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Category: Opportunities Outside IOB

Statistical Bioinformatician Position @ CDC

Position: Statistical Bioinformatician

  • This position is located in the Biostatistics and Information Management Office and will support the entire Division in the area of AMD-WGS.

Overview

CDC’s Division of Foodborne, Waterborne, and Environmental Diseases (DFWED) in the National Center for Emerging and Zoonotic Infectious Diseases (NCEZID) is dedicated to development and advancement of biomedical research to improve public health “through the prevention and control of disease, disability, and death caused by foodborne, waterborne, and environmentally transmitted infections.” The Biostatistics and Information Management Office (BIMO) works with epidemiologists and laboratory scientists in the Division’s five branches to adapt existing analytical methodology and develop new techniques for statistical analysis.

Responsibilities

The Biostatistics and Information Management Office has begun a new initiative to link and analyze large, complex databases containing information obtained from traditional surveillance and laboratory methods with data obtained through new advanced molecular diagnostics (AMD). The incumbent will be involved in both methods development as well as research analyses of genomic data such as next-generation sequencing (NGS) whole genome sequence (WGS) data. The main responsibility will be working with experts in the fields of epidemiology, laboratory science, and bioinformatics to develop statistical methods and tools for the analysis of WGS data, including successful statistical algorithms for outbreak detection. The incumbent will also support the Division with statistical approaches to research questions pertaining to the use and interpretation of genomics data, and will provide training for the Division, focused on statistical analysis of pre-processed genomics data. With the advent and use of these revolutionary microbial diagnostic methods, as well as future diagnostic methods including metagenomic data, the incumbent’s analyses and method development have the potential to truly have a high-impact.  This position will include extensive collaboration and coordination with Division Branches, as well as other scientific groups.

 

 

Qualifications

A qualified applicant should have a PhD in Bioinformatics, Computer Science, Computational Biology, Biostatistics, Statistics, or other relevant discipline. The applicant should have a strong background in biostatistics or bioinformatics, and it is preferred that he or she also have a background in biology or genetics. Other qualifications include:

  • Familiarity with the NGS technology and with genetics and “omic” data (e.g., genomic and epi-genomic data).
  • Familiarity with advanced methods for determining differential expression in high-throughput experiments.
  • Familiarity with cluster detection and measures of inter-population genetic diversity.
  • Experience with data visualization techniques and statistical methods used for analysis of WGS data and other “omic” data.
  • Necessary programming skills (e.g., Perl, BioPerl) to conduct statistical analysis of this type of data with open-source software such as R and Bioconductor.

 

Please email a CV and cover letter in support of your application to:

Gordana Derado, PhD.

gderado@cdc.gov

 

Computational Biologist at Reed College

*BIOLOGY- COMPUTATIONAL BIOLOGY (TT) *The Biology Department at Reed
College invites applications for a tenure-track faculty position
(preferably at the rank of assistant professor) in computational biology. We
seek candidates with demonstrated excellence in developing, integrating or
applying computational or quantitative methods to study biological
questions. Outstanding applicants in all areas of computational biology
will be considered*.* Qualifications include a PhD in biology, computer
science or relevant discipline and postdoctoral or professional experience.

Candidates should articulate a plan to establish and maintain a rigorous
and competitive research program that incorporates research opportunities
for Reed undergraduates. A competitive start-up package and research space
will be provided based on the successful applicant’s needs, with salary
determined according to the applicant’s experience.

In addition to advising senior theses, teaching duties will include the
development of a new course that introduces students to computational
approaches and techniques in biology, as well as an upper level course in
the candidate’s computational field of expertise. Additional teaching
opportunities could include advanced seminar courses. Formal teaching
experience at the college level will be viewed favorably but is not
required.

Reed is a distinguished liberal arts college with approximately 1400
students that offers a demanding academic program to bright and dedicated
undergraduates.  The cover letter should address how the applicant’s
teaching and scholarship are suited to such a liberal arts college
environment.  The Reed community believes that cultural diversity is
essential to the excellence of our academic program. All applicants,
therefore, are invited to address how their teaching, scholarship,
mentoring, community service, or other activities could support Reed’s
commitment to diversity and inclusion (see http://www.reed.edu/diversity/).

Application materials (a cover letter, curriculum vitae, research plan, and
representative publications) and three letters of recommendation should be
sent electronically as PDF (preferred) or Word attachments to
*biology.search@reed.edu
<biology.search@reed.edu>*, subject “Computational Biology Search” by *1
October 2014 *for full consideration. An equal opportunity employer, Reed
College encourages applications from members of underrepresented groups.
Specific inquiries should be directed to Dr. Suzy Renn (renns@reed.edu),
the chair of the search committee.

Postdoctoral position in human population genomics (2015)

The Lachance Lab will open its doors in January as part of Georgia
Tech¢s School of Biology.  Our lab uses whole genome sequencing and
computational approaches to understand how human populations evolve.
We are interested in secondary contact between divergent human
populations and the interplay between adaptation and hereditary
disease.

I am pleased to announce that a postdoctoral position in human
population genomics will be available in early 2015.  This
postdoctoral position will focus on evolutionary models of hereditary
disease, and there will be opportunities to develop an independent
research program.  Georgia Tech is located in the heart of Atlanta,
and there will be multiple opportunities for local collaborations
(including other researchers in the School of Biology who study
molecular evolution and integrative genomics).

The ideal candidate will have a PhD in biology, computer programming
ability, strong quantitative skills (e.g. expertise in theoretical
population genetics or genetic epidemiology), and multiple first
author papers.  Previous mentoring experience is also a plus.  Funding
is available for two years and the start date is flexible (early
2015).  Informal inquiries are welcome: send an email containing an
updated CV to joseph.lachance@biology.gatech.edu.  I will be attending
SSE¢s Evolution 2014 meeting in Raleigh, and would be glad to meet
with anyone seeking to join our team.  Two PhD student positions are
also available.

Postdoctoral position in human population genomics (2015)

The Lachance Lab will open its doors in January as part of Georgia
Tech¢s School of Biology.  Our lab uses whole genome sequencing and
computational approaches to understand how human populations evolve.
We are interested in secondary contact between divergent human
populations and the interplay between adaptation and hereditary
disease.

I am pleased to announce that a postdoctoral position in human
population genomics will be available in early 2015.  This
postdoctoral position will focus on evolutionary models of hereditary
disease, and there will be opportunities to develop an independent
research program.  Georgia Tech is located in the heart of Atlanta,
and there will be multiple opportunities for local collaborations
(including other researchers in the School of Biology who study
molecular evolution and integrative genomics).

The ideal candidate will have a PhD in biology, computer programming
ability, strong quantitative skills (e.g. expertise in theoretical
population genetics or genetic epidemiology), and multiple first
author papers.  Previous mentoring experience is also a plus.  Funding
is available for two years and the start date is flexible (early
2015).  Informal inquiries are welcome: send an email containing an
updated CV to joseph.lachance@biology.gatech.edu.  I will be attending
SSE¢s Evolution 2014 meeting in Raleigh, and would be glad to meet
with anyone seeking to join our team.  Two PhD student positions are
also available.

Postdoc in Population genomics of the X chromosome

A post doc position is available to work in the research group of
Mikkel Heide Schierup at the Bioinformatics Research Centre at Aarhus
University on comparative evolutionary genomics of the X chromosome
(and the Y chromosome) in humans and other great apes. The position is
funded by the Danish National Research Council for Independent Research
and includes funds for targeted experiments.

We have recently reported that the X chromosome is under strong adaptive
evolution (Hvilsom et al. 2012, PNAS 10.1073/pnas.1106877109) and that
it has diversity patterns best explained by a large number of very strong
selective sweeps, independently occurring in similar places in most great
apes species, including humans (Nam et al. 2013 arXiv:1402.5790v2). The
candidate will develop models and perform analyses to study this pattern
and test different hypotheses, including the possible involvement of
X-ampliconic regions. The position will exploit high coverage whole genome
sequencing of many individuals of each great apes species and phased trio
data from humans. There will also be the opportunity to do expression
analysis using RNAseq of testis samples and targeted resequencing of
particular difficult regions, such as ampliconic regions. Furthermore,
there will be the opportunity to join our participation in international
consortia for analysis of primate genomes.

A PhD degree and strong expertise in statistical analysis and population
genetics is essential. Analyses will require programming skills and
familiarity with high performance computing.

The position is initially for 1 year with possible extension for 1 more
year. The starting salary depends on qualifications but is typically
in the range of EUR 59,000-65,000 per annum, and there is often reduced
taxation for applicants which have not lived and worked in Denmark for
the past 3 years.

The working environment is the Bioinformatics Research Center
(www.birc.au.dk), which has a strong emphasis on evolutionary analyses
and includes the research groups of Drs Thomas Mailund, Thomas Bataillon
and Asger Hobolth with whom there are extensive collaborations.

Informal inquiries are welcomed and should be sent to Mikkel Heide
Schierup at mheide@birc.au.dk. The application with CV, list of
publications and names of three referees should also be sent to
mheide@birc.au.dk preferably before July 7. Starting date is negotiable,
but the position is available immediately.

Postdoc in Demographic Analysis of Diversity across the Genome

A postdoc position is available to work with Dr Kai Zeng and Prof Jon
Slate at the University of Sheffield. The position is funded by the
Natural Environment Research Council (NERC) to carry out population
genomic studies in great tits (/Parus major/). Questions of interest
include examining how demography and natural selection shape patterns of
diversity across the genome, by using existing methods and developing
new methods. The project involves whole-genome sequencing of multiple
great tit individuals using high-throughput sequencing instruments, and
the subsequent bioinformatic/population genetic analysis of the data.
Therefore, expertise in population/evolutionary genetics, computer
programming and statistical analysis of large-scale datasets is
essential. Experience in preparing DNA samples for high-throughput
sequencing instruments is an advantage, but non-essential.

The post is available for up to 3 years, and is available from September
2014 or as soon as possible afterwards. The starting salary is £28,972-
£35,597 perannum, depending on experience and qualification. Note that
the information regarding pay and starting date is only provisional at
this stage, and will be announced when it is finalised. Informal
enquiries are highly welcomed and should be sent to k.zeng@sheffield.ac.uk.

Postdoc in Bioinformatics/Evolutionary Genetics

We are looking for a motivated bioinformaticist to join the CREST team at
the University of Hawaii Hilo.  CREST is a 5-year NSF-funded project (July
2014 — June 2019; see project overview below).  Hawaii is world renowned as
an ideal setting for evolutionary studies, and Hilo and the Big Island
boast exceptional cultural and natural diversity and a high standard of
living.

This is an exciting opportunity to work with a diverse team of researchers
working collaboratively on the common theme of organismal response to
environmental change.  The successful candidate will join a team of 9
faculty, 3 technicians, and several graduate students studying the short-term
(stress response) and long-term (adaptation) responses of a broad range of
terrestrial and marine organisms to environmental change, broadly defined.

The postdoc will provide expertise in the application of bioinformatics
analyses and will work alongside project personnel and collaborating
bioinformaticists on campus and at outside institutions on the analysis of
genomics and transcriptomics data to meet project goals.  Responsibilities
will include: collaborating in the design of experiments and analysis of
data from next-generation sequencing instruments, including RNA-Sequencing,
SNP, and full-genome sequencing data; assisting in the management of
genomic data and associated phenotypic trait data on various local data
storage systems; and preparation of manuscripts, reports and presentations.

CREST Project Overview: The overarching theme of this project is
Understanding Biotic Response to Environmental Change in Tropical
Ecosystems Through a Place-Based Context. This CREST:TCBES proposal focuses
on three synergistic research themes: 1) Organismal Response to
Environmental Change (OREC): While local adaptation along environmental
gradients and tracking of changing environments involve short-term
acclimation and longer term evolution, it is not known if organisms are
responding to average environmental conditions or to the extreme conditions
experienced in their habitats. The OREC team will examine the short- and
long-term responses of key organisms to a range of environmental
conditions, both steady and fluctuating, and will incorporate those results
into models of landscape-level response to climate change. 2) Behavioral
Responses to Environmental Change (BREC): Behaviors central to the survival
and reproductive success of animals have evolved through natural and sexual
selection in a far different ecological environment than exists today. The
BREC team will use emerging genetic and acoustic tools to examine the
effect of anthropogenic change on important social behaviors in animals
ranging from arthropods to whales. 3) Dynamic Interactions between
Symbioses and Environment (DISE): Macro-organisms live in symbiosis with a
community of microorganisms; these symbiotic relationships can shift in
response to environmental changes. The DISE team will explore adaptations
of the mutualism-pathogenesis-parasitism continuum in multiple symbiotic
systems. Integration of next-generation DNA sequencing and bioinformatics
analysis in each of the research areas

will allow unprecedented insight into the molecular basis of biotic
responses to environmental change.

As teaching experience is an important component of the postdoctoral
experience, the postdoc will also be encouraged to teach one course or
workshop per year at UH Hilo at the graduate** or undergraduate level in
his/her area of expertise.

**Tropical Conservation Biology and Environmental Science Graduate Program

http://tcbes.uhh.hawaii.edu/

The position is for one year, renewable.

The successful candidate will be a self-starter and creative problem solver
with strong communication and interpersonal skills.  Minimum
qualifications: PhD involving bioinformatics analysis on an evolutionary
problem, experience with genomic techniques and bioinformatics analysis.
Desired qualifications: software development and implementation for
multi-dimensional data from genome sequencing, gene expression and SNP
genotyping between species, populations and experimental treatments,
mathematical modeling of population genetic processes.

For Inquiries:  Donald Price 808-932-7178, donaldp@hawaii.edu.

To apply: Please send CV, contact information for 3 references, a cover
letter describing how you meet the position’s qualifications, and any
relevant publications.  Please send all materials in a single email to Don
Price (donaldp@hawaii.edu) with the subject line Bioinformatics Postdoc.

Anticipated start date: 1 September 2014 (but flexible).  Review of
applications will begin Monday, 14 July.  Individuals from
under-represented groups are particularly encouraged to apply.

We (Don Price and Elizabeth Stacy) will be at the SSE 2014 meeting in
Raleigh.  Please find us if this position interests you!

Postdoc in analyzing and managing genomic sequences in Central Africa

Drexel University hosts two programs in central Africa, the Central
African Biodiversity Alliance (www.CABAlliance.org) and the Bioko
Biodiversity Protection Program (www.Bioko.org), which operate in
Cameroon, Equatorial Guinea and Gabon. We seek a highly qualified and
enthusiastic individual to join our team to conduct bioinformatics
analyses, develop statistical methods, and analyze population-level
genetic data of select animals and plants from Central Africa.

The successful candidate will be expected to analyze and manage genomic
sequence from samples collected in central Africa and contribute to
the analysis of comprehensive SNP genotypes from wild chimpanzees
and an arrowroot plant. The incumbent will be encouraged to develop
her/his own research focus on some aspect(s) of the project, which will
include examining gene-environment relationships in insects, reptiles
and amphibians across an elevational gradient from the Gulf of Guinea
rainforest to the Cameroon Highlands.  The successful candidate will have
demonstrated experience in next generation sequencing analyses as well as
strong computational skills, including proficiency in at least one major
programming or scripting language (preferably Python, but others apply)
and use of a Linux/Unix environment.  A good understanding of molecular
and evolutionary biology, statistics and proficiency in R is a plus.

The postdoctoral researcher will join the laboratory of Dr. Katy Gonder
(http://www.drexel.edu/biology/contact/facultyDirectory/Gonder/) . The
researcher will be expected to collaborate closely with our team of
postdoctoral researchers and students at Drexel and in central Africa. The
position will also include collaboration with other CABAlliance research
groups, including Dr. Tom Smith’s group at UCLA and Dr. Nicola Anthony’s
group at the University of New Orleans.

Inquiries about this position can be directed to
Dr. Matthew Mitchell (mwmitchell@drexel.edu) with a subject of
Bioinformatics Postdoc.  Please apply for this position online at:
https://www.drexeljobs.com/applicants/jsp/shared/frameset/Frameset.jsp?time=1402452521926
or visit www.drexeljobs.com and search for ‘bioinformatics.’ The
requisition number is 6189.

The position is available from September 1, 2014 for one year with the
possibility of renewal for up to three years.  Salary will be determined
based on experience level.

PostDoc in Comparative Genomics, Statistics, and Bioinformatics

The Wilson Sayres Lab at Arizona State University in Tempe, AZ
is recruiting two Postdoctoral Research Associates in the areas
of Comparative Genomics, Statistics, and Bioinformatics to develop
methodologies and study evolutionary questions related to sex chromosome
evolution and sex biased processes, primarily in mammals, but also
other taxa.  Successful applicants will join a rapidly growing lab
involved in a variety of active research projects and collaborations.
Current projects include (1) assessing the magnitude and effect of male
mutation bias, (2) simulating patterns of demography and selection on sex
chromosomes, (3) determining the timing of recombination suppression on
mammalian sex chromosomes, (4) measuring patterns of expression evolution
on the active and inactive X chromosomes, (5) identifying signatures of
positive selection across mammals proteomes (including sperm proteome),
(6) identifying signals of convergent molecular evolution.

The Wilson Sayres Lab is part of the Center for Evolutionary Medicine
and Informatics (CEMI), one of 10 research centers in the Arizona State
University’s Biodesign Institute. Research in the Wilson Sayres Lab
covers many different questions in population genetics and molecular
evolution, at the interface of biology, statistics, and computer
science. Lab members have the opportunity to develop both dry-lab and
wet-lab research programs.

Required Qualifications:
Ph.D. in genomics, bioinformatics, or a related field

Desired Qualifications:
1. Experience working with genomes and evolutionary analyses
2. Knowledge of programming languages
3. Knowledge of statistical methodologies
4. Experience parsing and analyzing large datasets (e.g. RNAseq)
5. Understanding of sex chromosome evolution

Application must contain:
1. Curriculum Vitae (max 2 pages)
2. Cover Letter describing your previous research and future research
plans (max 1 page)
3. Names, addresses, and phone numbers of three professional references

Applications will continue to be accepted and considered until the job
is filled/closed.

For more information see
https://sites.google.com/site/mwilsonsayres/research.

To apply, forward one document that includes a cover letter, detailed
CV, and names of 3 references to mwilsonsayres@gmail.com. Please put
the job title in the subject line of the letter.

Position in large transcriptome and genome resequencing

A bioinformatics position is available in the group of Jochen Wolf at
the Evolutionary Biology Centre in Uppsala, Sweden. The position is
initially limited to 2-years and after evaluation can be made permanent.

Background.
We are a young, growing research group that applies an integrative
approach to study evolutionary processes in natural populations. Major
research themes include speciation and genome evolution. One of the
main question is to understand the evolutionary processes and genetic
mechanisms underlying species divergence (e.g. Ellegren et al. 2012,
Shafer et al. 2013, Poelstra et al. in press). Using large-scale
genetic approaches, as well as field based experiments, we characterize
genomic divergence across populations and (sub-)species and assess its
relationship to functional phenotypic divergence. In addition, we engage
in (macro-evolutionary) comparative approaches to study evolution across
larger timescales (e.g. Nabholz et al. 2013) and sometimes get interested
in methodology (Mugal et al. 2014, Vijay et al. 2013). Empirical
systems currently include birds (swallows and corvids), marine mammals
(pinnipeds and killer whales) and the European hemiclonal Pelophylax
water frog system.

The position.
The successful applicant will be responsible for management of large
transcriptome and genome resequencing data sets and engage actively
in ongoing research projects. The applicant is familiar with genetic
databases and has experience in standard bioinformatic approaches using
high throughput sequencing data from Illumina, SOLID, IonTorrent and
(increasingly) single molecule sequencing. Common tasks involve data
management, genome assembly and annotation of vertebrates (Birds ca. 1.2
Gb, marine mammals: ca. 3Gb), multiple sequence alignments, mapping,
genotyping, etc. Proficiency in relevant programming languages (UNIX,
Perl, Python, etc.) is naturally assumed. A background in population
genomics or comparative genomics is beneficial.

The environment.
The Evolutionary Biology Centre (http://www.ebc.uu.se/) is one of the
world’s leading research institutions in evolutionary biology. It is
part of Uppsala University which has been ranked first place among all
European Universities in the subject of biology (CHE European ranking)
and bridges a broad variety of disciplines. The scientific environment
with numerous seminars, journal clubs and social activities offer
excellent possibilities for contacts and collaborations. A graduate school
currently directed by Jochen Wolf provides a framework for courses and
high-profile seminars broadly reflecting the group’s research interests
(http://www.ebc.uu.se/education/postgrad/gradschool/Seminars). Our
lab is part of the Department of Evolutionary Biology
(http://www.ebc.uu.se/Research/IEG/evbiol/), an active
environment addressing fundamental evolutionary questions
with a wide range of different approaches. As a member of
the Science for Life Laboratory (http://www.scilifelab.se/)
we make extensive use of high performance computing resources
(https://www.uppmax.uu.se/uppnex) and extended bioinformatic
infrastructure (http://www.scilifelab.se/platforms/bioinformatics/). We
also actively interact with research groups of the nearby BioMedicalCentre
(http://www.imbim.uu.se/Research). The lab is situated in the student
town of Uppsala, that offers rich opportunities in cultural and outdoor
activities. Sweden’s capital Stockholm is less than an hour’s train
ride away.

How to apply.
Applicants with a suitable background  with and without
a PhD degree are encouraged to apply. Applications
including a CV, a statement of motivation and the contact
details of at least two references should be sent to:
http://www2.personalavd.uu.se/jobb/appform.php?lang=en&case=UFV-PA%202014/1596

The positions remains open until filled. Starting date is
flexible. For more information contact jochen.wolf@ebc.uu.se or see
http://www.ebc.uu.se/Research/IEG/evbiol/research/Wolf/.