Senior Data & AI Engineer at CareDx, Inc.
United States
$126k - $187k
<div class="content-intro"><p><span style="font-family: times new roman, times, serif;"><span style="font-size: 16px;"> </span></span></p></div><p><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">CareDx is a leading precision medicine diagnostics company advancing care in transplant, specialty oncology, and cell therapy. Through our innovative portfolio of molecular diagnostics, digital health solutions, AI-powered data and analytics, and patient support services, we partner with healthcare providers, patients, and biopharma organizations to help inform clinical decision-making and improve patient outcomes.</span></p> <div class="x_x_elementToProof"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">At CareDx, every employee has the opportunity to contribute to innovations that help transform patient care and improve lives.</span></div> <p><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">The Senior Data and AI Engineer will serve as a senior hands-on technical owner for solutions that transform structured and unstructured data from real-world electronic medical records (EMRs) into reliable, standardized clinical data. The role will design and deliver data engineering and clinical natural language processing (NLP) pipelines to integrate, identify, and normalize diseases, diagnoses, laboratory tests and results, demographics, signs and symptoms, medications, procedures, and other information supporting clinical, scientific, and business operations.</span></p> <p><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">This role combines data engineering, clinical NLP, medical terminology and ontology expertise, applied AI, OMOP data modeling, and production software engineering. The engineer will harmonize structured EMR data, interpret clinical narratives, and integrate these sources into a transplant-focused OMOP Common Data Model (CDM). Success requires sound technical judgment, strong clinical domain knowledge, close collaboration with clinicians, and ownership from data integration and validation through deployment and ongoing production support.</span></p> <p><span style="font-family: 'times new roman', times, serif; font-size: 12pt;"><strong>Responsibilities: </strong></span></p> <ul> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Own the design, implementation, testing, deployment, and maintenance of pipelines that integrate structured EMR data and process unstructured clinical narratives.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Develop entity and relationship extraction workflows for diagnoses, symptoms, laboratory results, demographics, medications, allergies, and procedures, linking findings to relevant values, units, doses, routes, frequencies, anatomical sites, and dates.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Normalize structured source codes and extracted clinical concepts using ICD, SNOMED CT, RxNorm, LOINC, and other appropriate terminologies; manage local codes, synonyms, abbreviations, ambiguous mappings, terminology versions, and hospital-specific language.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Implement clinical context interpretation, including negation, uncertainty, temporality, experiencer, and treatment status. Distinguish current conditions from historical, family, hypothetical, and ruled-out findings.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Handle clinical note structure, copied-forward content, conflicting statements, and information spanning sentences or encounters. Reconcile extracted findings with structured EMR records using defined source and time precedence rules while retaining discrepancies, source evidence, and clinical timelines.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Build and evaluate hybrid approaches using rules, dictionaries, statistical or deep learning models, and LLMs; apply structured output validation and terminology checks to prevent unsupported facts and invalid codes.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Partner with clinicians to define clinical data schemas, source mappings, annotation guidelines, reference datasets, and acceptance criteria; resolve annotation disagreements and translate clinical requirements into engineering specifications.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Measure entity, relationship, assertion, and normalization performance; conduct clinical error analysis and validate generalization across hospitals, specialties, and note types using patient-level data separation and checks for data leakage.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Preserve source text, note and encounter identifiers, extraction provenance, model and terminology versions, and review status. Establish confidence thresholds and human review workflows for ambiguous or high-impact outputs.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Build ETL workflows, APIs, and validation controls to harmonize structured EMR fields and NLP outputs, including patient and encounter linkage, units, timestamps, and duplicate records; monitor data quality, throughput, reliability, and model performance, and resolve production issues.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Document architecture and operational procedures, lead code and design reviews, mentor engineers, and communicate technical tradeoffs to clinical, scientific, product, and engineering stakeholders.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Follow security, privacy, and compliance requirements for sensitive healthcare data, including HIPAA-aligned practices, least-privilege access, appropriate logging, and secure data handling.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Design and maintain mappings and transformation pipelines for a transplant-focused OMOP CDM, representing transplant procedures, donor and recipient information, immunosuppressive therapies, laboratory results, rejection episodes, and longitudinal outcomes using appropriate standard concepts and documented extensions where needed.</span></li> </ul> <h1><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Qualifications</span></h1> <ul> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Education: Master’s or Ph.D. degree in Computer Science, Computational Linguistics, Biomedical Informatics, Data Science, Engineering, or a related field, or equivalent practical experience.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Experience: 7+ years of relevant experience in NLP, machine learning, or applied AI engineering, including 3+ years developing clinical NLP solutions using real-world EHR or hospital notes, with demonstrated delivery of production solutions.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Advanced Python and SQL skills, with experience using pandas or comparable data-processing tools, relational data modeling, ETL orchestration, incremental processing, schema validation, and automated data-quality checks.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Hands-on experience integrating structured EMR data through HL7 FHIR, HL7 v2, APIs, or database extracts; ability to align patient and encounter records, normalize units and timestamps, manage duplicates, and reconcile conflicting clinical sources.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Hands-on experience with the OMOP Common Data Model and OHDSI standardized vocabularies, including source-to-standard concept mapping, vocabulary relationships, and ETL development to transform structured EMR data and clinical NLP outputs into appropriate OMOP tables.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Experience validating OMOP data for conformance, completeness, and plausibility, with traceable source mappings and quality controls for longitudinal clinical records.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Hands-on experience with clinical entity recognition and linking, relationship extraction, assertion detection, and temporal extraction, including clinical sentence and section detection, abbreviation disambiguation, negation, uncertainty, and experiencer identification.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Experience implementing clinical NLP pipelines using medspaCy, scispaCy, cTAKES, or comparable frameworks, combining rules, dictionaries, and machine learning based on task requirements and measured performance.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Practical expertise with ICD, SNOMED CT, RxNorm, LOINC, and UMLS, including terminology services, value sets, semantic types, ontology hierarchies, concept retrieval and disambiguation, local-code crosswalks, and terminology version management; experience with unit normalization using UCUM or equivalent methods.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Experience applying and evaluating transformer models using PyTorch, TensorFlow, or equivalent frameworks and Hugging Face Transformers or comparable tooling; hands-on experience with LLM-based clinical extraction, schema-constrained outputs, and terminology-grounded validation.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Strong understanding of medical terminology, common diseases, laboratory measurements, medications, and clinical workflows. Ability to apply clinical reasoning to interpret documentation, distinguish evidence from inference, select appropriate concept specificity, and recognize ambiguous findings requiring clinician review.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Experience creating clinician-reviewed reference datasets and annotation guidelines; measuring precision, recall, and F1 for extraction, normalization, and assertion tasks; preventing patient-level data leakage; and evaluating performance across source systems and note types.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Experience building production APIs or services, deploying containerized applications on a cloud platform, and using Git, automated testing, CI/CD, model and data versioning, monitoring, batch inference, error recovery, and performance testing.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Demonstrated ability to lead technical work independently, mentor engineers, document designs and operational procedures, and communicate tradeoffs clearly to clinicians, clinical informaticists, scientists, data engineers, and business stakeholders.</span></li> </ul> <h1><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Preferred Qualifications</span></h1> <ul> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Experience with transplant clinical data or research, including donor and recipient characteristics, immunosuppressive therapies, graft function, rejection, and longitudinal outcomes.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Experience with OHDSI tools such as Usagi, Achilles, or Data Quality Dashboard, and designing documented OMOP extensions when standard concepts or structures do not adequately represent domain requirements.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Experience adapting or fine-tuning biomedical or clinical language models, active learning, distributed processing, and optimizing inference for high-volume clinical data.</span></li> <li style="font-family: 'times new roman', times, serif; font-size: 12pt;"><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Experience with OCR and document layout processing for scanned clinical records, including assessment of how OCR errors affect extraction quality.</span></li> </ul> <p><span style="font-family: 'times new roman', times, serif; font-size: 12pt;"><strong>Additional Details: </strong></span></p> <p><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Every individual at CareDx has a direct impact on our collective mission to improve the lives of organ transplant patients worldwide. We believe in taking great care of our people, so they take even greater care of our patients. </span></p> <p><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">Our competitive Total Rewards package for US Employees includes:</span></p> <ul> <li style="font-size: 12pt; font-family: 'times new roman', times, serif;"><span style="font-size: 12pt; font-family: 'times new roman', times, serif;">Competitive base salary and incentive compensation</span></li> <li style="font-size: 12pt; font-family: 'times new roman', times, serif;"><span style="font-size: 12pt; font-family: 'times new roman', times, serif;">Health and welfare benefits, including a gym reimbursement program</span></li> <li style="font-size: 12pt; font-family: 'times new roman', times, serif;"><span style="font-size: 12pt; font-family: 'times new roman', times, serif;">401(k) savings plan match</span></li> <li style="font-size: 12pt; font-family: 'times new roman', times, serif;"><span style="font-size: 12pt; font-family: 'times new roman', times, serif;">Employee Stock Purchase Plan</span></li> <li style="font-size: 12pt; font-family: 'times new roman', times, serif;"><span style="font-size: 12pt; font-family: 'times new roman', times, serif;">Pre-tax commuter benefits</span></li> <li style="font-size: 12pt; font-family: 'times new roman', times, serif;"><span style="font-size: 12pt; font-family: 'times new roman', times, serif;">And more!</span></li> <li style="font-size: 12pt; font-family: 'times new roman', times, serif;"><span style="font-size: 12pt; font-family: 'times new roman', times, serif;">Please refer to our page to view detailed benefits at <a href="https://caredx.com/company/careers/" target="_blank"><span lang="EN-US" data-contrast="none"><span data-ccp-charstyle="Hyperlink">https://caredx.com/company/careers</span></span></a></span></li> </ul> <p><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">In addition, we have a Living Donor Employee Recovery Policy that allows up to 30 days of paid leave annually to a full-time employee who makes the selfless act of donating an organ or bone marrow.</span></p> <p><span style="font-family: 'times new roman', times, serif; font-size: 12pt;">With products that are making a difference in the lives of transplant patients today and a promising pipeline for the future, it’s an exciting time to be part of the CareDx team. Join us in partnering with transplant patients to transform our future together.</span></p> <p><span style="font-family: 'times new roman', times, serif; font-size: 12pt;"><strong>CareDx, Inc. is an Equal Opportunity Employer-vets/disabled, and participates in the E-Verify program. </strong><strong>By proceeding with our application and submitting your information, you acknowledge that you have read our </strong><strong><a href="https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.caredx.com%2Fus-personnel-privacy-notice&data=05%7C02%7C%7C7909ec363e2b416b016a08de7886b61c%7C9ec77d4e480144b4b8fea5749eaf06b0%7C1%7C0%7C639080717137822026%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=rz649lSGHm5Ca8UOMhbSARMbRhbyMFHdOgEEBXImKs4%3D&reserved=0" target="_blank">U.S. Personnel Privacy Notice</a><a href="https://nam04.safelinks.protection.outlook.com/?url=http%3A%2F%2Fcaredx.com%2Fus-personnel-privacy-notice%2F&data=05%7C02%7C%7C82daf31a87e44746b2ea08dceef5e348%7C9ec77d4e480144b4b8fea5749eaf06b0%7C1%7C0%7C638647987067924758%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C0%7C%7C%7C&sdata=fvNqQdyyA0YaWb3Y4bxHjbbzsxfJ4EmKAEMFQr39KnU%3D&reserved=0" target="_blank"> </a></strong><strong>and consent to receive email communication from CareDx. </strong><strong>Certain jurisdictions require notice of how we use and protect your personal information. For more information, please read our <a href="https://caredx.com/privacy-center/#ca-privacy">Privacy Policy</a></strong></span></p> <p><span style="font-family: 'times new roman', times, serif; font-size: 12pt;"><strong><span class="TextRun SCXO121329444 BCX8" lang="EN-US" data-contrast="auto"><span class="NormalTextRun SCXO121329444 BCX8">The U.S. EEO posters are available</span></span><span class="TextRun SCXO121329444 BCX8" lang="EN-US" data-contrast="auto"><span class="NormalTextRun SCXO121329444 BCX8"> </span></span><a class="HyperlinkV2 SCXO121329444 BCX8" href="http://www.eeoc.gov/sites/default/files/2023-06/22-088_EEOC_KnowYourRights6.12ScreenRdr.pdf" target="_blank"><span class="TextRun SCXO121329444 BCX8" lang="EN-US" data-contrast="auto"><span class="NormalTextRun SCXO121329444 BCX8">here</span></span></a><span class="TextRun SCXO121329444 BCX8" lang="EN-US" data-contrast="auto"><span class="NormalTextRun SCXO121329444 BCX8">.</span></span><span class="EOP SCXO121329444 BCX8"> </span></strong></span></p> <p><span style="font-family: 'times new roman', times, serif; font-size: 12pt;"><strong><span class="TextRun SCXO140334939 BCX8" lang="EN-US" data-contrast="none"><span class="NormalTextRun SCXO140334939 BCX8">Note: We do not accept resumes from headhunters, placement agencies, or other suppliers that have not signed a formal agreement with us.</span></span><span class="EOP SCXO140334939 BCX8"> </span></strong></span></p> <p> </p> <p><span style="font-family: 'times new roman', times, serif; font-size: 12pt;"><strong><span class="EOP SCXO140334939 BCX8">#LI-Remote</span></strong></span></p><div class="content-pay-transparency"><div class="pay-input"><div class="description"><p><span style="font-size: 16px;">This is the anticipated base salary range for candidates who will work in Brisbane, California. The final salary offered to a successful candidate will be dependent on several factors that may include, but are not limited to, the type and length of experience within the job, the type and length of experience within the industry, education, etc. Base pay is one part of the Total Package that is provided to compensate and recognize employees for their work, and this role may be eligible for additional discretionary bonuses/incentives and restricted stock units. CareDx is a multi-state employer, and this salary range may not reflect positions that work in other states.</span></p></div><div class="title">San Francisco Bay Area Roles</div><div class="pay-range"><span>$145,000</span><span class="divider">—</span><span>$187,000 USD</span></div></div><div class="pay-input"><div class="description"><p><span style="font-size: 16px;">This is the anticipated base salary range in the United States. The final salary offered to a successful candidate will be dependent on several factors that may include, but are not limited to, the type and length of experience within the job, the type and length of experience within the industry, education, etc. Base pay is one part of the Total Package that is provided to compensate and recognize employees for their work, and this role may be eligible for additional discretionary bonuses/incentives and restricted stock units. CareDx is a multi-state employer, and this salary range may not reflect positions that work in other states.</span></p></div><div class="title">Remote: US only roles</div><div class="pay-range"><span>$126,000</span><span class="divider">—</span><span>$158,000 USD</span></div></div></div>
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