SMB Digest Volume 19 Issue 30

OCTOBER 11, 2019
This issue’s editor:


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Issue’s Topics:
         Colloquium: MBI Online, Alex Mogilner, Oct 16, Noon US EDT
         Conference: Control, Systems, & Synthetic…, Jul 12-17, Berlin
         ToC: Bulletin of Mathematical Biology, Vol 81 Iss 10
         Newsletter: NIMBioS, Sep-Oct 2019
         NIH Update: Advice on Letters of Support, K Award Resources…
         Short-term Visitor: NIMBioS, U Tennessee, Knoxville, US
         Summer Internship: HIV Cure Modeling, Merck, PA, US
         PhD Position: …Calcium & Secretion of Saliva, U Auckland
         PhD Position: Stochastic Cell Dynamics, Imperial College London
         PhD Positions: Biomedical AI, U Edinburgh
         Post-doc: Stochastic Reaction-Drift-Diffusion Methods, Boston U
         Post-doc: Modeling Regulatory Network Dynamics, Montana St U
         Post-doc: Applied Mathematics, U Liverpool
         Post-doc: Invasive Species Population Dynamics, Temple U, US
         Lecturer: Biomathematics, Imperial College London
         Tenure-Track Position: Mathematical Biology, U Kentucky, US
         Full Professor Position: Mathematical Biology, U Alabama, US
         NSF: National Artificial Intelligence Research Institutes
         SMBnet Reminders


from: Gehring, Will <>
date: Oct 8, 2019, 1:00 PM
subject: Colloquium: MBI Online, Alex Mogilner, Oct 16, Noon US EDT

MBI Online Colloquium
Wednesday October 16, 2019 at Noon Eastern Time

Alex Mogilner (Professor of Mathematics and Biology, Courant Institute
and Department of Biology, New York University)

Feedbacks Between Mechanics, Geometry and Polarity Sorting Ensures
Non-Random, Rapid and Precise Mitotic Spindle Assembly

Details of how to participate can be found on the National Colloquium
webpage below.
To view this live event you will need to register on the event page.
You may register at any time at:

Next Online Colloquium

Carolyn R. Cho, November 13, 2019


from: OYARZUN Diego <>
date: Oct 3, 2019, 3:44 AM
subject: Conference: Control, Systems, & Synthetic…, Jul 12-17, Berlin

Together with Mustafa Khammash (ETH Zurich) and Steffen Waldherr
(KU Leuven) we are organising an Open Invited Track for the upcoming
IFAC World Congress 2020 in Berlin, entitled “New trends in control
theory at the interface of Systems and Synthetic Biology”.

The session will collate submissions on control theory applied to the
analysis and design of biomolecular systems. We welcome theoretical
contributions in systems biology, as well as applications in synthetic
biology, biotechnology and biomedicine.

Submission deadline: 31 October 2019.

More information at the conference website:
and the dedicated session website:

The University of Edinburgh is a charitable body, registered in
Scotland, with registration number SC005336.


from: Springer <>
date: Oct 1, 2019, 11:08 AM
subject: ToC: Bulletin of Mathematical Biology, Vol 81 Iss 10



from: NIMBioS <>
date: Oct 3, 2019, 12:47 PM
subject: Newsletter: NIMBioS, Sep-Oct 2019



from: NIH Extramural Nexus (NIH/OD) <>
date: Oct 3, 2019, 8:15 PM
subject: NIH Update: Advice on Letters of Support, K Award Resources…

NIH Update: Advice on Letters of Support, K Award Resources, Changes to
the Loan Repayment Program and more
Please see


from: NIMBioS <>
date: Sep 24, 2019, 1:21 PM
subject: Short-term Visitor: NIMBioS, U Tennessee, Knoxville, US



from: Cao, Youfang <>
date: Sep 30, 2019, 10:44 AM
subject: Summer Internship: HIV Cure Modeling, Merck, PA, US

Merck 2020 summer intern opportunity – modeling HIV cure

Merck & Co. Inc. Quantitative Pharmacology and Pharmacometrics
(Youfang Cao, PhD) is recruiting a summer intern for HIV Cure modeling
in 2020.  Anyone (PhD candidate) with mechanistic mathematical modeling
experience and interested in exploring pharmaceutical industry modeling
opportunities are encouraged to apply.  Preferred skills include but not
limited to viral dynamics modeling, intracellular gene regulatory
network modeling, QSP modeling, and data fitting. The application will
close at the end of Oct 2019. The internship will be about 12 weeks from
May to Aug 2020, will be located at the West Point, PA site of Merck.

Interested applicants must submit your application online through
following link. You can also email your CV to
after submit it online.—Pennsylvania—West-Point/XMLNAME-2020-Quantitative-Pharmacology—Pharmacometrics-Intern_R11074


from: James Sneyd <>
date: Sep 23, 2019, 6:42 PM
subject: PhD Position: …Calcium & Secretion of Saliva, U Auckland

The group of James Sneyd (University of Auckland, New Zealand) is
recruiting one or two PhD students to work on a project involving the
dynamics of calcium and the secretion of saliva. The funding covers
student fees and stipends.

Applicants should have a degree in mathematics, physics, engineering,
biomathematics or computational science (or the equivalent), and must
have some experience in the application of mathematical techniques to
problems in cell physiology.

More information about the University of Auckland can be found at and

Applicants should email their cv, together with a cover letter
describing their research interests and experience, to


from: Thomas, Philipp <>
date: Oct 2, 2019, 7:10 PM
subject: PhD Position: Stochastic Cell Dynamics, Imperial College London

We are advertising a fully-funded PhD position in Applied Mathematics.
Applicants should contact The deadline for
applications is 31 Oct 2019.

Details can be found at


from: SCHUMACHER Linus <>
date: Oct 3, 2019, 4:27 AM
subject: PhD Positions: Biomedical AI, U Edinburgh

UKRI Centre for Doctoral Training in Biomedical AI – funded places
available for 2020 entry

The new UKRI CDT in Biomedical AI at the University of Edinburgh is
looking to recruit 12 students to start in September 2020. Students will
be fully funded for 4 years (stipend, fees and research support budget).
CDT website:
Building on a tradition of world-leading research and innovation at
Edinburgh, our Centre will train a new generation of interdisciplinary
scientists who will shape the development of AI within biomedical
research over the next decades. Our students will be equipped with all
the technical skills to realise biomedical breakthroughs through AI
while anticipating and addressing the societal issues connected with
their research. The CDT programme follows 1+3 format. In Year 1 you will
study towards a Master by Research, undertaking a number of taught
courses and taster research projects to broaden and refine your skills
and explore different research areas. In Year 2-4 you will propose and
pursue an interdisciplinary PhD project under the joint supervision of
an AI expert and an application domain expert.

Programme benefits
-Fully funded 4-year studentship, covering tuition fees, stipend and
travel/research support.
-Extensive choice of projects at the intersection of AI, biomedicine and
social sciences, under guidance of world-leading researchers and
clinical experts.
-Interdisciplinary training programme comprising a bespoke bootcamp,
taught courses, workshops, taster projects and other activities.
-Opportunities for joint projects, research visits, internships and
other collaboration with our extensive network of research and industry
partners worldwide.
-Tailored training in public engagement, entrepreneurship awareness,
responsible innovation and leadership skills.
-Wide variety of CDT events throughout the year, including seminar
series, masterclasses, summer school, conferences, guest lectures and
industry days.
-State-of-the-art facilities and vibrant world-class research community
at the University of Edinburgh.

Entry requirements
– A UK 2.1 honours degree, or its international equivalent, in computer
science, mathematics, physics, engineering or a related discipline.
-Applicants from a biomedical or social sciences background with
relevant technical experience are also welcome.

-CDT studentships fund 4 years of study, covering tuition fees, stipend
and travel/research support.

-Deadline for international applicants: 29 November 2019
-Deadlines for UK/EU applicants: 29 November 2019; 31 January 2020
-More information and how to apply:
-Follow us on Twitter: @BioMedAI_CDT

The University of Edinburgh is a charitable body, registered in
Scotland, with registration number SC005336.


from: Samuel Isaacson <>
date: Sep 26, 2019, 9:19 AM
subject: Post-doc: Stochastic Reaction-Drift-Diffusion Methods, Boston U

Applications are invited for a postdoctoral position in the research
group of Prof. Samuel Isaacson in the Department of Mathematics and
Statistics at Boston University. This position is from a recently funded
NSF grant to develop stochastic reaction-drift-diffusion methods for
studying T cell signaling dynamics in realistic cellular geometries. The
project will involve both the development of new particle-based methods
for simulating spatial transport and reactions within cells, and the
development of mathematical models for T cell signaling in collaboration
with experimentalists. The former involves the continuing development of
accurate analytical and numerical methods for approximating the
solutions to very high dimensional coupled partial-integral differential
equations using stochastic methods. Applicants interested in either
numerical method development or mathematical modeling are invited to

Applicants should have a background in mathematical biology, biophysics,
scientific computing, computational physics, numerical analysis or
related areas. As many planned simulations require solving
computationally expensive PDE and particle models, expertise in a
compiled language is required (C, C++, Fortran or Julia). No previous
experience in T cell modeling is required.

Applications should be submitted through Mathjobs at

and include a CV, a research statement, and three letters of
recommendation. The start date is flexible, but not before summer 2020.
Review of applications will be ongoing until the position is filled. For
more information about this position please contact Prof. Isaacson at

Boston University is an equal opportunity employer and all qualified
applicants will receive consideration for employment without regard to
race, color, religion, sex, sexual orientation, gender identity,
national origin, disability status, protected veteran status, or any
other characteristic protected by law. We are a VEVRAA Federal


from: Tomas Gedeon <>
date: Sep 29, 2019, 9:40 PM
subject: Post-doc: Modeling Regulatory Network Dynamics, Montana St U

Applications are invited for a position of Postdoctoral Associate in
Department of Mathematical Sciences at Montana State University. The
postdoctoral associate will work in the research group of Prof. Tomas
Gedeon on development and applications of a new modeling platform
(DSGRN) for dynamics of gene regulatory networks. This work is done in
collaboration with groups at Rutgers and Duke Universities in a highly
collaborative and interdisciplinary environment.

DSGRN (Dynamic signatures generated by regulatory networks) provides a
comprehensive description of dynamics across parameter space of gene
regulatory networks. The projects range from applications to cell cycle
dynamics, control of network phenotypes in cancer models, construction
of potential networks from time series data to theoretical aspects of
DSGRN description of dynamics, development and efficient
computational implementation of new algorithms.

A successful candidate will have background in dynamical systems and
modeling, some ability to use Matlab and desire to work in intersection
of mathematics and cell biology. An ideal candidate will have additional
background in Python, data science techniques of time series analysis,
and prior exposure to cell biology and gene regulation modeling.

For more information about this position, please contact Dr. T. Gedeon To apply please send a CV and the statement
describing your research interests to the same email.

Screening of applications starts immediately with preferred start in
January 2020.


from: Bearon, Rachel <>
date: Oct 3, 2019, 4:30 AM
subject: Post-doc: Applied Mathematics, U Liverpool

3 year PDRA in bio-fluids: “Shape, shear, search & strife; mathematical
models of bacteria”

Deadline 1st Nov 2019

Informal enquiries welcome: contact Rachel Bearon


from: Matthew Helmus <>
date: Oct 9, 2019, 3:38 PM
subject: Post-doc: Invasive Species Population Dynamics, Temple U, US

The Integrative Ecology Lab at Temple University is seeking creative and
productive applicants for a postdoctoral researcher conducting
mathematical modeling of invasive spotted lanternfly (Lycorma
delicatula) population dynamics.  The spotted lanternfly is an invasive
Asian planthopper that was first introduced to the US outside of
Philadelphia, Pennsylvania in 2014, and has since spread to five nearby
states. In addition to natural spread, human-assisted lanternfly spread
occurs during all life stages: adults and nymphs hitchhike on cars and
it can spread long distances in the egg stage because it lays eggs on
mobile outdoor objects like recreational vehicles and landscaping
materials. It feeds on over 70 plant species, sometimes at very high
densities, including economically important species like maples, apples,
hops, and grapes. Invaded vineyards have lost entire crops, affecting
wine production. We are just beginning to model its pattern of spread
and potential to disrupt agricultural and natural ecosystems. Billions
of dollars are under threat. You can be at the forefront of
cross-disciplinary modeling research on this emerging invasion.

The position will be co-advised by Matthew Helmus (Biology) and
Benjamin Seibold (Math) at Temple University. Helmus jointly runs the
Integrative Ecology Lab (iEcoLab) with the mission to integrate
biodiversity science with human ecology to understand contemporary
patterns of biodiversity and its functioning within ecosystems
(  Seibold directs the Center for
Computational Mathematics and Modeling (C2M2) on cross-disciplinary
research in applied and computational mathematics
( To read more about their spotted
lanternfly research see The postdoc would
work closely with two other postdocs and two graduate students also
working on spotted lanternfly at Temple. Finally, the postdoc would
interact with a USDA funded multi-university team of cross-disciplinary
scientists and public stakeholders and would regularly attend working
groups and meetings on this invasive pest.

Expertise in mathematical modeling, partial differential equations,
numerical methods, and programming is required. Candidates should
have a Ph.D. in Biology, Mathematics, Physics, or
other related fields. Most importantly, the successful applicant will be
well-organized, able to work both independently and in a team setting,
and motivated to learn. This position is ideal for those craving a
career in the exciting, fast-paced world of biodiversity science.
Applications should be emailed to both Dr. Helmus (
and Dr. Seibold ( Please send as a single PDF:
-Cover letter outlining qualifications, experience and why you are
interested in the position
-Curriculum vitae including links to authored publications
-Name, phone number, and email addresses of three references

Review of applications will begin on October 23rd and will continue
until the position is filled.

iEcolLab is in a new LEED-Gold certified building in historic
Philadelphia. iEcoLab is part of the Center for Biodiversity, which
provides state-of-the-art biodiversity research facilities along with
support staff with expertise in media development, GIS technology,
high-performance computing, and genetics. Temple University, founded in
1884, is a public R1 university with a diverse student body of ca.
40,000 students. It is the sixth-largest provider of graduate school
education in the U.S.A., is within the top 4% of research institutions
in the U.S. and is in the top ten of the fastest gainers in ranking by
the U.S. News & World Report Best Colleges.

Philadelphia is the birthplace of the United States. It is filled with
numerous attractions (e.g., Philadelphia Museum of Art, Philadelphia
Zoo, Academy of Natural Sciences), amazing food, and it is a quick train
ride to New York City and Washington DC. Philadelphia is nestled within
an extensive national/state trail and park system and is very close to
Valley Forge National Park, the Pocono Mountains, the unique Pine Barren
ecosystem, and beaches of the Atlantic shore.

Temple University is an equal opportunity, equal access, affirmative
action employer committed to achieving a diverse community. iEcoLab
believes the crisis in biological diversity can only be addressed by
scientists from diverse backgrounds and with diverse viewpoints. iEcoLab
and C2M2 strongly encourages applications with such diversity.


from: Thomas, Philipp <>
date: Oct 2, 2019, 7:26 PM
subject: Lecturer: Biomathematics, Imperial College London

Imperial’s Department of Mathematics is seeking to recruit a
biomathematician, with significant interests in Machine Learning. This
position will be linked with the Biomathematics research group in the

Further information can be found at


from: Murrugarra, David <>
date: Oct 8, 2019, 7:56 PM
subject: Tenure-Track Position: Mathematical Biology, U Kentucky, US

Position title: Tenure track position in Mathematical Biology

The Department of Mathematics at the University of Kentucky in
Lexington, Kentucky invites applications for a full-time faculty
position at the tenure-track Assistant Professor level beginning in Fall
2020. A successful candidate is expected to pursue a vigorous research
program and to deliver high quality teaching to both graduate and
undergraduate students. We encourage applications from candidates with
research interests in mathematical biology, broadly defined to include,
for example, connections to machine learning, stochastic processes or
inverse problems. The Department will also consider applicants with
other research interests that are compatible with those of the faculty.

Applicants should have a Ph.D. degree in mathematics or closely related
fields by the time the appointment begins and are expected to present
evidence of excellence in research and teaching.

In order to be considered a candidate, applicants will need to complete
the following two steps:

1. Submit your job market materials to These materials
should include: the standard AMS Cover Sheet for Academic Employment,
a curriculum vitae, a statement about current and future research, a
statement on teaching experience and quantitative assessments of
teaching, a statement on inclusion, diversity, and equity (described
below), and at least three (3) letters of reference addressing the
applicant’s research and one (1) letter of reference addressing the
applicant’s teaching. All application materials must be submitted online
at 2. Complete an application within the University of Kentucky
employment system by visiting:

As a department and university, we are strongly committed to creating an
inclusive and effective teaching, learning, research, and working
environment for all (see For your statement
on inclusion, diversity, and equity, in one to two pages, applicants are
asked to reflect on their commitments, approaches, and insights related
to inclusion, diversity, and equity.

Applications will be reviewed as they are received. Applications
submitted by November 15, 2019 will receive full consideration.

For more information about the department, please visit

The University of Kentucky is an Equal Opportunity Employer and
encourages applications from veterans, individuals with disabilities,
women, African Americans, and all minorities.


from: Zhao, Shan <>
date: Oct 8, 2019, 8:45 AM
subject: Full Professor Position: Mathematical Biology, U Alabama, US

The Department of Mathematics at The University of Alabama invites
applications for a tenured position at the Professor level, in the area
of mathematical biology, beginning on August 16, 2020 or as negotiated.
The salary for this position will be competitive.

We are seeking an applied mathematician who has outstanding records in
interdisciplinary research areas at the interface of mathematics and
biology. Specific areas of interest include, but are not limited to
biophysics, biomechanics, ecology, neuroscience, physiology, drug
discovery, system biology, and biological data analysis. The successful
candidate is expected to play a significant role in the recently formed
Alabama Life Research Institute

The University of Alabama is a student-centered research university that
is ranked very highly research active by the Carnegie Classification.
With 30 faculty, 43 graduate students, and over 400 undergraduate
majors, the Department of Mathematics currently has active groups in
algebra, analysis, topology, applied mathematics, scientific computing,
and mathematical biology. The successful candidate should have an
international reputation for scholarship, a proven track record of
securing external funding, demonstrated excellence at graduate and
undergraduate education, and a willingness to supervise undergraduate
and graduate research. Preference will be given for someone who will
complement existing strengths of the applied and computational math

More details available here:


from: Whang, Kenneth C. <>
date: Oct 8, 2019, 10:40 AM
subject: NSF: National Artificial Intelligence Research Institutes

News Release 19-021
NSF leads federal partners in accelerating the development of
transformational, AI-powered innovation
New funding opportunity anticipates $200 million in long-term
investments in AI research and education over the next 6 years

The National Science Foundation today announced the creation of a new
program that will significantly advance research in AI and accelerate
the development of transformational, AI-powered innovation by allowing
researchers to focus on larger-scale, longer-term research.

The National Artificial Intelligence Research Institutes program
anticipates approximately $120 million in grants next year to fund
planning grants and up to six research institutes in order to advance AI
research and create national nexus points for universities, federal
agencies, industries and nonprofits.

“Advances in AI are progressing rapidly and demonstrating the potential
to transform our lives,” said NSF Director France C√≥rdova. “This
landmark investment will further AI research and workforce development,
allowing us to accelerate the development of transformational
technologies and catalyze markets of the future.”

“The National Science Foundation is at the cutting edge when it comes to
this Administration’s efforts to prioritize AI research and development.
These institutes will advance our national strategy for U.S. leadership
in AI, leverage important multisector R&D partnerships and support
groundbreaking AI innovation for the benefit of the American people,”
said Michael Kratsios, Chief Technology Officer of the United States.

The program, led by NSF in partnership with the National Institute of
Food and Agriculture, U.S. Department of Homeland Security’s Science &
Technology Directorate, U.S. Department of Transportation’s Federal
Highway Administration and U.S. Department of Veterans Affairs, has both
planning and institute tracks. The planning track will support planning
grants for up to two years and $500,000 to enable teams to develop
collaborative plans and capacity for full institute operations. The
institute track will support cooperative agreements of $16 million to
$20 million for four to five years (up to $4 million per year) for the
creation of AI Research Institutes in an initial set of high-priority
-Trustworthy AI
-Foundations of Machine Learning
-AI-Driven Innovation in Agriculture and the Food System
-AI-Augmented Learning
-AI for Accelerating Molecular Synthesis and Manufacturing
-AI for Discovery in Physics
The AI Research Institutes program will support the advancement of
multidisciplinary, multi-stakeholder research on larger-scale,
longer-time-horizon challenges in AI research than are supported in
typical research grants.

“These institutes will accelerate the transition of AI innovations into
many economic sectors while also nurturing and growing the next
generation of AI researchers and practitioners,” said NSF Acting
Assistant Director for Computer and Information Science and Engineering
Erwin Gianchandani. “This long-term, substantive and highly visible
investment in AI research and workforce development will realize the
potential of AI and enable the U.S. to maintain global leadership.”

The AI Research Institutes program demonstrates NSF’s continued
leadership in AI, building upon decades of support for transformative
AI innovations, workforce development, and advanced and scalable
computing resources enabling AI.

NSF’s ability to bring together a vast range of scientific disciplines –
including computer and information science and engineering, cognitive
science and psychology, economics and game theory, engineering and
control theory, ethics, linguistics, mathematics, philosophy, and more –
uniquely positions NSF to lead the nation in addressing key research

Earlier this year, NSF joined other federal agency partners in
announcing the release of the 2019 Update to the National Artificial
Intelligence (AI) Research and Development (R&D) Strategic Plan. In
addition, Advances in AI are core to many of the “10 Big Ideas for
Future NSF Investments,” key among these being Harnessing the Data
Revolution and the Future of Work at the Human-Technology Frontier.

Grant proposals for the National AI Research Institutes program are due
to NSF no later than Jan. 28, 2020, for Institute proposals and Jan. 30,
2020, for planning grant proposals.


Subject: SMBnet Reminders

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