Bioinformatics Jobs

Overview The department of Pathology is seeking a highly motivated Bioinformatics Research Scientist to lead projects to dissect the underlying mechanisms for an uncommon but clinically important pediatric brain tumor called ependymoma. Dealing with large numbers of genomic and epigenomic datasets, including DNA methylation profiling, gene expression profiling and ChipSeq, you will be working... with scientists from the lab of Dr. David Ellison. Candidates with a strong background in bioinformatics, computational biology, and cancer genomics are highly encouraged to apply for this position. You will not only be manipulating the data, but also visualizing data for presentations and publications. This role provides an exciting opportunity to solve challenging, but highly relevant, scientific questions with new methodologies such as ATAC-Seq, whole-genome bi-sulfite sequencing and single cell RNA-seq. In this role, you will become an expert in both genomics and functional genomics by working in a highly collaborative environment. Specific responsibilities may involve developing and evaluating analytic tools and, through collaborative initiatives, machine-learning approaches for genomic analysis, communicating with our partners and users, project management, and manuscript preparation. You will work closely with members of our Center for Applied Bioinformatics, giving you access to high performance computing clusters, a cloud computing environment, innovative visualization tools, highly automated analytical pipelines and mentoring from scientists with deep experience in data analysis, data management and delivery of high-quality results. Take the first step to join our team by applying now! Minimum Education Bachelor’s degree is required Minimum Experience Seven (7) years of relevant post-degree work experience is required Five (5) years of relevant post-degree work experience is required with a Master’s degree Two (2) years of relevant post-degree work experience is required with a PhD Other Information COVID-19 vaccine: As of September 10, 2021, St. Jude Children’s Research Hospital has mandated the COVID-19 vaccine for all employees, excluding those with an approved medical or religious accommodation, as a condition of employment. St. Jude is an Equal Opportunity Employer No Search Firms: St. Jude Children’s Research Hospital does not accept unsolicited assistance from search firms for employment opportunities. Please do not call or email. All resumes submitted by search firms to any employee or other representative at St. Jude via email, the internet or in any form and/or method without a valid written search agreement in place and approved by HR will result in no fee being paid in the event the candidate is hired by St. Jude. Apply for this position now

Summary Ikena offers an exciting new opportunity to join our team as a highly creative, diversely experienced, and self-motivated bioinformatics/computational scientist. You will be part of an innovative, scientifically driven, and fast paced team focused on developing breakthrough cancer therapies. You will take responsibility for computational aspects of drug discovery and development by working closely with discovery and translational scientists. Your Role You will develop and maintain analytical and data visualization pipelines for analysis of genomics, epigenomics, transcriptomics, and pharmacological data across a broad range of human cancers Collaborate with biology and translational teams to design and execute data analysis to support project needs Integrate and analyze multi-dimensional data from proprietary and publicly available datasets to support new target evaluation, biomarker discovery, indication selection, and patient stratification Critically analyze results, detect... relevant data associations, and prepare reports in the form of presentations for project teams Manage and execute multiple projects across matrixed teams; work with leadership to meet short timelines while maintaining scientific rigor Explore, implement, and master new technologies, computational tools, and best practices for data analysis and data management Additional duties and responsibilities as required Your Background You will have a PhD in bioinformatics, computational biology, or data science related fields with 3+ years of experience in academia or industry Experienced in NGS and omics data analysis, with a focus on RNA- and DNA-seq Deep knowledge of public genomic, transcriptomic databases and tools (e.g., TCGA, ICGC, cBioportal, DepMap, GEO, GTEx, ENSEMBL) Experience with AWS environment preferred Fluency programming in R or Python Good understanding of the genetic and molecular mechanisms of cancer Excellent data management and analytical skills Ability to derive insights from complex multi-dimensional biological data including bulk and single cell RNAseq, somatic mutation, and copy number alteration data, biological networks, and pathways Significant experience applying statistics to the analysis of large datasets Familiarity with machine learning techniques Demonstrated ability to multitask and excellent time management and presentation skills

Our client is seeking a talented and highly motivated computational biologist and bioinformatics leader to build and enhance our drug positioning AI platform that can predict drug response, therapeutic benefit, and survival outcome of cancer patients, and generate biomarkers for specific cancer types & drug candidate of interest. Candidates must have a passion for solving world problems in cancer treatment using bioinformatics and computer science with involvement in optimizing our core bioinformatics workflows, computational algorithms, and AI-based algorithms to improve their level of robustness and effectiveness, and efficiency.• Leveraging cutting-edge Machine Learning technology to develop clinically relevant AI platforms for discovery of drug-tumor-specific biomarkers • Designing biologically meaningful optimization and validation strategies to assess the applicability and relevance of the set of biomarkers • Applying biomarkers to larger data sets and developing optimal... approaches for patient stratification • Incorporating multi-omics (RNAseq, NGS, proteomics, mutation, methylation) data into the current workflow to strengthen the platform • Integrating systems biology and statistical analysis to identify druggable tumor signaling pathways • Assisting the data scientists to apply Machine Learning/Deep Learning algorithms on biological data • Identifying institutions/companies to collaborate with and get data access • Processing, analyzing, and interpreting high volumes of data for the development and validation of methods • Collaborating with other informatics scientists, academic experts, and statisticians around data analysis methods and solutions for automated workflows and database creation • Implementing, executing, and documenting bioinformatics pipelines and workflows • Publishing scientific papers and posters and presenting the platform and its findings effectively in conferences/meetings • Ph.D. in Bioinformatics, Biostatistics, Computational Biology, Computer Science or other related fields with 5 to 8 years of experience or master’s degree with 8 to 10 years of relevant experience • At least 4 years of experience in scripting languages like R, Perl & Python • Solid understanding and 4+ years of hands-on experience with statistics, data mining, machine learning, and statistical data modeling techniques • Familiarity with fundamental concepts in molecular biology, chemical biology, statistics, and bioinformatics • Acquiring a broad knowledge of multiple sectors in the life sciences and NGS technology • Experience using NGS data for one of the following: biomarker discovery, drug target identification, large cohort analysis, patient stratification. • Demonstrating technical and thought leadership and ability to influence and guide the work of others. • Prior experience in building a bioinformatics platform highly desired. • Excellent interpersonal and communication skills, with • strong written and verbal presentation • Background in oncology or clinical experience • Familiarity with raw NGS data processing is highly preferred. • Knowledge and experience of online bioinformatics analysis tools & software’s • Experience working with cloud computing. • Must be able to work in a fast-paced and team-oriented environment. The client is willing to provide relocation assistance

Summary Dr. Fazal is seeking a Bioinformatics Analyst II to develop and apply genomic analysis tools to identify cis- and trans- factors associated with RNA localization. The Fazal lab is a young laboratory focusing on systematically interrogating the subcellular transcriptomes of mammalian cells and characterizing the scope, regulation, and function of subcellular localization, particularly at the systems and organismal level. We use a variety of biochemical, biophysical, imaging, genomic and computational approaches to investigate the sequence-function relationship dictating RNA localization. Recent relevant publications from the principal investigator include: – Atlas of Subcellular RNA Localization Revealed by APEX-seq. Cell 2019 – RNA Structure Maps Across Mammalian Cellular Compartments. NSMB 2019 – RNA-GPS Predicts SARS-CoV-2 RNA Residency to Host Mitochondria and Nucleolus. Cell Systems 2020 – Subcellular Spatial Transcriptomes: Emerging Frontier for Understanding Gene... Regulation. CSHL Symposia of Quantitative Biology 2019 Visit the BCM website (https://www.bcm.edu/people-search/furqan-fazal-72901) for more information about our lab. Job Duties Under the general direction of the principal investigator, this position will be responsible for the following: – Running and validating RNA-seq/CLIP-seq pipelines. – Downloading and analyzing publicly-available genomic datasets. – Writing custom scripts to perform desired tasks. – Reviewing existing variation and proposing improvements. – Testing bioinformatics tools and providing feedback. – Using various computational analyses and biological interpretation of results to review existing data and propose improvements. – Collaborating with postdoctoral fellows and graduate students to define software and analysis requirements and implement desired specifications. – Executing analysis using existing software tools. – Designing and coding new systems and/or modifications as needed. – Tracking project data and report analysis results. – Communicating effectively with team members in both computational and experimental biology areas. Minimum Qualifications Bachelor’s degree in Genetics, Biology, Bioinformatics, Biostatistics, Computational Biology, Computer Science, or a related field. One years of relevant experience. Preferred Qualifications M.S. or Ph.D. in Biology. Experience with analysis of next-generation sequencing (NGS) data, including read quality assessment, mapping to genomic sequence, and quantification of mapped reads. – Strong verbal and written communication skills. – Strong organizational skills, prioritization skills, time management skills, and attention to detail. Baylor College of Medicine is an Equal Opportunity/Affirmative Action/Equal Access Employer

The Field Bioinformatics Support Specialist will serve to support customers in North America. You will be responsible for supporting and maintaining the utilization of Bio-Rad's portfolio of single-cell technology through bioinformatics support analyzing data. This is a specialized role within the Digital Biology Group and is fundamental for the growth of new and advanced technology (instruments and applications). This role is highly technical and will serve as a liaison between customers, sales, product marketing & development, and the market development group. As new products are released, the Field Support Specialist team will be instrumental in creating and cultivating market adoption through strategic support efforts. Responsibilities • As the Field Bioinformatics Support Specialist, you will be a critical liaison between Bio-Rad and our customers, providing pre- and post-sale bioinformatic & application support on our single-cell technology portfolio specifically focused on... supporting bioinformatic analysis needs. • You will work cross-functionally with other Field Application Specialists in North America. • You will have support reach into other global geographies as needed. • You will work closely with the Specialist Sales team and deliver trainings, presentations, and technical seminars to individuals and groups with diverse needs and experience levels. • Provide training on and assistance with data analysis, troubleshooting, and optimization for each of these technologies. • Assist customers with experimental design and reporting of results. • Initiate strategic projects with internal Bio-Rad stakeholders to further educate and assist customers. Qualifications • Life Science PhD preferred or MS with commensurate scientific experience and demonstrated commercial success. • Experience with Single-Cell genomic data analysis experience is required. • Experience working with command line applications in a Linux environment. • Basic knowledge of NGS bioinformatics workflows (quality control, read alignment, etc.) • Basic knowledge of common bioinformatics file types (FASTQ, SAM/BAM, BED, etc.) • Basic knowledge of distributed computing systems (HPC, AWS, etc.) • Wet-lab experience with molecular biology techniques is highly desired. • Experience with immunofluorescent imaging techniques is highly desirable. • Ability to communicate complex concepts by fostering engaging communication tailored to audience needs. • Superior knowledge of sample preparation considerations and isolation through data analysis with focus on single-cell applications • Deep understanding of genomics applications related to gene expression and epigenetics. • Ability to travel as needed, <25%. Vaccination Requirement: Due to the higher threat of more infectious and deadly COVID-19 variant strains emerging, Bio-Rad recently announced a new mandatory vaccination policy requiring its US employees to be fully vaccinated against COVID-19 as a condition of employment. Bio-Rad will make reasonable accommodations for valid exemptions based on disability, medical, or religious reasons. With this policy, Bio-Rad joins a growing list of companies that are prioritizing sound science and available facts to best ensure the ongoing safety of its employees and the community. About Bio-Rad: Bio-Rad is a global leader providing a broad array of clinical diagnostics and life science research products. With a team of more than 8,000 employees and a global network of operations serving our customers, we help people live longer, healthier lives. Bio-Rad was founded over six decades ago and has continued to provide the healthcare industry with innovative and useful products that help life science researchers accelerate the discovery process and medical diagnostic labs obtain faster, better results. EEO/AA Employer/Veterans/Disabled/Race/Ethnicity/Gender/Age Agency Non-Solicitation: Bio-Rad does not accept agency resumes, unless the agency has been authorized by a Bio-Rad Recruiting Representative. Please do not submit resumes unless authorized to do so. Bio-Rad will not pay for any fees related to unsolicited resumes

Job Summary UT Southwestern has an opening for the position of Computational Biologist II, SY-Trauma/Acute/Crit Care Surg Education/Experience Required: • Ph.D. in Computer Science or a related field of biological science, thesis work in bioinformatics and computational biology. • Master's degree in Computer Science or a related field of biological science, and two (2) years related research experience in bioinformatics and computational biology. • Bachelor's degree in Computer Science or a related field of biological science, and four (4) years related research experience in bioinformatics and computational biology. Job Duties: • Perform professional work in support of scientific research using technical knowledge of software, software development, networking, and/or hardware in a complex computing environment. • Subject matter expert in multiple areas of computing technology, and specific knowledge of molecular biology and genetics. • Manage computer hardware and software... programming and maintenance for one or more research laboratories. • Ensure existing systems meet the continuing needs of the labs and/or recommend and test new systems as necessary. • Perform or direct others to perform complex data analysis related to specialized research methodologies and results. • Manage assigned research projects with minimal input from the Principle Investigator. • Develop and/or modify software to support new and ongoing research projects. • Resolve hardware, software, and network issues in support of the laboratory. • Oversee the development and maintenance of complex databases to support new and ongoing research projects. • Prepare research reports for presentation, and assist with preparation of manuscripts for publication. • May specialize in bioinformatics, software development, network administration, or hardware/software maintenance. • **Other Duties: Performs other duties as assigned

The Department of Biophysics and the Lyda Hill Department of Bioinformatics (Green Center for Systems Biology) at The University of Texas Southwestern Medical Center invite applications for a jointly appointed tenure-track faculty position, primarily at the level of assistant professor, but other ranks may be considered. Appointment rank will be commensurate with academic accomplishments and experience. We seek outstanding candidates who work at the interface of super-resolution light microscopy and cryoelectron tomography (cryoET). We are interested in both developers of these cutting-edge technologies and high-end users focused on important, mechanistic questions in biophysics and/or cell biology. Ideal candidates will have experience in both super-resolution light microscopy and cryoelectron microscopy. Successful candidates will benefit from an infrastructure highly conducive to the creation of new methods and approaches. In cryoET, they will have access to a newly purchased... Thermo Fisher Aquilos II cryoFIB/SEM equipped with both internal cryo-widefield and external Leica cryo-confocal fluorescence microscopes, as well as two Titan Krios cryoelectron microscopes with direct electron detectors, including one with the latest generation cold field emission gun and Selectris-X energy filter. In light microscopy they will be embedded in a program with an outstanding track record of engineering super-resolution, light-sheet and cleared tissue microscopes that are flexibly designed to address a variety of imaging questions. To this effect the Green Center for Systems Biology houses ~25 isolated microscope development bays equipped with optical tables. The Department of Bioinformatics is responsible for running BioHPC, a high performance computing and storage facility which is equipped with ~1000 CPU and ~120 GPU nodes connected to 50 PB of storage for on premise data analysis. All instruments have direct mounts to this computing infrastructure. Besides offering a home in two vibrant, interactive, and physically neighboring Departments, UTSW has a highly collaborative and inclusive environment encompassing the entire spectrum of basic, translational, and clinical research. Candidates must have a PhD degree in biomedical imaging or a related discipline and relevant work experience. The search committee is particularly interested in candidates who, through their research, teaching, and/or service, will contribute to the diversity and excellence of the academic community. Applicants should submit a curriculum vitae, a concise description of previous research accomplishments and future plans (3 page limit) to https://jobs.utsouthwestern.edu/. Please arrange for referees to send reference letters to BiophysicsSearch@utsouthwestern.edu. The screening of applications will begin December 1, 2021 and continue on a rolling basis until the position is filled. Questions may be emailed to BiophysicsSearch@UTSouthwestern.edu. UT Southwestern Medical Center is committed to an educational and working environment that provides equal opportunity to all members of the University community. As an equal opportunity employer, UT Southwestern prohibits unlawful discrimination, including discrimination on the basis of race, color, religion, national origin, sex, sexual orientation, gender identity, gender expression, age, disability, genetic information, citizenship status, or veteran status. To learn more, please visit: https://jobs.utsouthwestern.edu/why-work-here/diversity-inclusion

Experience and Education Bachelor's degree in Computer Science or a related field and three (3) years of scientific software development/analysis. Experience with HPC is a strong plus. Master's or PhD preferred. Will consider demonstrated success in publishing computational science results in lieu of experience. Job Duties • Support faculty and students in adapting computational strategies to the specific features of the HPC infrastructure. • Working with a range of systems and technologies such as compute cluster, parallel file systems, high speed interconnects, GPU-based computing and database servers. • Develop software and methods to explore, analyze and visualize biological data sets including genomic, imaging and protein structure data. • Participate in the design and execution of collaborative research studies in biomedical informatics. • Train users on the application and usage of computational systems to help accelerate the pace of scientific discovery. • Performs other... duties as assigned. 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

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 engineer with deep experience in bioinformatics, genomics 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 • Scale our genomics platform to ingest, analyse and draw insights from a rapidly growing pipeline of genomic data. • Generate and pursue novel new ideas for improving our variant detection algorithms. • Introduce and incorporate emerging computational methodologies and infrastructure 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. Our Ideal Candidate Will Have • Advanced 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're passionate about rigorous engineering practices and discipline: code reviews, automated testing, logging, monitoring, alerting, etc. • You have 3+ years of industry experience as a bioinformatics engineer or computational biologist (or equivalent role). • You have routinely used high performance and distributed computing systems (AWS, GCP). • 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 standard bioinformatics tools such as BWA, GATK, etc. • 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 experience shipping code in a clinical production environment. • You are familiar with a variety of sequencing platforms: short-read SBS, linked-read, long-read, optical mapping, etc. • You have experience working with advanced bioinformatics concepts such as graph alignment, genotyping of complex haplotypes, etc. • You have experience building 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 have previously worked with large amounts of healthcare or genomic data. Possible Projects To Contribute To • Adopt and/or develop novel algorithms that enable extracting additional actionable clinical insights from sequencing data. • Build a genomics infrastructure that scales efficiently to the volume of large studies such as “All Of Us” (1 million participants). • Reduce complexity or remove dependencies in our clinical analysis pipeline. • Identify novel genomic loci associated with mono-genic diseases based on functional annotation, public databases, scientific literature, etc. 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

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