Bioinformatics Jobs

Job Summary The NeuroInformatics Core is expending. We are looking for an enthusiastic and responsible computational biologist to support ongoing projects in the lab employing large-scale biological data sets. The Computational Biologist will be expected to analyze single-cell RNA-seq and associated datasets. The candidate will work together with a team of bioinformaticians to develop and maintain an analytical pipeline that integrates with existing pipelines in the Konopka lab. Efficient organizational skills, attention to detail, accurate record keeping, and effective communication skills are a must! Working knowledge of R and/or Python is a minimal requirement and basic knowledge of molecular biology or genetics or related biological science field is necessary. Experience and Education Master’s degree in Computer Science or a related field of biological science. Bachelor’s degree in Computer Science or a related field of biological science, and two (2) years related research... experience in bioinformatics and computational biology. Job Duties • Manage research laboratory computer hardware and software programming and maintenance. Ensure existing systems meet the continuing needs of the lab and/or recommend and test new systems as necessary. • Perform complex data analysis related to specialized research methodologies and results as assigned by the PI. • Develop and/or modify software to support new and ongoing research projects. • Resolve hardware, software, and network issues in support of the lab. • Develop and maintain complex databases to support new and ongoing research projects. • Train laboratory staff in the use of pertinent research systems. • May specialize in bioinformatics, software development, network administration, or hardware/software maintenance. • Perform other duties as assigned. Knowledge, Skills, & Abilities • Work requires knowledge of computer technology (hardware, software, and programming) and basic knowledge of molecular biology or genetics or related biological science field. • Work requires ability to communicate directly with software/database developers. • Work requires ability to communicate and work with academic faculty, design creative solutions, both short and long run for software development needs in a bio and medical informatics functional area. • Work requires excellent planning and organizational skills. • Work requires excellent interpersonal and leadership skills. • Work requires ability to prioritize work and meet deadlines. • Work requires telephone and personal contact with all levels of internal and external personnel and organizations. • Work requires minimal physical exertion. Security This position is security-sensitive and subject to Texas Education Code 51.215, which authorizes UT Southwestern to obtain criminal history record information. UT Southwestern Medical Center is committed to an educational and working environment that provides equal opportunity to all members of the University community. In accordance with federal and state law, the University prohibits unlawful discrimination, including harassment, on the basis of: race; color; religion; national origin; sex; including sexual harassment; age; disability; genetic information; citizenship status; and protected veteran status. In addition, it is UT Southwestern policy to prohibit discrimination on the basis of sexual orientation, gender identity, or gender expression

We are seeking a talented Bioinformatics Analyst (Computational Biologist) with strong analysis skills to tackle challenging bioinformatics and computational biology problems. The successful candidate will work collaboratively with scientists and engineers to run analysis, test new pipelines and develop new visualization tools to support the exciting opportunities in Comparative Genomics and CRISPR Design/Analysis. The candidate must have some experience NGS Analysis, comparative genomics or CRISPR. Preference will be given to candidate with a PhD and have experience comparative genomics across mammals or in prediction of gene and gene variation functional prediction including protein structure prediction, molecular evolution, molecular modeling, pathway analysis and phenotype/genotype associations. Minimum Qualifications • Master’s with 2 years of experience or PhD in quantitative or basic science (computer science, computational biology, bioinformatics, chemistry, physics, or... mathematics preferred); • Ability to write and run custom bioinformatics scripts using existing published tools and occasionally tools developed for purpose, summarize the results in a digestible manner and deliver the information using established reporting procedures. • Ability to design and maintain databases (MySQL, PostgreSQL, MongoDB) to curate data. • Demonstrated 2 years of experience with scripting languages, including but not limited to: Python, R, Perl, Ruby, Java, BASH. • Proficiency with handling large-scale genomic data in a HPC (SGE, SLURM, PBS) Linux and/or cloud environment (e.g. AWS, Google Cloud, Azure) • Experience with GIT version control software • Two year of bioinformatics experience in 3 of the following: • Comparative genomics • Pathway Analysis • Use informatics tools to process, analyze, and interpret high volumes of genomic data (e.g., RNAseq, Next-Generation Sequencing (NGS), proteomic, transcriptomic). • Experience with analysis of NGS data (e.g. DNA-seq, RNA-seq, scRNA-seq) through bioinformatics pipelines and using common bioinformatics tools (e.g. BWA, BEDtools, GATK, IGV) • SC-RNASeq • Genome Alteration Detection • Use informatics tools in predicting protein function using molecular evolution and network analysis including use of the common bioinformatics tools (HMMer, HHSuite, FastME, PhyML, OrthoMCL, StingDB, DAVID, CytoScape) • Experience in the development of model to predict biological results or gene function including variant detection, variant functional prediction, protein function, genotype/phenotype relationship

HHMI is currently seeking a talented Bioinformatics Specialist for a full-time opportunity to join the lab of Dr. Benjamin Tu at the University of Texas Southwestern Medical Center in Dallas, TX.The Tu lab is investigating how fundamental cellular processes are coordinated with metabolism and the metabolic state of the cell. They use the budding yeast Saccharomyces cerevisiae for many of their studies to discover fundamental regulatory principles, but are also expanding some of their findings to mammalian systems. Their research has begun to show that small molecule metabolites play very underappreciated roles in the regulation of cell growth and homeostasis. The influence and importance of the metabolic state on cell regulation are far too often overlooked; the lab aims to decipher these very mechanisms. For more information about the Tu lab, please visit https://www.utsouthwestern.edu/labs/tu/As the Bioinformatics Specialist, you will be an enthusiastic problem solver who loves... science and is excited to support research projects within the lab by working with experimental biologists to do custom analyses. You will have the unique opportunity to work with a diverse group of team members within the Tu lab, collaborate with other labs on UT Southwestern’s campus, and have the ability to contribute their efforts to several different research projects. The lab also has flexibility to allow for a hybrid (on-site/remote) work schedule. Essential Duties: Perform analyses of RNA-seq, ChIP-seq, and genome/exome sequencing datasets. Perform analyses of proteomics datasets and protein conservation/alignments. Work closely with experimental biologists in the lab to do custom analyses. Write custom code for analyses as needed. Perform appropriate statistical analyses. Preparation of data figures and visualization tools. Qualifications:EducationA master’s degree in bioinformatics, computational biology, computer science, biostatistics, or a closely related area is required.Experience A minimum of 2 years of experience with RNA-seq and ChIP-seq data analysis in a laboratory environment is required. Experience and skill with at least one programming language (for example: Python, R, Java, C++, etc.) is required. Experience with data visualization is strongly preferred. Knowledge, Skills, and Abilities Ability to communicate technical information to an audience not versed in bioinformatics and/or programming. Strong interest and enthusiasm for contributing to the lab’s research. Strong written and verbal communication skills. Strong organizational, time management, and prioritization skills. Strong sense of self-motivation with an ability to work well both independently and as part of a team. Ability to work on multiple projects simultaneously. Ability to interact positively with all team members at all levels and from all backgrounds. Ability to work efficiently, meet deadlines, and be adaptable to changing priorities. Application Instructions:Please attach the following information (preferably as a single PDF document) as part of your application. Résumé/CV emphasizing prior experience Contact information for three professional references Physical Requirements: Remaining in a normal seated or standing position for extended periods of time; reaching and grasping by extending hand(s) or arm(s); dexterity to manipulate objects with fingers, for example using a keyboard; communication skills using the spoken word; ability to see and hear within normal parameters; ability to move about workspace. The position requires mobility, including the ability to move materials weighing up to several pounds (such as a laptop computer or tablet). Persons with disabilities may be able to perform the essential duties of this position with reasonable accommodation. Requests for reasonable accommodation will be evaluated on an individual basis. Please Note: This job description sets forth the job’s principal duties, responsibilities, and requirements; it should not be construed as an exhaustive statement, however. Unless they begin with the word “may,” the Essential Duties and Responsibilities described above are “essential functions” of the job, as defined by the Americans with Disabilities Act

Apply Description... Inscripta was founded in 2015 and recently launched the world's first benchtop Digital Genome Engineering platform. The company is growing aggressively, investing in its leadership, team, and technology with a recent $150mm financing round led by Fidelity and TRowe price. The company's advanced CRISPR-based platform, consisting of an instrument, reagents, and software, offers a fully automated workflow that enables multiplexed, trackable editing of cells at an unprecedented scale. Inscripta's mission is to enable scientists to realize the full potential of biology. Due to rapid growth and recent commercialization, Inscripta has an opening for a Senior Bioinformatics Scientist II/ Staff Bioinformatics Scientist in the Bioengineering Software Design team located in Pleasanton, CA or San Diego, CA or Boulder, CO or in the Remote U.S.. Summary: The Senior Bioinformatics Scientist II/ Staff Bioinformatics Scientist is a full-time individual-contributor position, to which you would devote all your professional effort. You will be a member of an incredibly talented interdisciplinary team, and your primary responsibility will be devoted to creating and improving library designs and library design tools needed to support Product Development and Commercial teams' development of cells comprised of thousands of precise genomic edits. Come work with us to build the tools that will power a new era of genome engineering! Responsibilities: • Create design library orders to support our R&D Product Development and Commercial teams. • Develop, deploy, and train others to use new library design tools that help our Product Development team iterate through the design-build-test-learn cycle more quickly. • Work closely with applications scientists to document & codify library design best practices and strategies that leverage Inscripta's technology platform. • Develop backend software to support our design library pipeline. This responsibility includes architecture decisions, feature augmentation, refactoring, testing, and documentation of code as well as participation in scrum team activities. • Such other matters as may be determined by yourself and the Company. Requirements • A Bachelor's degree in a technical or scientific area. An advanced degree is strongly preferred. • A minimum of 7-10 years of experience (or equivalent with advanced degree). • Firm understanding of molecular biology, metabolic engineering, biophysics, and biochemistry is strongly preferred. • A strong working knowledge of bioinformatics file types like VCF, GB, GFF3, BED, and SAM/BAM. • Familiarity with bioinformatics databases like EcoCyc, UniProt, NCBI, Pfam, Rfam, YGD, ENSEMBL, UCSC genome browser. • A strong working knowledge of Python in OO setting and familiarity with packages like biopython, pandas, numpy, and scikit-learn. • Experience managing user interfaces such as Shiny (from RStudio) or Dash (from plot.ly) is a plus. • Software development skills, including a working knowledge of version control systems, continuous integration processes, and Agile development techniques – experience with Scrum is preferred. • Enthusiasm for developing software as part of a team is a must. • Patience and tenacity regarding working in a startup culture with a complex code base is a must. • 1+ years of experience writing production code in a team setting is preferred. • Energetic and motivated self-starter with excellent analytical, problem solving, communication, and presentation skills. • Special consideration will be given to candidates with expertise in synthetic biology, metabolic engineering, and advanced genome editing tools and methodologies. • Special consideration will be given to candidates with an excellent track-record of publications and/or other scientific achievements. Inscripta offers a competitive base salary, bonus plan, benefits package, 401k match, and an attractive equity program to all team members. Base Salary Range: $135,000 to $165,000 per year. Base salary range provided per current averages and expectations. The salary and job title for this opening will be based on the selected candidate's qualifications and experience and may be outside this range. Join us and work with a cutting edge organization creating cutting edge technology. At Inscripta, we don't just accept difference — we celebrate it, support it, and thrive on it for the benefit of our employees, our innovation, and our community. We are proud to be an equal opportunity workplace because the more inclusive we are as a company, the better our work will be. Inscripta is headquartered in Boulder, CO with offices in Pleasanton and San Diego, CA. This position can work out of either our Pleasanton, CA or San Diego, CA or Boulder, CO locations, or work remotely in the U.S

Battelle delivers when others can’t. We conduct research and development, manage national laboratories, design and manufacture products and deliver critical services for our clients—whether they are a multi-national corporation, a small start-up or a government agency. We recognize and appreciate the value and contributions of individuals with diverse backgrounds and experiences and welcome all... qualified individuals to apply. Company Overview Battelle manages and operates the National Ecological Observatory Network (NEON) program, which is solely funded by the National Science Foundation. A 30+ year project dedicated to understanding how changes in climate, land use and invasive species impact ecology, the observatory’s scientists and engineers are collecting a comprehensive range of ecological data on a continental scale across 20 eco-climatic domains representing US ecosystems. Our teams use cutting-edge technology, including an airborne observation platform that captures images of regional landscapes and vegetation; mobile, relocatable, and fixed data collection sites with automated ground sensors to monitor soil and atmosphere; and trained field crews who observe and sample populations of diverse organisms and collect soil and water data. Once structures are completed, a leading-edge cyberinfrastructure will calibrate, store and publish this information. The Observatory includes more than 500+ personnel and is the first of its kind designed to detect and enable forecasting of ecological change at continental scales. We are currently seeking a Data Scientist, Microbial Bioinformatics. The preferred location for this position is Boulder, CO, but open to remote locations for well-qualified candidates. JOB SUMMARY The Microbial Bioinformatician will be part of the NEON Science Team that is responsible for operating, maintaining, and ensuring the success of a national program to generate > 180 data products from 81 sites throughout the US for over 30 years. The Science Team, a team of 60 scientists, develops, maintains, and improves field and lab protocols, derives data processing and data QAQC algorithms, develops and maintains data analysis pipelines, works with external analytical laboratory partners to publish high quality data products for the research, education, and decision-making communities, and works with external community members to develop proposals and publications focused on NEON data. As a member of the Science Team, the incumbent will support NEON’s mission as a subject matter expert in soil and aquatic microbes and bioinformatics, working collaboratively with the NEON team and the broader user community to ensure NEON’s data products are of high-quality and being used in a diversity of research and educational endeavors. The incumbent’s duties are a combination of: 1) operational and technical work to develop and implement systems to manage, quality check, process, and publish microbial sequence data and derived data products; and 2) engagement work with NEON's growing external data user community. This includes working with NEON’s Field Science team, Collections and Laboratory Analysis (CLA) team, Quality Assurance team, Microbial Technical Working Group (comprised of external community members), and contracted sequencing facilities to generate high-quality aquatic and terrestrial microbe sequence data and derived data products from NEON’s 81 aquatic and terrestrial sites. The successful candidate will complement data responsibilities with continuation of their own research program, ideally one that incorporates NEON microbe data products. This includes developing externally funded proposals in collaboration with external community members, contributing to and/or leading publications, and participating in or leading strategic engagement opportunities (e.g., organized conference sessions, workshops, etc.). MAJOR RESPONSIBILITIES To engage with the scientific community to leverage NEON microbial data and samples in research and education: • Collaborate with other Battelle scientists and with the scientific community at large to prioritize functionality and utility of NEON’s microbial data products, including efforts to increase discoverability, accessibility, and interoperability with other publicly-available datasets. • Lead and contribute to proposals and research projects involving bioinformatics and/or microbial data products. • Coordinate and lead regular meetings with the external Microbial Technical Working Group. • Provide technical support and guidance to NEON data users. To ensure NEON’s data products are of high-quality: • Maintain, de-bug, execute, and improve bioinformatics tools and pipelines for microbial sequence data (e.g., Dockerized QIIME 2 pipeline). • Manage, organize, and assess incoming sequence data and metadata, including performing QAQC of next-generation sequencing data in preparation for processing and publication, and assessment of methods and procedures as appropriate. • Apply advanced methods and techniques to optimize complex computing workflows required to support data analysis, data QAQC, and data publication. • Help define best practices for quality assurance of microbial sequence data, including defining reference standards and controls and their appropriate acceptance limits applicable to soil and aquatic samples. • Work with NEON’s CLA team to prepare Statements of Work with detailed requirements for contracted laboratory analysis services, evaluate potential external laboratory sequencing partners, and support contracted laboratories. • Work with NEON Quality Assurance staff to audit contracted laboratories and interpret audit findings. Use results to improve and debug complex high-throughput sequencing workflows. • Support NEON’s Field Science team in training staff in proper sample collection and processing methods and assist with troubleshooting field-related activities when needed. • Contribute to other project deliverables as needed. THE FOLLOWING IS REQUIRED • Bachelor’s degree in bioinformatics, computational biology, computer science, molecular biology, genomics, biochemistry, microbial ecology or a related field with 5 years of experience or master’s degree in related field with 2 years of experience or PhD; or an equivalent combination of education and or experience in a related field. • Experience with analysis of sequence data from multiple sample types, preferably soil and/or aquatic samples. • Strong working knowledge of Python and/or R scripting, as well as proficiency with command line tools in Unix/Linux. • Understanding of and experience working with large DNA/RNA sequence datasets and bioinformatics software tools, algorithms, and workflows. • Understanding of and experience with sample preparation for sequence data generation, including best practices for sample collection along with amplification and cleaning of genetic material, followed by quantification and quality assessment. • Familiarity with FastQC quality assessment of paired-end sequences. • Self-motivated with a strong attention to detail and accuracy, and eager to work collaboratively within and across NEON project teams. • Demonstrated skills in management and analysis of large, multivariate datasets. • Ability to speak in public to a diversity of audiences including scientists, science educators, college/university faculty, college-level students, and funding agency (NSF) program directors. • Strong problem solving and analytical skills. • Proven ability to write and edit scientific proposals, scientific literature, and/or content for public delivery. • Applicants must have authorization to work in the United States. We are unable to sponsor or take over sponsorship of any employment Visa at this time. THE FOLLOWING IS DESIRED • Advanced degree in bioinformatics, computational biology, computer science, molecular biology, genomics, biochemistry, microbial ecology or a related field. LEGAL DISCLAIMER The above statements are intended to describe the nature and level of work being performed by people assigned to this job. They are not intended to be an exhaustive list of all responsibilities, activities and skills required of staff members. No statement herein is intended to imply any authorities to commit Battelle unless special written permission is granted by Battelle’s Legal Department. SALARY Salary: $101,500 – $140,000 a year This information reflects the anticipated base salary range for this position based on current national data. Minimums and maximums may vary based on location. Individual pay is based on skills, experience and other relevant factors. More information about NEON microbial data products can be found on the NEON Data Portal. Examples of NEON soil microbe products are below; similar products for Aquatic and Benthic microbes exist and are described on the Data Portal: • Soil microbe marker gene sequences: https://data.neonscience.org/data-products/DP1.10108.001 • Soil microbe community composition: https://data.neonscience.org/data-products/DP1.10081.001 • Soil microbe group abundances: https://data.neonscience.org/data-products/DP1.10109.001 • Soil microbe metagenome sequences: https://data.neonscience.org/data-products/DP1.10107.001 To apply: https://www.battelle.org/careers BENEFITS Battelle’s competitive benefits program includes comprehensive medical and dental care, matching 401K, paid time off, flexible spending accounts, disability coverage, and other benefits that help provide financial protection for you and your family. As a condition of employment, Battelle will inquire about COVID vaccination status, and in the event that vaccinations are mandated at a work location (including client site and Battelle sites) we expect all candidates to comply with these required safety protocols. Battelle is an affirmative action and equal opportunity employer. If a reasonable accommodation is needed to participate in the job application or interview process, to perform essential job functions, and/or to receive other benefits and privileges of employment, please contact recruiting@battelle.org. Battelle provides employment and opportunities for advancement, compensation, training, and growth according to individual merit, without regard to race, color, religion, sex (including pregnancy), national origin, sexual orientation, gender identity or expression, marital status, age, genetic information, disability, veteran-status, or any other characteristic protected under applicable Federal, state, or local law. Our goal is for each staff member to have the opportunity to grow to the limits of their abilities and to achieve personal and organizational objectives. We will support positive programs for equal treatment of all staff and full utilization of all qualified employees at all levels within Battelle. For more information about our other openings, please visit www.battelle.org/careers

Description University of Colorado | CU Anschutz Medical Campus... Vice Chancellor of Health Affairs - CCPM IT Senior Professional – MODO Research Analyst Position #00776817 – Requisition #19034 • Applications are accepted electronically ONLY at www.cu.edu/cu-careers The University of Colorado Anschutz Medical Campus seeks individuals with demonstrated commitment to creating an inclusive learning and working environment. We value the ability to engage effectively with students, faculty and staff of diverse backgrounds. The Office of the Vice Chancellor of Health Affairs has an opening for a full-time University Staff (unclassified) IT Senior Professional position. The University of Colorado Anschutz Medical Campus is a public education, clinical and research facility serving 4,500 students, and a world-class medical destination at the forefront of life-changing science, medicine, and healthcare. CU Anschutz offers more than 42 highly rated degree programs through 6 schools and colleges, and receives over $500 million in research awards each year. We are the single largest health professions education provider in Colorado, awarding nearly 1,450 degrees annually. Powered by our award-winning faculty, renowned researchers and a reputation for academic excellence, the CU Anschutz Medical Campus drives innovation from the classroom to the laboratory to the delivery of unparalleled patient care. Read CU Anschutz Quick Facts here . Job Summary: The Multi-Omics Data Operations (MODO) unit, part of Translational Informatics Services within the Colorado Center for Personalized Medicine (CCPM), performs quality control checks and provides analytical tools for data generated by the CCPM Biobank. In addition, MODO provides bioinformatics support and project management support for the Colorado Anschutz Research Genetics Organization (CARGO), a service center and biorepository, which performs DNA/RNA extraction and genotyping for researchers. The Colorado Center for Personalized Medicine has an outstanding opportunity for a Research Analyst. Under the direction and guidance of the MODO Officer, the MODO Research Analyst will maintain and improve bioinformatics pipelines for CARGO, performs and manage bioinformatics analysis for all client projects in CARGO for researchers who request CARGO services within the University of Colorado Anschutz Medical Campus and researchers outside the campus. In addition, the MODO Research Analyst may be expected to help with CCPM Biobank clinical and research pipelines. The Research Analyst will interface and collaborate with MODO staff, the CARGO director, and primary analysts from CCPM research teams, but will also work independently. Examples of Work Performed: To provide bioinformatics support to facilitate plate maps, quality control, and final deliverables. To provide end-to-end project management support for CARGO and provides the primary liaison between the client and CARGO director once the project is initiated. Work with prospective CARGO clients as well as MODO officer and CARGO director for the bioinformatics and project management support stated above. Assign CARGO bioinformatics support to MODO staff and research analysts at CCPM, and management of these analysts within the scope of project release timelines. Identify and implement ways to increase efficiency of gathering and managing information as well as creation and dissemination of deliverables for CARGO requests. Produce regular reports on all CARGO project progress with respect to Bioinformatics, timelines/deliverables, and project management. Attends CARGO and MODO weekly meetings and provides the interface of information connections between the two modules. Perform bioinformatics analysis, and maintain and create pipelines for CCPM Biobank clinical and research pipelines as time permits. Salary and Benefits: The salary range (or hiring range) for this position has been established at $58,481 to $74,388. The salary of the finalist(s) selected for this role will be set based on a variety of factors, including but not limited to, internal equity, experience, education, specialty and training. The above salary range (or hiring range) represents the University’s good faith and reasonable estimate of the range of possible compensation at the time of posting. Diversity and Equity: The University will provide reasonable accommodations to applicants with disabilities throughout the employment application process. To request an accommodation pursuant to the Americans with Disabilities Act, please contact the Human Resources ADA Coordinator at hr.adacoordinator@ucdenver.edu . The University of Colorado | Anschutz Medical Campus is committed to recruiting and supporting a diverse student body, faculty and administrative staff. The university strives to promote a culture of inclusiveness, respect, communication and understanding. We encourage applications from women, ethnic minorities, persons with disabilities and all veterans. The University of Colorado is committed to diversity and equality in education and employment. The University of Colorado | Anschutz Medical Campus is dedicated to ensuring a safe and secure environment for our faculty, staff, students and visitors. To assist in achieving that goal, we conduct background investigations for all prospective employees. Qualifications Minimum Qualifications: Bachelor’s degree from an accredited college or university in relevant sciences (statistics or health sciences) or informatics (computational biology, computational chemistry, bioinformatics, clinical informatics). Two (2) years of experience in a related field. Experience with UNIX command line, R, and/or python. Preferred Qualifications: Master’s Degree from an accredited college or university in relevant sciences (statistics or health sciences) or informatics (computational biology, computational chemistry, bioinformatics, clinical informatics). Previous professional experience working with genetic/methylation or microarray data, such as Illumina Infinium, both in the wet-lab and for analysis Experience with Microsoft Teams, Trello and Slack Project management experience Competencies/Knowledge, Skills, and Abilities: Highly organized and detail-oriented Interest in managing or improving the flow of information Excellent verbal and written communication skills Excellent problem solving and the ability to work with a multidisciplinary team Ability to collaborate and work efficiently on multiple projects with limited supervision Tracking of multiple study deadlines and independently managing multiple tasks while ensuring attention to detail, accuracy and quality results Job: Information Technology Primary Location: Aurora Job Category Information Technology Department U0001 -- DENVER & ANSCHUTZ MED CAMPUS Schedule Full-time Posting Date Feb 1, 2021 Unposting Date Ongoing Posting Contact Name Latrina Gilmore Posting Contact Email Latrina.Gilmore@cuanschutz.edu Posting Number 00776817 Req ID: 19034 The University of Colorado does not discriminate on the basis of race, color, national origin, sex, age, pregnancy, disability, creed, religion, sexual orientation, gender identity, gender expression, veteran status, political affiliation, or political philosophy. All qualified individuals are encouraged to apply

The Seibold Laboratory is a cutting-edge, NIH funded, laboratory focusedon elucidating the pathobiological basis of asthma and other complex lung andallergic diseases. Our goal is to discover pathobiological subgroups ofdisease (termed disease endotypes) and the genetic, environmental, andimmune factors driving their development. We are accomplishing these goalsthrough the integration of genomic... endotyping studies of large patient cohortswith in vitro mechanistic studies of human organoid culture models.Ultimately, we will leverage the information gained from our research todevelop precision medicine approaches for the diagnosis, management, andtreatment of these diseases. The Seibold Laboratory is composed of amulti-disciplinary team of "wet lab" cell, airway, and molecularbiologists integrated with "dry lab" computational biologists,bioinformaticians, and statistical geneticists.To learn more about the lab, please visit https://www.seibold-lab.com.Preferred Skills:Masters or Ph.D. in Bioinformatics, Computer Science, StatisticalGenetics, Computational Biology, or a related fieldExperience processing and analyzing bulk RNA-sequencing data (e.g.,HISAT2, HTSeq, Samtools, DESeq2)Experience processing and analyzing single-cell RNA-sequencing data (e.g.,Cell Ranger, Seurat, Monocle)Experience in eQTL mapping (e.g, FastQTL, Matrix eQTL)Experience in dimensionality reduction, clustering, and network analysis(PCA, hierarchical clustering, WGCNA, topic modeling)Experience with pathway analysis (e.g., IPA, Enrichr, GAGE)Experience working in the field of airway disease, particularly asthmaFor questions please contact Dr. Max A. Seibold, seiboldm@njhealth.orgEssential DutiesCollaborates with and supports scientists in the area of bioinformaticsanalysis.Assists with the design and development of major bioinformatics-relatedprogramming projects.Writes custom scripts to access databases and analyze data.Writes custom web tools for scientists.Assists with the preparation and teaching of courses and/or demonstrationson the use of bioinformatics tools.Interprets complex biological information. Performs tasks to reduce andconsolidate output from software. Prepares data for utilization by otherscientists.Develops and uses gene/protein functional annotation tools and programs.May develop and maintain searchable databases.May direct and guide DNA, RNA, small molecule, and protein sequencedatabase searches and the computational analysis of resulting data.Uses version control and other reproducible research practices.Writes sections for reports and other dissemination of research methods andfindings.Education: Bachelor of Arts (BA) or Bachelor of Science (BS)required in bioinformatics, biostatistics or computer science or relatedfield required. Masters or PhD in computational field preferred.Work Experience: A minimum of 3 years of applied experience required.Special Training, Certification or Licensure: Must be proficient in atleast 2 programming languages (e.g. python, C++ , JAVA, Etc.) and have a background in utility programming (Bash, AWK, Perl,BioPerl, R, Matlab and other languages) in a Linux environment.Salary Range: $65,000 - $73,000BenefitsAt National Jewish Health, we recognize that our outstanding faculty andstaff are the essence of our organization. For every aspect of health care,our employees are our greatest asset.With that in mind, we have designed a valuable, comprehensive benefitspackage to meet the needs of our employees and their families.Medical Plans, Dental Plans and Vision InsuranceRetirement PlanFSA and HSAShort and Long Term DisabilityLife Insurance and AD&DVoluntary Benefits, like Accident Insurance, Critical Care and HospitalIndemnitySick and Vacation Paid Time OffWellness ProgramLegal PlanImportant Notes:National Jewish Health is a non-profit, non-sectarian institution and is alongstanding cornerstone in the Denver healthcare community. National JewishHealth seeks to attract the best-qualified candidates who suppo

Named by Rock Health as the Best Digital Health Company to Work For , Color is a leading healthcare technology company. Color is building and delivering technology-enabled healthcare to millions of people. Through partnerships with public and private partners including governments, employers and health systems, Color’s infrastructure and software enables large populations to receive essential... healthcare services directly where they live or work. This includes testing and telehealth services for preventive health and infectious disease management. Since March 2020, Color has mobilized to address the pandemic by leveraging its platform to scale COVID-19 testing programs around the country. Color’s platform is used by more than 100 major employers, universities and public health institutions, such as the City of San Francisco, the State of California and PerkinElmer, community-based efforts in Oakland, and others, to deliver critical health programs. For more information about Color and its response to COVID-19, visit www.color.com . By investing in the technology that ensures easy and affordable access to healthcare, Color is creating the infrastructure that will serve us for decades to come. Apply to join Color and do some of the most important work of your career. If you are not sure that you're 100% qualified, but are up for the challenge - we want you to apply! The Bioinformatics team at Color is composed of folks with diverse previous experience in next generation sequencing (NGS) technologies, genomics, big data, cloud computing and machine learning. We are responsible for building the clinical NGS analysis pipeline, identifying novel classes of genomic variation, building tools for genomic interpretation and collaborating with R&D lab scientists to bring new products to market. As Color expands our genomics platform in new and exciting directions, we are continuing to bring on top talent in bioinformatics. We are seeking a strong scientist with deep experience in genetics, bioinformatics, and NGS technology to grow this team. Ideal candidates will bring expertise, humility and a strong intellectual curiosity to our overall mission of democratizing access to genetic information. How You’ll Contribute • Generate and pursue novel ideas for genetic testing. • Introduce and incorporate emerging computational methodologies in our bioinformatics codebase. • Collaborate with laboratory scientists and data scientists to translate R&D work to clinical production analyses. • Act as domain expert both for internal and external collaborations. • Assist in troubleshooting with our high-throughput clinical laboratory. Our Ideal Candidate Will Have • You have 5+ years of experience as a bioinformatics scientist or computational biologist (or equivalent role). • You are intimately familiar with standard bioinformatics tools (BWA, GATK, DeepVariant, etc.) and have experience working with advanced bioinformatics concepts such as graph alignment, genotyping of complex haplotypes, etc. • Intermediate proficiency in Python is required. You maintain a high bar for quality of code and work aggressively to eliminate unnecessary duplication and awkward workarounds. • You understand how to evaluate scientific publications/presentations in terms of underlying challenges and potential impact. • You effectively communicate technical information to both technical and non-technical collaborators: you identify core challenges in complex situations, explain trade offs, and incorporate feedback to make decisions using code reviews, docs, wikis, meetings, and other channels as needed. Nice To Have • You have analyzed large sequencing datasets to identify variants across the full spectrum of size and complexity (SNV/indel, CNV, inversions, mobile element insertions, haplotypes). • You are familiar with a variety of sequencing platforms: short-read SBS, linked-read, long-read, optical mapping, etc. • You have experience shipping code in a clinical production environment (GitHub). • You are familiar with high performance and distributed computing systems (AWS, GCP). • You have experience running pipelines using workflow engines such as Toil and workflow languages such as CWL or WDL. • You have successfully employed relevant concepts from data science (machine learning, imputation, etc.) on biological data. • You are familiar with CAP and CLIA guidelines. • You understand the key concepts in pharmacogenomics. Possible Projects To Contribute To • Define our next clinical product and generate proof-of-concept data. • Adopt algorithms that enable extracting additional actionable clinical insights from sequencing data. • Drive our scientific progress as a domain expert, with internal and external collaborators. • Create a basic bioinformatics pipeline to evaluate a novel sequencing platform. Color is an equal opportunity employer. In accordance with anti-discrimination law, it is the purpose of this policy to effectuate these principles and mandates. Color prohibits discrimination and harassment of any type and affords equal employment opportunities to employees and applicants without regard to race, color, religion, sex, national origin, disability status, protected veteran status, or any other characteristic protected by law. Color conforms to the spirit as well as to the letter of all applicable laws and regulations. COVID-19 Vaccination Requirement: Color requires anyone working onsite or visiting Color’s offices to confirm they are fully vaccinated against COVID-19 unless a medical or religious accommodation is timely requested and approved. Please reach out if you have questions or concerns about this policy and how it may apply to your candidacy for a role with Color

• *Description** • *University of Colorado - School of Medicine** • *Department of Immunology and Microbiology and... • *University of Colorado Comprehensive Cancer Center** • *Bioinformatics Senior Instructor** The University of Colorado has a requirement for COVID-19 vaccinations and full completion thereof by 9/1/21 or upon start date. Information regarding this requirement, and exemptions can be found at: Anschutz: https://www.ucdenver.edu/docs/librariesprovider284/default-document-libr... Denver: https://www.ucdenver.edu/coronavirus Exemptions vary by campus location/department. Campus/Unit-Specific Exemptions: + Anschutz Campus - Exemptions are allowed for medical or religious reasons. + Denver Campus - Exemptions are allowed for medical, religious, or personal reasons. + Consolidated/Central Services Administration - Will follow Anschutz policy on exemptions. The University of Colorado Denver seeks individuals with demonstrated commitment to creating an inclusive learning and working environment. We value the ability to engage effectively with students, faculty and staff of diverse backgrounds The University of Colorado Denver l Anschutz Medical Campus seeks individuals with demonstrated commitment to creating an inclusive learning and working environment. We value the ability to engage effectively with students, faculty and staff of diverse backgrounds. The University of Colorado Comprehensive Cancer Center (UCCC) and Immunology and Microbiology Department is seeking a Masters-level Bioinformatics researcher that specializes in analysis of -omics data. The ideal candidate will have a strong track record, as demonstrated through publications and experience, in the analysis and interpretation of -omics data. Additionally, a demonstrated track record of algorithm development with strong programming skills, using R, python or similar languages, along with implementing next generation sequencing data processing pipelines. This position will specialize in informatics expertise on both bulk sequencing and single cell technologies at the DNA, and RNA level, with some support for the additional technologies found below. Experience or interest in 16s bacterial genomics would be an additional asset. Finally, the ideal candidate will have a desire to collaborate with and train laboratory personnel from the Department of Immunology and Microbiology to both develop Bioinformatics analysis plans around their research topics and then to execute on those plans. This position is highly collaborative with opportunities to collaborate with Immunology and Microbiology and UCCC members and to develop the analysis tools needed. This position will be dedicated to research and working on projects through the UCCC Biostatistics and Bioinformatics shared resource for the Immunology and Microbiology Department. The UCCC is the top-ranked NCI-designated comprehensive cancer center in the mountain region of the United States. The UCCC has a membership of 230 faculty that span research from basic cancer biology to epidemiology and cancer prevention. The University has made major investments into centralizing patient medical records for research purposes, bringing in cutting edge single cell technologies at the protein, DNA, and RNA level (10x Genomics, VECTRA, MIBI, mass spectrometry, high content microscopy), made major investments in to building research programs in Immuno-oncology, data analytics, RNA biosciences, and Fibrosis. The UCCC is committed to developing cutting edge basic research and translating these findings into the clinic. With 15 shared resources, including Genomics, Functional Genomics, Proteomics/Metabolomics and Biostatistics and Bioinformatics, The UCCC offers cutting edge resources to its members. This position will be fully supported by the Immunology and Microbiology Department through the UCCC with generous salary compensation commensurate with the qualifications of the individual. • *Responsibilities** : • Analysis of -omics datasets through the Biostatistics and Bioinformatics shared resource, with a focus on next generation sequencing data, particularly for whole genome and whole exome data • Develop collaborative relationships with Immunology and Microbiology Department and UCCC members • Development and implementation of algorithms for the analysis of -omics data • Consultation and assistance with research design and analysis, including data display and graphical representation. • Writing and reviewing of grants and manuscripts • Contribute to teaching needs of the Department and the School, particularly as related to bioinformatics training for Immunologists and Microbiologists, including, but not limited to, developing course materials, delivering lectures, serving as a course director, and providing one-on-one instruction to a variety of learners • Ongoing analysis of Departmental needs in bioinformatics analysis and training, with team input into growth plans Salary and Benefits The salary range (or hiring range) has been established at $100,000 to $105,000 The salary of the finalist(s) selected for this role will be set based on a variety of factors, including but not limited to, internal equity, experience, education, specialty and training. The above salary range ( _or hiring range_ ) represents the University's good faith and reasonable estimate of the range of possible compensation at the time of posting. The University of Colorado offers a full benefits package. Information on University benefits programs, including eligibility, is located at Employee Services . University of Colorado Denver | Anschutz Medical Campus is dedicated to ensuring a safe and secure environment for our faculty, staff, students and visitors. To assist in achieving that goal, we conduct background checks for all new employees prior to their employment. The Immigration Reform and Control Act requires that verification of employment eligibility be documented for all new employees by the end of the third day of work. Alternative formats of this ad are available upon request for persons with disabilities. Your total compensation goes beyond the number on your paycheck. The University of Colorado provides generous leave, health plans and retirement contributions that add to your bottom line Benefits: https://www.cu.edu/employee-services/benefits . Total Compensation Calculator: https://www.cu.edu/employee-services/total-compensation • *Diversity and Equity:** Please click here for information on disability accommodations: https://www1.ucdenver.edu/offices/human-resources/employee-relations-per... Office of Equity: https://www1.ucdenver.edu/offices/equity The University of Colorado Denver | Anschutz Medical Campus is committed to recruiting and supporting a diverse student body, faculty and administrative staff. The university strives to promote a culture of inclusiveness, respect, communication and understanding. We encourage applications from women, ethnic minorities, persons with disabilities and all veterans. The University of Colorado is committed to diversity and equality in education and employment. • *Qualifications** • *Minimum Qualifications:** + A PhD or equivalent experience in Bioinformatics/Biostatistics/Computational Biology or related fields. + Applicants must meet minimum qualifications at the time of hire. • *Perferred** **qualifications:** • Interest in developing new algorithms for new technologies, such as single cell technologies • Experience with developing and writing grant applications or parts of grant applications around Bioinformatics analysis • A track record in analysis of other -omic datasets • An interest in Immunology and Microbiology research and Bioinformatics approaches critical to the field • A commitment to training and education in bioinformatics within the Department and the School • Demonstrated track record in the Bioinformatics/Computational Biology/Mathematical Modeling space through peer-reviewed publications and experience. • A deep understanding of NGS technologies and ability to develop the pipelines to process and analyze the associated data. • Code-base that is managed through a software versioning system (e.g., GitHub) • A track record in cancer research and/or infectious disease research • A desire and track record for training others in use of existing Bioinformatics tools and pipelines • Programming in R along with another language (e.g., python) • *Knowledge, Skills and Abilities:** + Excellent communication and interpersonal skills + A desire to work collaboratively with multiple researchers in the cancer and immunology space _Applicants must meet minimum qualifications at the time of hire._ • *Job:** Faculty • *Primary Location:** Aurora • *Job Category** Faculty • *Department** U0001 -- DENVER & ANSCHUTZ MED CAMPUS • *Schedule** Full-time • *Posting Date** Oct 26, 2021 • *Unposting Date** Ongoing • *Posting Contact Name** Brooke Lydick • *Posting Contact Email** adrianne.lydick@cuanschutz.edu • *Posting Number** 00790543 • *Req ID:** 23357 The University of Colorado does not discriminate on the basis of race, color, national origin, sex, age, pregnancy, disability, creed, religion, sexual orientation, gender identity, gender expression, veteran status, political affiliation, or political philosophy. All qualified individuals are encouraged to apply

University of Colorado Anschutz Medical Campus Cancer Center Professional Research Assistant/Sr. Professional Research Assistant Software Developer Position 692724 * * The University of Colorado Denver l Anschutz Medical Campus seeks individuals with demonstrated commitment to creating an inclusive learning and working environment. We value the ability to engage effectively with students, faculty and staff of diverse backgrounds. The University of Colorado Comprehensive Cancer Center (UCCC) is seeking a software developer to produce bioinformatics analysis tools that make large-scale datasets accessible and usable by basic and clinical research scientists. Our mission is to develop and provide novel, user-friendly, and interactive tools to encourage and empower researchers to explore their own data. This position will collaborate with analysts and faculty in the Biostatistics and Bioinformatics Shared Resource (BBSR), as well as basic and clinical researchers across the Anschutz... Medical Campus, to identify bottlenecks in data analysis workflows. Under the guidance of the BBSR, the developer will design, build, and deploy software solutions to these areas. The candidate should have a proven track record in software development, particularly in R and/or python, and have current knowledge of or interest in biomedical research to fully understand the needs and bottlenecks of data analysis. The UCCC is the top-ranked NCI-designated comprehensive cancer center in the Rocky mountain region of the United States. The UCCC has a membership of 230 faculty that span research from basic cancer biology to epidemiology and cancer prevention. The University has made major investments into centralizing patient medical records for research purposes, bringing in cutting edge single cell technologies at the protein, DNA, and RNA level (10x Genomics, VECTRA, MIBI, mass spectrometry, high content microscopy), made major investments in to building research programs in Immuno-oncology, data analytics, RNA biosciences, and fibrosis. The UCCC is committed to developing cutting edge basic research and translating these findings into the clinic. With 12 shared resources, including Genomics, Functional Genomics, Proteomics/Metabolomics and Biostatistics and Bioinformatics, The UCCC offers cutting edge resources to its members. Examples of Work Performed Collaborate with a team to understand researcher goals in a specific bioinformatics experiment and analysis Understand and work with the data generated in a bioinformatics analysis pipeline Adapt an analysis workflow to design and build effective and generalizable software Identify and develop creative alternative analysis of the data Implement visualization approaches to make data more accessible to researchers Iterate over the software to continue to meet the demands of researchers Salary and Benefits: Salary is commensurate with skills and experience. The University of Colorado offers a full benefits package. Information on University benefits programs, including eligibility, is located at Employee Services. This position falls into the salary range depending on qualifications: $60,000-$90,000 University of Colorado Denver | Anschutz Medical Campus is dedicated to ensuring a safe and secure environment for our faculty, staff, students and visitors. To assist in achieving that goal, we conduct background checks for all new employees prior to their employment. The Immigration Reform and Control Act requires that verification of employment eligibility be documented for all new employees by the end of the third day of work. Alternative formats of this ad are available upon request for persons with disabilities. Your total compensation goes beyond the number on your paycheck. The University of Colorado provides generous leave, health plans and retirement contributions that add to your bottom line. Benefits:https://www.cu.edu/employee-services/benefits. Total Compensation Calculator:https://www.cu.edu/employee-services/total-compensation ** Minimum Qualifications for PRA A Bachelor’s degree in Bioinformatics, Computational Biology, Computer Science, Biostatistics, Biology, or related field A demonstrated history of at least 1 year of developing software or programming tools Advanced knowledge of the R programming language Minimum Qualifications for Sr. PRA A Master’s degree in Bioinformatics, Computational Biology, Computer Science, Biostatistics, Biology, or related field A demonstrated history of at least 1 year of developing software or programming tools Advanced knowledge of the R programming language Preferred Qualifications Working knowledge of biology Ability to code in multiple languages and transfer analysis pipelines across languages Ability to multitask projects Experience with any of the following: o Performing bioinformatics analyses o R shiny environment o Data analysis and visualization o Web development o Version control, GitHub o High Performance Computing clusters Knowledge/Skills Ability to manage and work with big data, preferably bioinformatics-related data Strong critical thinking and analytical skills Ability to communicate in a multi-disciplinary conversation, including simplifying and explaining complex software concepts and principles to biologists and bioinformaticists Strong presentation skills Great written documentation of tool development A positive attitude Ability to work both independently and as a part of a collaborative team Strong customer service skills * Job: *Faculty Organization: *U0001 -- DENVER & ANSCHUTZ MED CAMPUS Title: Bioinformatics Developer Location: Aurora Requisition ID: 17923