- To perform, collect and analyze research procedures in all aspects of laboratory setting and ensure accuracy and progression of research projects.: including but not limit to - collect and analyze research data; - keep accurate details of experimental procedures and original data; - prepare research summaries, abstracts, manuscripts;  - develops and document standardized lab protocols, and assist with training of others; and  - contribute to the design, interpretation and writing of grant proposals and publications. - To assist with managing inventory, equipment, safety and animal audits, and other duties assigned to maintain smooth lab operation daily.

- Primary Research (including planning, granting, execution, analysis, publication)  - Maintain laboratory compliance documentation for human, animal, biological and radiological work. - Be familiar with lab safety infrastructure and ensure compliance with all safety regulations. - Interact with biosafety, chemical safety, and safety officers on behalf of the Principal Investigator.  - Generate data and research analysis for investigator's use in preparation of technical reports and publications. - Assist the PI with manuscript preparation and grant applications. - Present, or assist in the presentation of, research projects at retreats, seminars, conferences and other OHSU or public venues.  - Providing training to users on lab practices and protocols, including sample preparation and instrumentation use.  - Maintain an accurate and detailed laboratory notebook of all experiments performed. Participate in lab meeting.  - Training of lab personnel and supervision of Research Assistants, students and other lab members.  - Perform routine lab operations, including but not limited to the purchase of laboratory supplies, monitoring supplies and maintaining all laboratory equipment.  - Other responsibilities as assigned by the supervisor in furtherance of the lab’s research and the university’s missions and goals of teaching, research, patient care, outreach and public service. 

CEDAR is currently seeking applicants to fill multiple postdoctoral positions for computational and/or wet lab research. CEDAR offers a unique opportunity for outstanding, driven, and creative postdoctoral fellows to perform cutting-edge and high-risk research, ranging from understanding basic cancer biology and mechanisms to developing novel approaches and technologies for detection, computational analysis or therapeutic intervention.   How to apply: - Learn about being a postdoc in CEDAR - Learn about our research areas, which may have openings for postdoctoral training.  In your cover letter, please include which area(s) you are interested in and why. - Submit your CV and Cover letter. In your cover letter, please include which area(s) you are interested in and why. Duties Include: - Prepare manuscripts, and present research findings as abstracts or oral presentations. Travel may be required. - Attend weekly group meetings and 1:1 meetings to: 1) Present data and interpretation of results; 2) Troubleshoot research results; 3) Suggest next steps. - Attend research-related meetings. These could include but are not limited to: team meetings, seminars, and journal clubs. - Perform experiments utilizing appropriate lab or computational techniques with proficiency, evaluate results, and determine the next steps to complete project and present data. Think independently and solve problems. Stay on top of scientific literature and build skills to maximize project potential.

Applications are invited for a Postdoctoral Research position in the laboratory of Dr. Anupriya Agarwal   at the OHSU Knight Cancer Institute.  Agarwal laboratory focuses on identifying novel intrinsic- and extrinsic signaling pathways that are requisite for leukemia progression, clonal evolution, and drug resistance. The work will concentrate on the discovery of the mechanisms of leukemia initiation and drug resistance using multi-omics approaches for NIH funded projects.   Dr. Agarwal and her team for over past 15 years focusing on identifying novel signaling pathways that are requisite for leukemia initiation, clonal evolution, and drug resistance.  The new team member will help lead the project focused on understanding the mechanisms of leukemia initiation and drug resistance in a context dependent manner.  The project will use variety of advanced molecular biology techniques, CRISPR methods along with single cell transcriptomic, epigenetic, and genomic profiling in premalignant and malignant models using murine and human cells in vitro and in vivo. The candidate should also be able to perform complex data analysis, along with downstream analyses using computational approaches. Applicants will need to possess strong technical and organizational skills as well as the ability to manage an independent project.   A PhD with research experience in the relevant field. They are likely to have deep expertise in a singular area of focus but may also have worked as boundary spanners across multiple fields. Laboratory experience in the field of molecular/cellular biology, cancer biology or a related field is preferred. Experience with sequencing library preparation, epigenetics, flow cytometry, or murine models of disease would be especially beneficial. Achieving this position requires that the researcher have demonstrated a satisfactory track record of scholarly activity including high-quality peer-reviewed publications. We are looking for an enthusiastic individual who is capable and willing to make maximum use of excellent facilities and a productive environment.   The OHSU Knight Cancer Institute is a pioneer in personalized cancer treatment and research, led by Dr. Brian Druker, whose development of Gleevec transformed Chronic Myeloid Leukemia from a fatal disease to a manageable one and proved that targeted therapies can work. The institute focuses on precision oncology, the early detection, prevention, and treatment of cancer, and creating a welcoming and supportive environment for its caregivers, researchers, and support personnel. Knight affiliates subscribe to three guiding principles: we are bold, we are supportive, and we work as a connected team in our fight to end cancer as we know it.  We’d love for you to join us!   Relevant publications for the position are below: - Yang F, Long N, Anekpuritanang T, Bottomly D, Savage JC, Lee T, Solis-Ruiz J, Borate U, Wilmot B, Tognon C, Bock AM, Pollyea DA, Radhakrishnan S, Radhakrishnan S, Patel P, Collins RH, Tantravahi S, Deininger MW, Fan G, Druker B, Shinde U, Tyner JW, Press RD, McWeeney S, Agarwal A*. Identification and prioritization of myeloid malignancy germline variants in a large cohort of adult AML patients. Blood. 2022, 139(8): 1208-1221 PMC9211447, *Corresponding author. Prospective in ASH Clinical News, Selected for Podcast and Commentary in Blood 2022. - Kurtz S, Eide CA, Kaempf A, Long N, Bottomly D, Nikolova O, Druker BJ, McWeeney SK, Tyner JW, Agarwal A.Associating Ex Vivo Drug Sensitivity with Differentiation Status Identifies Effective Drug Combinations for Acute Myeloid Leukemia. Blood Advances 2022, 6(10): 3062-3067. - Hosseini MH, Kurtz SE, Abdelhamed S, Mahmood S, Davare, MA, Kaempf A, Elferich J, McDermott JE, Liu T, Payne SH, Shinde U, Rodland KD, Mori M, Druker BJ, Singer JK, Agarwal Inhibition of interleukin-1 receptor-associated kinase-1 is a therapeutic strategy for acute myeloid leukemia subtypes. Leukemia. 2018, 32(11):2374-87. PMC6558520 - Carey A, Edwards D, Eide C A, Newell L, Traer E, Medeiros B, Pollyea DA, Deininger MW, Collins R, Tyner J W, Druker B J, Bagby G C, McWeeney S, Agarwal A*. Identification of interleukin-1 by functional screening as a key mediator of cellular expansion and disease progression in acute myeloid leukemia. Cell 2017, 18(13):3204-18. PMC5437102 - Agarwal A, Bolosky BJ, Wilson DB, Eide CA, Olson SB, Fan G, Druker BJ. Differentiation of leukemic blasts is not completely blocked in acute myeloid leukemia. Proc Natl Acad Sci U S A.2019, 116(49):24593-24599. PMC690050. * Co-corresponding Author- Highlighted in “In This Issue PNAS”. - Bottomly D, Long N, Schultz AR, Kurtz SE, Tognon CE, Johnson K, Abel M, Agarwal A……. et al; Integrative Analysis of Drug Response and Clinical Outcome in Acute Myeloid Leukemia. Cancer Cell 2022, in press (collaborative manuscript)

- Develop data analysis strategies, analyze next-gen sequencing data and documentation - Participate in meetings, discuss and present findings - Linux system and website administration

CEDAR funds its own research projects, expediting the process of discovery. Our research is milestone-driven to ensure that each project is fulfilling its stated goals. CEDAR offers a unique opportunity for outstanding, driven, and creative postdoctoral fellows to perform cutting edge and high-risk research, ranging from understanding basic cancer biology to developing novel technologies to aid detection. Our focus on early detection requires novel approaches to reliably identify small/rare signals in diverse data types, with an emphasis on minimally invasive sampling techniques.   We are currently hiring for a highly motivated fellow with expertise in Computational Biology to work in the following areas. Candidate would primarily work with Dr. Ece Eksi, Assistant Professor in the Division of Oncological Sciences with affiliations in the Biomedical Engineering and Cell, Development and Cancer Biology departments. - Image computing – Performing analysis of existing imaging data sets of prostate tumor samples using established pipelines and developing novel machine learning approaches. The successful candidate will have the opportunity to analyze single-cell, multiplex imaging data sets and develop image computing pipelines to aid clinical decision-making processes in cancer diagnostics.  - Machine Learning/Statistics– Developing machine learning methods and spatial statistical models to study the organization of the cell types in the tumor microenvironment using cutting-edge spatial imaging datasets.  Developed algorithms will be used to build predictive temporal models for patient stratification. Techniques such as spatial auto-correlation, dimensionality reduction and clustering will be utilized.   - Single-cell transcriptomics and epigenomics - Modeling and analyzing next-generation sequencing datasets that measure the transcriptome and the epigenome, specifically single-cell RNA-seq and ATAC-seq. The successful candidate will use both existing tools and develop their own computational methods to analyze such datasets for the characterization of prostate and pancreatic tumors. Select references: - https://www.nature.com/articles/s41467-021-27615-8 - https://www.eu-focus.europeanurology.com/article/S2405-4569(23)00077-9/fulltext - https://www.biorxiv.org/content/10.1101/2023.08.18.553854v1

CEDAR funds its own research projects, expediting the process of discovery. Our research is milestone-driven to ensure that each project is fulfilling its stated goals. CEDAR offers a unique opportunity for outstanding, driven, and creative postdoctoral fellows to perform cutting edge and high-risk research, ranging from understanding basic cancer biology to developing novel technologies to aid detection. Our focus on early detection requires novel approaches to reliably identify small/rare signals in diverse data types, with an emphasis on minimally invasive sampling techniques.   We are currently hiring for a highly motivated fellow with expertise in Cancer Biology to work in the following areas. Candidate would primarily work with Dr. Ece Eksi, Assistant Professor in the Division of Oncological Sciences with affiliations in the Biomedical Engineering and Cell, Development and Cancer Biology departments. - Spatial imaging of the prostate tumor microenvironment – Performing multiplex imaging on patient samples acquired from prostate and pancreatic cancer patients to analyze intercellular interactions across cells in the microenvironment. The successful candidate will have the opportunity to learn existing experimental protocols and computational pipelines to generate and analyze single-cell, multiplex imaging data sets to aid clinical decision-making processes in cancer diagnostics.  - Single-cell transcriptomics and epigenomics– Generating single-cell libraries that measure the transcriptome and the epigenome of patient samples, specifically single-cell RNA-seq and ATAC-seq. The successful candidate will use both existing experimental protocols and computational pipelines to generate and analyze datasets for the characterization of prostate and pancreatic tumors. Select references: - https://www.nature.com/articles/s41467-021-27615-8 - https://www.eu-focus.europeanurology.com/article/S2405-4569(23)00077-9/fulltext - https://www.biorxiv.org/content/10.1101/2023.08.18.553854v1

A Postdoctoral Scholar position with a bioinformatics/computational, experimental, or dual focus is available immediately in the laboratory of Dr. Brian J. O’Roak, Department of Molecular and Medical Genetics at Oregon Health & Science University (OHSU) for highly motivated individuals. Highlights of Dr. O’Roak’s past research successes include: pioneering trio-based exome sequencing in simplex autism and developing new technologies for rapid and economical targeted resequencing.   We are building on this experience by forming a strong and diverse research group focused on developing and implementing cutting-edge methods and technologies for discovery and replication, molecular diagnosis, functional dissection of pathways, and targeted therapeutics for neurodevelopmental and related disorders. This work has the potential to dramatically improve the lives of individuals affected with these currently untreatable disorders through early intervention and biologically based personal therapies.   Areas of interest include: genomics, single-cell genomics, modeling of neurodevelopmental disorders in stem cell (iPSC) and animal systems, massively parallel functional assays, and bioinformatics.   In particular, there is an immediate need for a fellow with next-generation sequence analysis experience to lead a project exploring the role of germline mutations and somatic mosaicism in autism and other neurodevelopmental disorders (e.g. neural tube detects), for which long-term funding currently exists. This would build on our work recently published in the AJHG (see Krupp et al. 2017).   Salary for this position aligns with the NIH Scale.

The successful candidate will work as Project Leader on a variety of projects under the direction of Andrew W McHill, PhD, Assistant Professor and Director of the Sleep, Chronobiology, and Health Laboratory within the OHSU School of Nursing. The Postdoctoral fellow will work on research that is aimed at understanding the effects of disturbed sleep and circadian rhythms on physiology and pathophysiology in humans. In particular, we are investigating the adverse health effects of short and disrupted sleeping patterns, food choice, shift work, and the mechanisms underlying the adverse health of performing activities during the night. These studies will lead to interventions designed to improve the health, safety and well-being of shift-workers and vulnerable populations.   Primary duties will include data collection and management, developing scientific ideas, writing grant applications and manuscripts, and supervision of research staff. The successful candidate will be proficient in project management and independently monitoring study operations, budget management and managing human subjects IRB protocols and modifications. Shift work and weekend work (including night-time data collection) is expected. Additional duties can include overseeing and managing research equipment, materials, and logistics (with the assistance of research staff).   Experience with making measurements in human physiology, data analysis, and overseeing research studies is required. Experience with circadian, sleep, or nutritional studies, measurement of cardiovascular and metabolic variables, accelerometry, and experience with longitudinal data are desirable. To apply please use OHSU iRecruitment to upload a letter of application, Curriculum Vitae/Resume, contact information for three academic/professional references, and a published paper.

We are looking for a post-doctoral researcher with a background in computer, information, or data science, with an interest in stream processing. This will focus on development of algorithms to process data in near-real time as it streams to servers from research participants. This position is anticipated to last 1.5-3 years to allow adequate time for the researcher to integrate with the team, understand the current platform infrastructure and data streams, and contribute to the research.  Position may be hybrid with possibility of becoming remote, with workspace available at OHSU’s main campus in Portland, OR.  Some travel may be required for conference presentations.   The work being done as part of this postdoctoral fellowship will support projects focused on aging in place, spanning from Mexican Americans to cancer survivors, and early detection and monitoring of Alzheimer’s disease.   There will be expectations and opportunities for publishing results and presenting at conferences.

The Layton Aging & Alzheimer’s Center in the Department of Neurology at Oregon Health & Science University seeks a post-doctoral researcher.   This position will support an ongoing NIA-funded R01 (Kevin Duff: PI) that is examining short-term practice effects on cognitive tests and measures of daily functioning in older adults with intact and impaired cognition. This position will also assist with analyses of previously completed projects and ongoing center projects, dissemination of those findings, data collection for ongoing projects, and supervision of research staff. We are looking for a post-doctoral researcher with an interest in cognition in later life, neuropsychological research, and Alzheimer’s disease.   This position is anticipated to last 1.5 - 3 years to allow adequate time for the researcher to integrate with the team, understand the available data, and generate and submit multiple manuscripts on these projects.   Current research projects a post-doctoral scholar could be involved with include the following: - Practice Effects of Daily Functioning Across the Alzheimer’s Disease Spectrum (PFX): This is an ongoing NIA-funded R01 to examine short-term practice effects on cognitive and daily functioning tests in older adults with intact or impaired cognition. - Amyloid Positivity and Practice Effects (APPE): This is a recently completed NIA-funded R01 that examined short-term practice effects on cognitive tests and how they relate to various biomarkers of Alzheimer’s disease. - Validation of Video Administration of a Modified UDSv3 Cognitive Battery (VCog): OHSU is 1 of 11 sites for this ongoing NIA-funded R01 to examine if video administration of the UDS cognitive battery is as accurate as in-person administration. - Healthy Aging & Alzheimer’s Research Program (HARP): This is OHSU’s longitudinal cohort of intact and impaired older adults who receive the UDS cognitive battery (and other measures) as part of their participation in the National Alzheimer’s Coordinating Center. Please include a cover letter with your application.

- Primary Research (including planning, granting, execution, analysis, publication) - a. Maintain laboratory compliance documentation for human, animal, biological and radiological work.   b. Be familiar with lab safety infrastructure and ensure compliance with all safety regulations. c. Interact with biosafety, chemical safety, and safety officers on behalf of the Principal Investigator. - a. Generate data and research analysis for investigator's use in preparation of technical reports and publications. b. Assist the PI with manuscript preparation and grant applications. c. Present, or assist in the presentation of, research projects at retreats, seminars, conferences and other OHSU or public venues. - Providing training to users on lab practices and protocols, including sample preparation and instrumentation use. - Maintain an accurate and detailed laboratory notebook of all experiments performed. Participate in lab meeting. - Training of lab personnel and supervision of Research Assistants, students and other lab members. - Perform routine lab operations, including but not limited to the purchase of laboratory supplies, monitoring supplies and maintaining all laboratory equipment. - Other responsibilities as assigned by the supervisor in furtherance of the lab’s research and the university’s missions and goals of teaching, research, patient care, outreach and public service.

- Preforming laboratory research; Conducting experiments; Collecting, analyzing, and quantifying data; Assisting in planning and designing standard research operations, training and mentoring lab members. - Preparation and/or review of reports, manuscripts and peer reviewed journals for publication. Submit applications for grant funding in support of the labs research mission. - Attending and presenting research at lab meetings, seminars and conferences.

- Live tissue dissection, confocal microscopy, spatial transcriptomics.    - Electrophysiology and data analysis. - Presentation of their research at multi-PI meetings and research conferences. - Data analysis and manuscript preparation.

- Provides research coordination and project management for multi-year research projects and assists in planning design, procedures, and performing research studies on research volunteers. - Prepares written reports, documents, grant applications, correspondence, and peer-reviewed publications. - Trains, mentors, and supervises research assistants, students, and junior staff.  - Performs other duties as assigned

Every Knight Cancer employee is expected to embody our guiding principles: - We act BOLDLY—Breakthroughs require pushing the boundaries of science, exploring new frontiers, and thinking differently - We SUPPORT each other—Respect leads to trust, which leads to excellence - We work as a CONNECTED team—We must leverage our collective brain power to conquer cancer because no one individual can do it alone Always Yes Laboratory research: - Cell culture experiments and maintenance of cells - Assist with media changes and drug administration during experiment - Prepare, run, and analyze flow cytometry samples - Independently participates in research execution and performs other general laboratory techniques - Provides stability and continuity of knowledge as people and projects change - Meet regularly with team to identify potential synergies and reduce inefficiencies across projects - Increased innovation and problem solving ability required Data Analysis - Perform qualitative and quantitative research data analysis, programming, database development and management, research data visualization, and interpretation of a wide variety of research data, especially flow cytometry data. - Prepares reports, charts, tables, and other visual aids to interpret and communicate data and results with a variety of programs, especially R, Excel. - Conducts data/statistical studies in support of research proposals and protocols. Maintains and develops research gathering, retrieval and reporting systems. Laboratory Organization and Compliance:   - Responsible for managing project samples and ensure project data is properly recorded and stored - Organizes program work space - Ordering and maintaining supplies for lab.   Lab Support - Support overall lab function by maintaining and fixing equipment, ordering supplies, and troubleshooting instrument problems - Training and supervising of students and RA’s, and/or preparation of written reports and, as applicable, regulatory documentation Additional duties as assigned by project leader or laboratory manager. 

- Participate in lab work and research  - Develop innovative research projects and tools - Prepare results for publication and presentation  - Attend and present technical status reports at group meetings

- Planning and designing research experiments; establishing priorities and schedules; obtaining cost estimates. - Data collection, processing and analysis, including statistical analyses, presentation of project results, and producing written documents (abstracts, manuscripts) on the result of analyses. Includes contributing to preparation of grant proposals to NIH and private foundations. - Training new staff, graduate students, and student volunteers

A postdoctoral researcher position is available in the laboratory of Dr. Sarah F. Andres at the Pape Family Pediatric Research Institute, Oregon Health and Science University, Portland, OR.   We are looking for an enthusiastic, highly motivated, and dedicated Ph.D. scientist who has experience with gastrointestinal biology, extracellular vesicles, or mouse models to join our team.   The postdoc will lead projects centered around novel mechanisms that enhance or reduce intestinal damage during the neonatal inflammatory disease necrotizing enterocolitis (NEC). Ongoing projects include defining therapeutic roles of human milk extracellular vesicles in the neonatal intestine and the use of novel genetic mouse models to delineate post-transcriptional regulation in early intestinal development and NEC.   The lab uses genetic mouse models, human patient samples, including novel 3D patient-derived enteroids, cutting-edge molecular biology, -omics approaches, and imaging techniques to answer critical questions.   In addition to scientific training, the postdoc will also receive personalized mentoring to advance their own career development including networking introductions, goal setting, leadership opportunities, further training in public speaking, project management, grant, and manuscript writing, and chances to review manuscripts and attend conferences.   Our research is highly translational with the ultimate aim of taking bench findings back to educate bedside treatments and practices. Successful candidates will be dynamic, self-starters with a doctoral degree. Strong communication, organizational skills, and the ability to think critically are essential.

- Design and conduct independent research projects related to cytoskeletal reorganization during bacterial infection. - Assist in training and supervision of new lab personnel. - Maintain an accurate lab notebook detailing all experimental and computational work completed. - Maintain compliance documentation for tissue culture and infection work. - Attend Lab meeting, make contributions to grants and publications, present research at conferences. - Other responsibilities as assigned by the supervisor in furtherance of the lab’s research and the university’s missions and goals of teaching, research, patient care, outreach and public service.