinh@niddk.nih.gov
The NIH is dedicated to building a diverse community in its training and
employment programs.
----------------------------------------------------
From: Hall, Kevin (NIH/NIDDK) [E] <kevinh@niddk.nih.gov>
Date: July 25, 2014 11:36:10 AM
Subject: Post-doc: Modeling Food Intake, Food..., NIDDK, NIH, MD, USA
NIH Postdoctoral Fellowship: Mathematical Modeling of Food Intake, Food
Reward and Habit Formation
A postdoctoral fellowship is available in the Laboratory of Biological
Modeling at the National Institute of Diabetes & Digestive & Kidney
Diseases, one of the National Institutes of Health located in Bethesda,
Maryland. The successful candidate will develop mathematical models of
the neurobiology underlying the regulation of food intake, food reward
and habit formation. Applicants should possess a Ph.D. degree in
Computational Neuroscience, Applied Mathematics, Engineering, Physics,
or a related field. The successful candidate will have strong
quantitative and mathematical abilities and an interest in studying the
regulation of food intake, with a specific emphasis on food reward and
habit formation. Salary will be commensurate with experience according
to NIH guidelines.
Please send your CV and a list of 3 references to:
Kevin Hall, Ph. D.
Laboratory of Biological Modeling
National Institute of Diabetes & Digestive & Kidney Diseases
National Institutes of Health
12A South Drive, Room 4007
Bethesda, MD 20892-5621
Email: kevinh@niddk.nih.gov
The NIH is dedicated to building a diverse community in its training and
employment programs.
----------------------------------------------------
From: Marie-France Sagot <Marie-France.Sagot@inria.fr>
Date: July 28, 2014 4:18:57 AM
Subject: Post-doc: Interdisciplinary Research, INRIA, Lyon, France
One postdoc opportunity at Inria in Lyon, France, to start no later than
November 1st, 2014
In the context of a FP7 KBBE European Project, BacHBerry (?BACterial
Hosts for production of Bioactive phenolics from bERRY fruits"), we are
seeking for one postdoc candidate, for one year renewable for up to two
years.
The BacHBerry project is interested in the generation of bacterial
platforms for sustainable bio-based production of phenolic compounds
found in berry fruits. Phenolics are recognised for their antioxydant
health-promoting and functional properties, and applied across
applications as diverse as aromas, colours, nutraceuticals, and
medicines. The platform may involve a single bacterial species, or a
community of different bacteria in interaction. Both approaches will be
explored.
Ideally, the candidate should have a strong background in at least one
of: biochemistry, systems biology of bacterial communities, metabolic
bioengineering; together with an interest and some expertise in the use
and development of mathematical models and algorithmic methods. The
person should have a strong taste for inter-disciplinary research, and
very good interpersonal skills.
The candidate will work in the BAMBOO team at the Inria-UCBL in Lyon,
France (http://team.inria.fr/bamboo/), in interaction with the partners
of BacHBerry, in particular the CSI team at the IDMEC-IST in Lisbon,
Portugal (http://www.idmec.ist.utl.pt/).
Applications should include a motivation letter, a CV, and the address
of three references.
The applications should be sent to:
Marie-France Sagot, marie-france.sagot@inria.fr
putting also in copy the partner in Lisbon:
Susana Vinga, susanavinga@gmail.com
ideally before August 31, 2014.
----------------------------------------------------
From: Jack Besst <jackb@alleninstitute.org>
Date: July 22, 2014 3:24:24 PM
Subject: Lead Scientist Po.: Allen Institute for Brain Science, WA, USA
Our mission at the Allen Institute for Brain Science is to accelerate
the understanding of how the human brain works in health and disease.
Using a big science approach, we generate useful public resources, drive
technological and analytical advances, and discover fundamental brain
properties through integration of experiments, modeling and theory.
The Assistant Investigator will act as a lead scientist in developing a
machine learning program for classification and comparative analysis of
the Allen Institutes neuroscience programs data. This work will include
both problems of cell type classification including diverse data
modalities such as transcriptome and synaptome, electro- and optical
physiology, and light and electron microscopy morphological and
connectivity data. By combining data from mouse, human, and developing
and human embryonic stem cell approaches, we wish to use robust modern
quantitative clustering tools to understand the spectrum from components
to circuits to cognition, and ultimately what makes humans human.
Job Responsibilities:
-Establish a group and key facility in the development and application
of modern machine ??learning techniques to the understanding of
neurobiological data.
-Develop the methodology and techniques for the quantitative exploration
of cell type characterization and classification.
-Advise a group of scientists in developing these methods.
-Work with experimentalists to understand their data and to suggest new
experiments.
-Compare model against electrophysiological and imaging data from
in-house observator.
-Seek and evaluate new cutting-edge technologies in related areas.
-Publish/present findings in peer-reviewed journals/scientific
conferences.
-Present a periodic summary of progress to the research community within
the organization.
-Communicate effectively and appropriately with others inside and
outside the organization.
Basic Qualifications:
-Ph.D. in a physics, engineering, or computational discipline
-5+ years of postdoctoral working experience in computational
neuroscience and machine learning
-Extensive experience and technical knowledge of computational
neuroscience, modeling and machine learning, including modeling networks
of spiking neurons, deep learning, algorithms, hierarchical clustering
-Strong knowledge of systems, cellular and molecular neuroscience
Location: Seattle, WA
Relocation Assistance Available
Application Link:
https://alleninstitute.csod.com/ats/careersite/jobdetails.aspx?site=1&c=alleninstitute&id=36
----------------------------------------------------
Subject: SMBnet Reminders
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