Leverage my bioinformatics and computational biology expertise to develop and execute customized bioinformatics solutions for clients, addressing challenges in analyzing large genomics datasets.- Design and implement project-specific bioinformatics solutions, transforming workflows into reproducible, scalable, and automated pipelines.- Integrate cloud computation for enhanced scalability and efficiency in data processing and storage for bioinformatics projects.- Perform testing, benchmarking, and documentation of bioinformatics tools and pipelines to ensure accurate and reliable results.- Continuously research new methodologies and technologies to enhance performance and accuracy.- Improving the scalability of existing bioinformatics pipelines for enhanced efficiency and productivity.

Led the design of a machine learning pipeline for accurate RNA splicing predictions.- Implemented NLP and Transformer models for sequence embeddings.- Designed and deployed data preprocessing techniques for DNN input data preparation.- Conducted literature research and collaborated with the client to strategize future directions.

Transforming ideas to code

Leveraging my expertise in computational biology to lead and execute data analytics of ongoing projects at the lab.- Developing bioinformatics pipelines- Transforming bioinformatics workflows into reproducible and automated pipelines.- Research new methodologies and execute data analysis on diverse data types, including genomics, transcriptomics, and proteomics.- Review analysis performed by other researchers.

- Designed bioinformatics workshops with a deep dive into a transcriptomics pipeline.- Prepared and presented teaching webinars about bioinformatics.- Oversaw educative projects to develop bioinformatics tools.

Leveraging Natural Language Processing (NLP) and unsupervised learning methods to cluster text and lay the ground for technical skills extraction from job descriptions- Researched and implemented algorithms for text preprocessing and clustering.- Developed new methods to extract and clean common banners that would interfere with the clustering algorithm.- Developed 50 methods to quantitate and compare the quality of clusters associated with preprocessing and clustering pipelines.- Automating trial and error with pipelines that include text cleaning, word embedding (TF-IDF, BOW, and transformers), semantic similarity, dimension reduction, and clustering (K-means, DBSCAN, and agglomerative clustering).

- Set up CLIP-seq technique and its bioinformatics pipeline to map RBP binding sites.- Designed a workflow to analyze data obtained by GeoMx Digital Spatial Profiler (GeoMx-DSP).- Assisted colleagues and collaborators on eight projects with bioinformatics analysis on RNA-seq, scRNA-seq, and GeoMx DSP data.

- Built a repository of public transcriptomics datasets on traumatic brain injury in rats and mice.- Identified potential biomarkers of traumatic brain injury using co-expression networks analysis.

- Designed a workflow for horizontal integration of transcriptomics datasets.- Designed and Initiated a project for biomarkers discovery in acute myeloid leukemia by integrating 28 transcriptomics datasets with ~4000 samples.- Developed a prognostic score for AML patients’ stratification using LASSO regression.- Helped collaborators recognize £1,900,000 in grant funding through bioinformatics analysis.- Helped the team obtain €150,000 in postdoctoral grant funding.- Implemented molecular biology techniques to study the role of hypoxia on STAT5 activity leukemic cells.- Delivered results on 12 projects using computational and bench methods.- Trained students and colleagues on bench and bioinformatics methods.- Participated in lab logistics, including writing grants, manuscripts, and annual reports.

- Led the project after lab closure and the demise of my thesis supervisor.- Created a co-expression atlas of the renin-angiotensin system (RAS) in 25 tissues by analyzing ~300 transcriptomics datasets with ~10000 samples.- Studied RAS in atherosclerosis at the transcriptional, translational, and metabolic levels using computational and molecular biology methods.- Trained an undergraduate student on bioinformatics analysis.