SMB Digest Volume 18 Issue 31

August 1, 2018
This issue’s editor:

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Issue’s Topics:
New Book: James Murray Biography
Conference: Joint European Thermodynamics, 20-24 May, Barcelona
PhD Position: Optimization of Dialysate Bicarbonate…, Poland
Post-doc: Cancer Metabolism & Genomics, MSKCC, New York
Post-doc: Data Assimilation, Forest Ecological…, U Arizona
Post-doc/Engineer: Data Integration, Simulation, &…, New York
NSF: Updated Funding Opportunity, Secure & Trustworthy…
SMBnet Reminders


From: From: Philip Maini <>
Date: Wed, Aug 1, 2018 at 5:55 AM
Re-sent From: Amina Eladdadi <>
Subject: New Book: James Murray Biography

My Gift of Polio: ~ An Unexpected Life ~ From Scotland’s Rustic Hills to
Oxford’s Hallowed Halls & Beyond Paperback – April 17, 2018 – by
James D. Murray (Author)

James Murray was the youngest of six children born into a poor
working-class family in Moffat, a very small isolated town in rural
Scotland, during the Depression of the early 1930s. He caught polio as a
baby and his future looked bleak. This profusely illustrated memoir
describes his early years growing up in poverty and follows his
serendipitous life beyond – taking him from degrees at the University of
St. Andrews to international renown in the world of academia at Harvard,
Oxford, Paris and other universities around the world. Murray describes
his involvement as an Advisory Director with the founding problems of
the Arvon Foundation in Britain. Murray’s groundbreaking scientific
research was a new field of mathematics of genuine use in the real
world, which he applied to brain tumours, divorce prediction and many
other areas. Aspects of this research are described in a non-technical
way alongside other descriptions of his many other diverse skills,
enthusiasms, and friendships such as those with Leonard Baskin, Sylvia
Plath and Ted Hughes including some unpublished poems.


From: JETC2019 <>
Date: Tue, Jul 31, 2018 at 4:39 AM
Subject: Conference: Joint European Thermodynamics, 20-24 May, Barcelona

Joint European Thermodynamics Conference
JETC 2019
20-24 May 2019
Barcelona, Catalonia, Spain

It is our great pleasure to announce you that the next Joint European
Thermodynamic Conference (JETC) will be held in Barcelona on May
20-24th, 2019. As you may know, JETC is a biannual Conference with high
level of participation from the lively scientific community working in
the field of Thermodynamics.

The period for registration and abstract submission is open. The
deadline for abstract submission is December 21st, 2018.

You can access to all the information at the web page of the conference


The tentative list of minisymposia includes:
Quantum Thermodynamics
Thermodynamics of Small Systems
Engineering Thermodynamics
Chemical Thermodynamics
Gravitation and Thermodynamics
Thermodynamics of Quantum and Classical Turbulence
Theories of Nonequilibrium Thermodynamics

All the talks and scientific events will take place at Casa
Convalescència, an outstanding building of modernist architecture
located on the historical site of the Hospital de la Santa Creu i Sant
Pau, in Barcelona.


From: Ken Leypoldt <>
Date: Fri, Jul 27, 2018 at 11:19 AM
Subject: PhD Position: Optimization of Dialysate Bicarbonate…, Poland

We are seeking a PhD student to participate in a new project at the
Nalecz Institute of Biocybernetics and Biomedical Engineering PAS funded
by the Polish National Science Centre entitled “Optimization of
Dialysate Bicarbonate Concentration by Mathematical Modeling”.
Application deadline is September 3, 2018. Contacts:

PI: John K. Leypoldt, Ph.D. (
Local Contact: Prof. Jacek Waniewski, Ph.D., D.Sc.

Additional details at:


From: Ed Reznik <>
Date: Fri, Jul 27, 2018 at 9:01 AM
Subject: Post-doc: Cancer Metabolism & Genomics, MSKCC, New York

We are seeking candidates for a joint postdoctoral fellowship in the
Reznik and Shah laboratories at Memorial Sloan Kettering Cancer Center
(MSKCC) to study tumor metabolism and genetics using single cell
approaches. An energetic and creative scientist with a background in
computational models of metabolism, genomics, or machine learning is
sought to lead new studies of ecological interactions in the tumor
microenvironment, tumor evolution, and therapeutic resistance with
single cell RNA and DNA sequencing. The fellow will join a diverse group
of quantitative geneticists, genomicists, and machine learners embedded
in the Computational Oncology Service, a new initiative dedicated to
translational, data-driven cancer science and tightly integrated with
the work of MSK’s clinicians. Applicants must possess a PhD in a
quantitative discipline, including but not limited to computational
biology, computer science, machine learning, or applied mathematics.
A background in cancer genomics is an asset but not required.

Interested candidates should send a cover letter, curriculum vitae, and
contact information for 3 references to Andrew Madouty


From: Evans, Margaret E – (mekevans) <>
Date: Mon, Jul 23, 2018 at 5:18 PM
Subject: Post-doc: Data Assimilation, Forest Ecological…, U Arizona

Two-Year Post Doctoral Fellowship in Data Assimilation, Forest
Ecological Forecasting

A post-doctoral fellowship is available in the Laboratory of Tree-Ring
Research (University of Arizona) to work on an NSF Macrosystems
Biology-funded project assimilating together tree-ring and forest
inventory data to analyze patterns and drivers of forest productivity
across the interior western U. S. The aim of the project is to generate
ecological forecasts of future forest ecosystem functioning, especially
carbon sequestration, in the face of rising temperatures and evaporative
demand. The approach is to leverage an existing, continental-scale
ecological observatory network (the permanent sample plot network of the
U. S. Forest Service’s Forest Inventory and Analysis Program [FIA]) and
assimilate into it a new data stream: annual-resolution time series of
individual tree growth from >8,000 increment cores collected in the same
plot network. The post-doc will be able to participate in all aspects of
the project, with an emphasis on manipulating Forest Inventory and
Analysis (FIA) census data, tree-ring data, and climate data, and
scaling up an existing data assimilation workflow, with the opportunity
to develop lines of research related to the themes of the lab based on
their interests. The project will be co-supervised by Margaret Evans
(Laboratory of Tree-Ring Research, University of Arizona), Justin DeRose
and John Shaw (Interior West-FIA, Rocky Mountain Research Station), and
statistical ecologists Andrew Finley (Michigan State University) and
Mike Dietze (Boston University), along with the cyberinfrastructure
support of NSF’s CyVerse. Applicants should have a PhD in mathematics,
applied mathematics, statistics, or a related field, with experience or
interest in plant or forest ecology, or a PhD in ecology, forestry, or
related field with strong statistical and computing skills. The
successful candidate will have a background and/or strong interest in
hierarchical Bayesian models, data assimilation, dynamic linear
modeling, ecological forecasting, uncertainty quantification, spatial
statistics, and/or computer science (e.g., writing MCMC samplers).
Experience working with large datasets or databases, strong writing
skills and associated publications in peer-reviewed literature,
communication skills, and mentoring and collaboration skills are also
strongly valued.

The position is funded for two years, beginning as soon as September of
2018. Duties will be carried out at the Laboratory of Tree-Ring Research
on the University of Arizona campus in Tucson, Arizona. Situated an hour
and a half from Mexico in the Sonoran desert and Sky Island region of
southeastern Arizona, Tucson has an exceptionally low cost of living
along with a wide range of opportunities for outdoor recreation and
biological and cultural richness. One example is the recent designation
of Tucson as a UNESCO World City of Gastronomy. Interested candidates
should contact Dr. Margaret Evans at
Complete applications must include (1) a cover letter, (2) curriculum
vita, and (3) names and contact information for three references.
Applications will be reviewed until the position is filled.


From: Jonathan Karr <>
Date: Thu, Jul 26, 2018 at 6:24 PM
Subject: Post-doc/Engineer: Data Integration, Simulation, &…, New York

Postdocs/engineers in data integration, simulation, and visualization
for whole-cell modeling @ NYC

To better understand how genotype and the environment determine
phenotype, we are developing comprehensive whole-cell computational
models which aim to represent all of the biochemical activity inside
cells. Our research is interdisciplinary – involving systems biology,
genomics, simulation, and software engineering – and team-oriented. We
are seeking talented, ambitious individuals to join our team and help us
develop tools for building, simulating, and analyzing comprehensive
models of individual cells.

We are a member the new NIH-funded Center for Reproducible Biomedical
Modeling ( which aims to enable more
predictive models of cells by making cell modeling systematic, scalable,
and collaborative. The center includes Herbert Sauro and John Gennari at
the University of Washington, Ion Moraru and Michael Blinov at the
University of Connecticut Health Center, and David Nickerson at the
University of Auckland.

How to apply
Please send a cover letter describing your scientific/engineering
interests and your CV to Jonathan Karr (

More information
Please visit our website ( or contact Jonathan
Karr (


From: Henry Warchall <>
Date: Fri, Jul 27, 2018 at 11:44 AM
Subject: NSF: Updated Funding Opportunity, Secure & Trustworthy…

An updated NSF program solicitation (NSF 18-572) is now available:
Secure and Trustworthy Cyberspace (SaTC)

Please see for

Full proposal accepted any time for:
— MEDIUM Projects
— SMALL Projects

Related information:

Dear Colleague Letter: Removal of Deadlines for the SaTC Program

Frequently Asked Questions: Removal of Deadlines for SaTC Program

From the program synopsis:
The SaTC program welcomes proposals that address cybersecurity and
privacy, and draw on expertise in one or more of these areas: computing,
communication and information sciences; engineering; economics;
education; mathematics; statistics; and social and behavioral sciences.
Proposals that advance the field of cybersecurity and privacy within a
single discipline or interdisciplinary efforts that span multiple
disciplines are both encouraged.

From the revision notes:
— There are no longer proposal submission deadlines in SaTC.
— The Frontier competition will not be held in FY 2019. The Frontier
competition is expected to return in FY 2020 subject to availability of
— Proposers are asked to avoid requesting start dates between July 2
and September 30 of a given year.


Subject: SMBnet Reminders

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