EDER ORLANDO MÉNDEZ SALAZAR
Davis,USA
Summary
Doctor in Biomedical Sciences with 8+ years of experience in computational biology, multi-omics data analysis, and microbiome research. Specialized in analyzing metagenomics, transcriptomics, and metabolomics to identify biomarkers for cancer immunotherapy and inflammatory diseases. Proven track record of research excellence with peer-reviewed publications in high-impact journals (JCO, npj Precision Oncology, Scientific Reports). Expert in statistical analysis using Python and R, with strong experience in clinical trial data analysis and international collaborative research. Currently seeking remote bioinformatics positions with focus on cancer diagnostics, microbiome therapeutics, or precision medicine.
Overview
16
16
years of professional experience
Work History
Postdoctoral Researcher
University of California, Davis (UC Davis)
06.2025 - Current
- Project: Molecular mechanisms of pathogenic E. coli (AIEC/EHEC) interactions with the gut microbiome
- Investigate Type VI Secretion System (T6SS) role in bacterial competition and microbiome remodeling during enteric infections using multi-omics approaches
- Integrate metagenomics, RNA-seq, and metabolomics data to identify molecular pathways involved in pathogen-microbiome interactions
- Develop bioinformatics pipelines for analysis of host-pathogen-microbiome tri-partite interactions
- Design and execute experiments combining microbiology, molecular biology, and computational analysis
- Collaborate with interdisciplinary team including microbiologists, immunologists, and computational biologists
- Prepare manuscripts for publication in high-impact peer-reviewed journals
- Key Achievements:
- Identified 3 novel molecular mechanisms with potential therapeutic applications (manuscript in preparation)
- Developed custom Python pipeline for T6SS gene expression analysis across bacterial genomes
Postdoctoral Researcher
Research Center of the Université de Montréal Hospital (CRCHUM)
10.2022 - 09.2024
- Project: Gut microbiome signatures in cancer patients treated with immunotherapy and fecal microbiota transplantation (FMT)
- Characterized gut microbiome taxonomic and functional profiles in melanoma and non-small cell lung cancer (NSCLC) patients undergoing immune checkpoint inhibitor therapy
- Analyzed microbiome data from Phase II clinical trial (FMT-LUMINate) combining FMT with ipilimumab/nivolumab
- Identified 5 microbial biomarkers predictive of immunotherapy response using machine learning approaches
- Processed and analyzed >500 metagenomics samples using QIIME2,MetaPhlAn and custom R scripts
- Integrated microbiome data with clinical outcomes (response rates, survival analysis)
- Collaborated with oncologists, immunologists, and clinical trial coordinators
- Presented findings to scientific committees and potential industry partners
- Mentored graduate students and research assistants in bioinformatics workflows
- Key Achievements:
- Co-authored 4 publications in Q1 journals (JCO, npj Precision Oncology)
- Contributed to provisional patent application for microbiome-based diagnostic biomarkers (in process)
- Analyzed diet-microbiome-outcome correlations revealing novel therapeutic targets
- Developed R Shiny dashboard for real-time visualization of clinical trial microbiome data
Visiting Researcher
Computational Medicine and Clinical Bioinformatics Laboratory, Hospital Universitario Virgen del Rocío
01.2019 - 01.2020
- Project: Multi-omics data integration for precision medicine applications
- Supervisor: Dr. Joaquín Dopazo
- Implemented advanced statistical analyses in Python and R for multi-omics datasets (genomics, transcriptomics, metabolomics)
- Developed bioinformatics pipelines for diagnostic biomarker discovery
- Validated reproducibility and technical robustness of novel analytical methods
- Conducted data mining of large biomedical databases to identify disease-associated molecular signatures
- Interpreted complex results with diagnostic and therapeutic implications for clinical translation
- Prepared technical reports evaluating novelty and applicability of scientific innovations
- Key Achievements:
- Co-developed bioinformatics method for patient stratification (manuscript in preparation)
- Gained expertise in European regulatory standards for diagnostic innovations (EMA guidelines)
- Mastered advanced Python libraries (pandas, scikit-learn, biopython) for biomedical data analysis
Health Manager of Clinical Laboratory
Red Cross Hospital
01.2010 - 01.2015
- Managed clinical laboratory operations including quality control, staff supervision, and regulatory compliance
- Oversaw biochemistry, hematology, and microbiology departments
- Implemented quality assurance protocols ensuring accurate diagnostic results
- Coordinated emergency response laboratory services during disaster relief operations
- Trained and mentored laboratory technicians
- Key Achievements:
- Maintained 100% compliance with Mexican health regulations (NOM standards)
- Reduced turnaround time for critical lab results by 25%
- Implemented electronic laboratory information system improving efficiency
Education
PhD - Clinical Experimental Research in Health
National Autonomous University of Mexico (UNAM) / National Institute of Genomic Medicine (INMEGEN)
01.2022
MSc - Clinical Experimental Research in Health
National Autonomous University of Mexico (UNAM)
01.2017
Bachelor's Degree - Clinical Chemistry
Universidad Veracruzana
Veracruz, Mexico01.2009
Skills
- Bioinformatics & Computational Biology
- Multi-omics Integration: Metagenomics, transcriptomics (RNA-seq), metabolomics
- Microbiome Analysis: 16S rRNA sequencing, shotgun metagenomics, functional profiling
- Biomarker Discovery: Cancer immunotherapy response predictors, disease signatures
- Statistical Analysis: Differential expression, pathway enrichment, machine learning classification
- Programming: Python, R, Bash scripting
- Statistical Software: GraphPad Prism, SPSS, R and Python
- Cloud Computing: Conda environments
- Data Visualization: R (ggplot2, plotly)
- Critical thinking and experimental design
- Scientific writing and manuscript preparation
- Peer review expertise (BMC Microbiology, Scientific Reports)
- Data management and quality control
- Team collaboration and mentorship
- Remote work experience (3 continents, multiple time zones)
Languages
Spanish: Native
English: Advanced (C1) - Scientific writing, technical documentation
PUBLICATIONS
- DOI: 10.1186/s10020-021-00311-5
- DOI: 10.3389/fmicb.2018.02494
- DOI: 10.1007/s00296-021-05007-x
- DOI: 10.1007/s10067-022-06392-9
- DOI: 10.1038/s41698-024-00630-w
PEER REVIEW ACTIVITIES
- Certified Peer Reviewer
- BMC Microbiology (Springer Nature)
- Scientific Reports (Nature Portfolio)
- Key Reviewer Competencies:
- Critical evaluation of experimental design and data analysis
- Identification of biases and confounding factors
- Assessment of reproducibility and technical robustness
- Differentiation between scientific findings and industrial applicability
- Clear, constructive technical writing for author feedback
Timeline
Postdoctoral Researcher
University of California, Davis (UC Davis)
06.2025 - Current
Postdoctoral Researcher
Research Center of the Université de Montréal Hospital (CRCHUM)
10.2022 - 09.2024
Visiting Researcher
Computational Medicine and Clinical Bioinformatics Laboratory, Hospital Universitario Virgen del Rocío
01.2019 - 01.2020
Health Manager of Clinical Laboratory
Red Cross Hospital
01.2010 - 01.2015
MSc - Clinical Experimental Research in Health
National Autonomous University of Mexico (UNAM)
Bachelor's Degree - Clinical Chemistry
Universidad Veracruzana
PhD - Clinical Experimental Research in Health
National Autonomous University of Mexico (UNAM) / National Institute of Genomic Medicine (INMEGEN)