On Friday, February 27, 2026, at 17:00 pm, Mr. Ioannis Mystakidis,
student of the postgraduate program “Data Science and Information
Technologies”, will present his MSc thesis titled: “Integration of
functional enrichment analysis techniques”

Title: “Integration of functional enrichment analysis techniques”

Ioannis Mystakidis, DSIT MSc

Abstract

Functional enrichment analysis is a standard step in interpreting omics
experiments, yet its results are fragile because they depend on choices
that are often implicit: tool selection, background definition,
knowledge-base selection, statistical test, multiple-testing correction,
and filtering thresholds. The central issue is not a lack of software but
a lack of workflow support that makes these choices explicit and
comparable. A literature synthesis identifies recurring pitfalls and
translates them into design requirements. Based on these requirements,
comparison axes are defined to capture how enrichment runs legitimately
differ across tools, knowledge bases, parameters, and analysis settings.

FLAME v3.0 implements this comparison-first workflow as a web platform
that sits above the fragmented enrichment tool landscape rather than
replacing it. The platform integrates six enrichment tools for
over-representation analysis through direct connectors, where execution is
controlled and provenance is captured automatically. All results are
normalised into a canonical schema that decouples the comparison engine
from the tools that produced them. A dedicated comparison view combines
results across runs using Fisher’s combined probability test and effective
agreement counts, and presents them through complementary visualisations
that reveal where tools agree, where they diverge, and which findings
depend on a single tool’s behaviour. The modular architecture is designed
so that additional tools and enrichment paradigms can be integrated
without changes to the comparison layer.

Examiners
Prof. Dimitrios Stravopodis,
Prof. Ourania Tsitsilonis,
Dr. Georgios Pavlopoulos

link
https://meet.google.com/gbg-mvby-dfn