Thank you for your interest in the Englander Institute for Precision Medicine at Weill Cornell Medicine.  We are looking for skilled talent to join our team.  Please find descriptions of current opportunities below, and follow the application instructions. We look forward to speaking with you.

Bioinformatics Analyst (Genomics and Clinical data)

At the Englander Institute for Precision Medicine (EIPM), our mission is to use Next Generation Sequencing (NGS) data to give late-stage cancer patients therapeutic options to prolong and better their quality of life. In just four years we have built a CLIA-approved genomics test that has already been used on over 800 patients. As a Bioinformatics Analyst at IPM, you will be able to immediately impact and build data products aimed at expanding the scope of our genomics platform. You will get to create new ways of improving aspects of the genomics platform such as sample collection, sequencing, genomic data analysis, and reporting. You will also get to work with a diverse team of software engineers, bioinformaticians, researchers, and physicians, and create products that deepen our understanding of how cancers evolve and the best treatment options for them.

Position Summary:

The Bioinformatics Analyst will perform statistical and integrative data analysis for genomics and clinical data for the Institute for Precision Medicine (EIPM). You will arm IPM with data and insights to help enhance the clinical sequencing portfolio. You’ll be focused on improving our Exome analysis pipeline (SNVs, CNVs, translocations, and viral detection) for our EXaCT-2 clinical test. You should be passionate about finding inefficiencies in how we generate clinically actionable insights, and enjoy brainstorming and building workflow solutions.

Position Activities:

  • Conducting and maintaining systematic documentation of clinical-enterprise software pipelines for compliance using (git/svn/etc.)
  • Assisting in the development of new software tools and build pipelines for novel bioinformatics analyses
  • Assisting in development and maintenance of genomic and clinical databases
  • Creating web user interfaces for to explore large data stores, combining genomic and clinical data and statistical analyses to help other IPM team members understand insights form theses data stores
  • Performing statistical and integrative data analysis on genomics and clinical data

Requirements:

  • Driven and Self-motivated. Willingness to tackle and drive execution of challenging projects
  • Ability to learn and deliver work in fast-paced and diverse environment
  • Comfortable with communicating and working alongside a diverse team of scientists and medical professionals
  • BS in Bioinformatics, Biomedical Engineering, Computer Science or Related Field
  • Minimum 3 years experience working with next generation sequencing data and relevant tools (GATK, samtools, BWA, TopHat, STAR,etc.)
  • Knowledge and proficiency of UNIX
  • Proficiency in at least one scripting language : (R, Ruby, Python, Perl)
  • Experience using Git/SVN

Bonus Points for:

  • Demonstrated ability to run computationally intensive jobs on HPC and Cloud computing environments
  • Previous experience in designing and building bioinformatics workflows
  • Proficiency in programming in Java, C, C++
  • Experience in web user interface applications and database design
  • Knowledge of clinical IT systems (OMOP, HL7 messaging, etc.)

Please send cover letter, CV and contact information for at least two referees to:

Kenneth Wha Eng

kwe2001@med.cornell.edu

 


Postdoctoral position in Computational host-mycobiota interactomics, The Iliev Lab, Weill Cornell Medicine, NYC

Postdoctoral position in Computational host-mycobiota interactomics is available at Weill Cornell Medicine, New York City. Dr. Iliyan D. Iliev is looking for a recent Ph.D graduate with a strong background and expertise in computational biology with focus on metagenomics, microbiome, transcriptomics, fungal or bacterial genome/ transcriptome analysis, and/or metadata integration and analysis.

Position Summary:

Highly motivated individuals with interests in the field of computational biology with focus on host-microbiome interactions, immunology, fungal or bacterial microbiota are welcome to apply. The lab studies the interaction between commensal fungi and bacteria and how this interplay influence immune homeostasis, microbiota or diseases of inflammatory and neoplastic origin (Science 359 (6372): 232-6 (2018); Cell Host & Microbe 19(6):865–73; Science 336(6086):1314-7; Nat. Rev. Immunol. 14(6):405-16; Nature 491(7422):119-24)).

The successful candidate will benefit from excellent scientific and collaborative environment within the Weill Cornell/Rockefeller/Sloan-Kettering Tri-Institutional campus, state of art research facilities, and expertise in disease modeling, pyrosequencing platforms, computational biology and access to rare gut mycobiota-centered datasets. The lab has close collaborations with other research programs in the institute investigating immunity and microbiota to translate research findings into mechanisms of human disease. The successful candidate will join a dynamic team of scientists and will have an opportunity to develop and contribute to basic science and translational research projects that are currently undergoing within the lab.

Requirements:

  • Ph.D. in computational biology or related field
  • Background in microbial ecology, cancer, IBD or biology is a plus
  • Expertise in computational methods, tools and databases utilized in genomics / transcriptomics data analysis
  • Programming skills in R, Python, and C/C++ or equivalents and experience with high performance cluster computing queuing systems, and experience with data visualization using R and/or Python
  • Ability to analyze and interpret statistical data, and communicate results in a clear, concise manner

Please send a curriculum vitae, brief description of research accomplishments, list of publications (published and “in preparation”), and the names of three references into a single document to ili2001@med.cornell.edu, email subject title: Mycobiome fellow.

 


Postdoctoral Associate in Computational Biology

The Elemento lab at the Englander Institute for Precision Medicine invites applications from highly motivated candidates for a postdoctoral position working on cutting-edge computational biology research.

We are looking for computational scientists to work on exciting research projects involving prostate cancer biology within the Prostate Cancer SPORE and in close collaboration with basic scientists and clinician scientists. The postdoctoral candidate is expected to exhibit resourcefulness and independence, developing new statistical models of high-dimensional data and implementing computational pipelines.

Position Qualifications:

  • Ph.D. level degree in the quantitative sciences
  • Expertise in scientific programming, e.g. C, C++, Python, or R. Proficiency working in a Linux environment, with large data sets, computer clusters, and databases.
  • Research publications in computational biology, machine learning or physics. The ideal candidate will have experience dealing with next-gen DNA sequencing data and/or cancer biology.
  • Effective communication skills, both written and oral.

Please send cover letter and CV to:

Theresa MacDonald

Email: thm2008@med.cornell.edu

 


Postdoctoral Scientist to lead computational analysis of genomics, epigenomics, transcriptomics profiles focusing on hematological malignancies and patient-derived xenografts

We are looking for an ambitious, driven post-doctoral scientist to lead computational analysis of genomics, epigenomics, transcriptomics profiles focusing on hematological malignancies and patient-derived xenografts. The work will take place in the context of a close and productive collaboration between two laboratories at Weill Cornell Medicine and in the Meyer Cancer Center: Dr. Olivier Elemento, whose group focuses on cancer genomics, precision medicine and cancer systems biology, Dr. Giorgio Inghirami who uses patient-derived xenografts to study deregulated pathways and treatment for hematological malignancies. The group has collectively advanced the field and published hundreds of papers in the past few years in the area of genomics (Whole-exome sequencing), epigenomics (ATAC-seq and RRBS), transcriptomics (RNA-Seq) applied to problems of high biomedical relevance. The post-doctoral scientist will perform computational analyses to integrate and interpret large multi-omics genome-wide biological datasets including, generate testable hypotheses, build predictive models that will further drive experimental discovery. In addition, the candidate will develop software and methods to help characterize and share genomics, epigenomics, transcriptomic profiles of patient-derived xenografts and help characterize their sensitivity to therapeutic agents. We are looking for a highly interactive candidate, who will be integrated into the Institute of Computational Biomedicine (ICB). The ICB hosts 6 research groups and over 100 scientists, together with a petabyte scale high-performance computing infrastructure. The ICB also has a large group of talented and experienced computational biologists with a strong focus on cancer genomics on whom the post-doctoral scientist can rely on intellectual input, support, and extensive computational resources.

Responsibilities:

  • Lead computational analysis of Whole-Exome Sequencing, RNA-Seq, ChIP-Seq, ATAC-Seq, RRBS and WGBS data generated in hematological malignancies (primary tumors, cell lines, patient-derived xenografts), generate hypotheses regarding deregulated mechanisms, potential therapeutic targets, biomarkers of drug response, design follow-up experiments
  • As needed develop novel methods and algorithms for normalization, analysis, and visualization of large multi-omics data
  • Correlate/Integrate multiple omics datasets
  • Collaborate closely with several other scientists in the PIs’ groups and elsewhere
  • Present results at joint group meetings and other outlets write manuscripts

Relevant Websites:

Position Qualifications:

  • A Ph.D. in Biology, Bioinformatics or Computer Science
  • Strong publication record with at least one strong first author paper
  • Strong background in bioinformatics with experience in analysis of next-generation sequencing data demonstrated by relevant publications.
  • An ability to program in at least one widely used language (Perl, Python, Java, C++, etc.), proficiency in statistical software packages such as R / Bioconductor, ability to create compelling graphics and use state-of-the-art data visualization methods e.g. RMarkdown, Shiny, ggplot2, D3.js

Desired Skills:

  • Strong focus and interest on biomedically relevant problems
  • Track record of developing novel computational methodologies and publishing innovative software packages
  • Demonstrated ability to lead projects and work both independently and collaboratively
  • Excellent verbal and written communication skills demonstrated by a track record of publication, public speaking, and collaborative interactions.

Please send cover letter, CV and contact information for at least two referees to:

Olivier Elemento, Ph.D. ole2001@med.cornell.edu

Giorgio Inghirami, M.D. ggi9001@med.cornell.edu

 


Postdoctoral Fellow for Ongoing Research in Gastrointestinal Malignancies (New York, NY) 

The laboratory of Dr. Manish Shah at Weill Cornell Medicine, New York, NY, is recruiting a postdoctoral fellow for ongoing research in gastrointestinal malignancies.

Dr. Shah’s clinical/translational laboratory focuses on understanding the implications of disease subtypes of gastrointestinal cancers and the mechanisms of resistance. We combine multi-disciplinary approaches to elucidate drug resistance mechanisms in gastric cancer towards a class of drugs called Taxanes. Other projects include an examination of the role of the microbiome and tumor microenvironment in etiology of esophagus cancer and gastric cancer.

This candidate will use genome-wide molecular techniques in combination with available in vitro cell line models and organoid culture models to understand the drivers of therapeutic resistance. This clinical/translational project will allow for a broad network of interactions with computational, clinical and basic researchers here at Weill Cornell and at other institutions.

The position will also work closely with the Englander Institute for Precision Medicine in its development of patient-derived models of cancer to define distinct molecular classes of cancer using genomic data from human samples, and investigate the potential to translate these findings to clinical relevance.

The position is open to graduating Ph.D. students and current postdoctoral fellows. Candidates must have a Ph.D. and a strong background in, molecular biology, cancer genomics or related fields. Experience working with Organoid models is preferred.

Please send details to:

Note: Combine cover letter, CV, personal statement a brief summary of research experience and contact information for 3 references into one PDF file

Prashant V. Thakkar, Ph.D.

Email: pvt2002@med.cornell.edu

Department of Hematology and Medical Oncology

 


Weill Cornell Medicine is a comprehensive academic medical center that’s committed to excellence in patient care, scientific discovery, and the education of future physicians in New York City and around the world. Our doctors and scientists-faculty from Weill Cornell Medical College, Weill Cornell Graduate School of Medical Sciences, and the Weill Cornell Physician Organization-are engaged in world-class clinical care and cutting-edge research that connect patients to the latest treatment innovations and prevention strategies.

Located in the heart of the Upper East Side’s scientific corridor, Weill Cornell Medicine’s powerful network of collaborators extends to its parent university Cornell University; to Qatar, where an international campus offers a U.S. medical degree; and to programs in Tanzania, Haiti, Brazil, Austria, and Turkey. Our medical practices serve communities throughout New York City, and our faculty provides comprehensive care at NewYork-Presbyterian Hospital/Weill Cornell Medical Center, NewYork-Presbyterian/Lower Manhattan Hospital, and NewYork-Presbyterian/Queens.

At Weill Cornell Medicine, we work together to treat each individual, not just their conditions or illnesses, as we strive to deliver the finest possible care for our patients – the center of everything we do. Weill Cornell Medicine is an Equal Employment Opportunity/Minorities/Females/Vet/Disabled employer.