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Computational biologist I, Knowledge graph expert, Data scientist, Ontology creator, ML/AI with NLP, FAIR Expert
Germany, United States

Biography

Aspiring to aid in research that benefits people the most, I pursued a career in the life sciences. I have collaborated with multinational stakeholders and participated in projects funded by IMI, IHI, and the EU consortium. I position myself at the intersection of bench and wet lab scientists to facilitate efficient hypothesis generation, particularly in the healthcare and pharmaceutical industries. My role bridges the gap between experimental research and practical application, ensuring that scientific discoveries translate effectively into therapeutic advancements.

Activities

Employment (5)

Enveda Therapeutics (United States): Orlando, US

2023-05-15 to present | Data Scientist II
Employment
Source: Self-asserted source
Yojana Gadiya

Fraunhofer-Gesellschaft: Hamburg, Hamburg, DE

2021-04-01 to present | Data Scientist (Translational Medicine and Pharmacology)
Employment
Source: Self-asserted source
Yojana Gadiya

Enveda Therapeutics (United States): Orlando, Florida, US

2022-11-01 to 2023-05-14 | Data Science I
Employment
Source: Self-asserted source
Yojana Gadiya

Enveda Therapeutics: Boulder, US

2020-11-01 to 2022-11-01 | Consultant (Engineering and Data Science)
Employment
Source: Self-asserted source
Yojana Gadiya

Fraunhofer-Gesellschaft: Sankt Augustin, Bonn, DE

2019-04-01 to 2020-05-01 | BioCurator (SCAI)
Employment
Source: Self-asserted source
Yojana Gadiya

Education and qualifications (3)

Rheinische Friedrich-Wilhelms-Universität Bonn Life & Medical Sciences-Institut: Bonn, Nordrhein-Westfalen, DE

2022-11-02 to 2025-11-02 | Doctor of Philosophy (PhD) (Computational Life Science)
Education
Source: Self-asserted source
Yojana Gadiya

Rheinische Friedrich-Wilhelms-Universität Bonn Life & Medical Sciences-Institut: Bonn, Nordrhein-Westfalen, DE

2018-09-01 to 2021-04-01 | Master in Life Science Informatics (Bonn-Aachen International Center for Information Technology)
Education
Source: Self-asserted source
Yojana Gadiya

Fergusson College: Pune, Maharashtra, IN

2016-04-01 to 2018-05-01 | Bachelors in Biotechnology (Biotechnology)
Education
Source: Self-asserted source
Yojana Gadiya

Professional activities (3)

University of Oxford – FAIRsharing: Oxford, GB

2024-01-01 to 2024-12-31 | FAIRsharing Community Champion (Knowledge graphs and Chemoinformatics) 2024 (University of Oxford – FAIRsharing)
Service
Source: check_circle
FAIRsharing.org

International Society for Computational Biology: Bethesda, Maryland, US

2023-05-12 to 2024-05-12 | Student
Membership
Source: Self-asserted source
Yojana Gadiya

University of Oxford – FAIRsharing: Oxford, GB

2023-01-01 to 2023-12-31 | FAIRsharing Community Champion (Knowledge graphs; Chemoinformatics) 2023 (University of Oxford – FAIRsharing)
Service
Source: check_circle
FAIRsharing.org

Works (34)

MARS: A neurosymbolic approach for interpretable drug discovery

ArXiv
2024 | Journal article
Contributors: Delong, Lauren Nicole; Gadiya, Yojana; Galdi, Paola; Fleuriot, Jacques D.; Domingo-Fernandez, Daniel
Source: check_circle
Web of Science Researcher Profile Sync

Pharmacophore-based ML model to filter candidate E3 ligands and predict E3 Ligase binding probabilities

Informatics in Medicine Unlocked
2024 | Journal article
Contributors: Reagon Karki; Yojana Gadiya; Simran Shetty; Philip Gribbon; Andrea Zaliani
Source: check_circle
Crossref
grade
Preferred source (of 4)‎

Predicting antimicrobial class specificity of small molecules using machine learning

2024-12-05 | Preprint
Contributors: Yojana Gadiya; Olga Genilloud; Ursula Bilitewski; Mark Brönstrup; Leonie von Berlin; Marie Attwood; Philip Gribbon; Andrea Zaliani
Source: check_circle
Crossref

Getting ready for the European Health Data Space (EHDS): IDERHA's plan to align with the latest EHDS requirements for the secondary use of health data

Open Research Europe
2024-07-30 | Journal article
Contributors: Rada Hussein; Irina Balaur; Anja Burmann; Hanna Ćwiek-Kupczyńska; Yojana Gadiya; Soumyabrata Ghosh; Prabath Jayathissa; Florian Katsch; Andreas Kremer; Jaakko Lähteenmäki et al.
Source: check_circle
Crossref

Natural Products Have Increased Rates of Clinical Trial Success throughout the Drug Development Process

Journal of Natural Products
2024-07-26 | Journal article
Contributors: Daniel Domingo-Fernández; Yojana Gadiya; António José Preto; Christoph A. Krettler; Sarah Mubeen; August Allen; David Healey; Viswa Colluru
Source: check_circle
Crossref

From spreadsheet lab data templates to knowledge graphs: A FAIR data journey in the domain of AMR research

2024-07-19 | Preprint
Contributors: Yojana Gadiya; Tooba Abbassi-Daloii; Vassilios Ioannidis; Nick Juty; Claus Stie Kallesøe; Marie Attwood; Manfred Kohler; Philip Gribbon; Gesa Witt
Source: check_circle
Crossref
grade
Preferred source (of 2)‎

Exploring SureChEMBL from a drug discovery perspective

Scientific Data
2024-05-16 | Journal article
Contributors: Yojana Gadiya; Simran Shetty; Martin Hofmann-Apitius; Philip Gribbon; Andrea Zaliani
Source: check_circle
Crossref

Bioschemas Resource Index for Chem and Plants

2024-01-30 | Preprint
Contributors: Daniel Arend; Alessio Del Conte; Manuel Feser; Yojana Gadiya; Alban Gaignard; Leyla Jael Castro; Ivan Mičetić; Sebastien Moretti; Steffen Neumann; Noura Rayya et al.
Source: check_circle
Crossref

Curating, Collecting, and Cataloguing Global COVID-19 Datasets for the Aim of Predicting Personalized Risk

Data
2024-01-29 | Journal article
Contributors: Sepehr Golriz Khatami; Astghik Sargsyan; Maria Francesca Russo; Daniel Domingo-Fernández; Andrea Zaliani; Abish Kaladharan; Priya Sethumadhavan; Sarah Mubeen; Yojana Gadiya; Reagon Karki et al.
Source: check_circle
Crossref
grade
Preferred source (of 2)‎

Exploring the known chemical space of the plant kingdom: insights into taxonomic patterns, knowledge gaps, and bioactive regions

Journal of Cheminformatics
2023 | Journal article
Contributors: Domingo-Fernandez, Daniel; Gadiya, Yojana; Mubeen, Sarah; Healey, David; Norman, Bryan H.; Colluru, Viswa
Source: check_circle
Web of Science Researcher Profile Sync

Modern drug discovery using ethnobotany: A large-scale cross-cultural analysis of traditional medicine reveals common therapeutic uses

IScience
2023 | Journal article
Contributors: Domingo-Fernandez, Daniel; Gadiya, Yojana; Mubeen, Sarah; Bollerman, Thomas Joseph; Healy, Matthew D.; Chanana, Shaurya; Sadovsky, Rotem Gura; Healey, David; Colluru, Viswa
Source: check_circle
Web of Science Researcher Profile Sync

PEMT: a patent enrichment tool for drug discovery (vol 39, btac716, 2023)

Bioinformatics
2023 | Journal article
Contributors: Gadiya, Yojana; Zaliani, Andrea; Gribbon, Philip; Hofmann-Apitius, Martin
Source: check_circle
Web of Science Researcher Profile Sync

Pharmaceutical patent landscaping: A novel approach to understand patents from the drug discovery perspective

Artificial Intelligence in the Life Sciences
2023-12 | Journal article
Contributors: Yojana Gadiya; Philip Gribbon; Martin Hofmann-Apitius; Andrea Zaliani
Source: check_circle
Crossref
grade
Preferred source (of 5)‎

BioHackEU23 report: Extending interoperability of experimental data using modular queries across biomedical resources

2023-12-01 | Preprint
Contributors: Yojana Gadiya; Ammar Ammar; Egon Willighagen; Dominik Martinat; Ana Claudia Sima; Hasan Balci; Tooba Abbassi-Daloii
Source: check_circle
Crossref

Exploring SureChEMBL from a drug discovery perspective

2023-11-28 | Preprint
Contributors: Yojana Gadiya; Simran Shetty; Martin Hofmann-Apitius; Philip Gribbon; Andrea Zaliani
Source: check_circle
Crossref
grade
Preferred source (of 2)‎

Pharmacophore-Based Machine Learning Model To Predict Ligand Selectivity for E3 Ligase Binders

ACS Omega
2023-08-22 | Journal article
Contributors: Reagon Karki; Yojana Gadiya; Philip Gribbon; Andrea Zaliani
Source: check_circle
Crossref
grade
Preferred source (of 4)‎

FAIR data management: what does it mean for drug discovery?

Frontiers in Drug Discovery
2023-07-12 | Journal article
Part of ISSN: 2674-0338
Contributors: Yojana Gadiya; Vassilios Ioannidis; David Henderson; Philip Gribbon; Philippe Rocca-Serra; Venkata Satagopam; Susanna-Assunta Sansone; Wei Gu
Source: Self-asserted source
Yojana Gadiya

The FAIR Cookbook - the essential resource for and by FAIR doers.

Scientific data
2023-05 | Journal article
Contributors: Rocca-Serra P; Gu W; Ioannidis V; Abbassi-Daloii T; Capella-Gutierrez S; Chandramouliswaran I; Splendiani A; Burdett T; Giessmann RT; Henderson D et al.
Source: Self-asserted source
Yojana Gadiya via Europe PubMed Central
grade
Preferred source (of 2)‎

FAIR in action - a flexible framework to guide FAIRification

Scientific Data
2023-05-19 | Journal article
Contributors: Danielle Welter; Nick Juty; Philippe Rocca-Serra; Fuqi Xu; David Henderson; Wei Gu; Jolanda Strubel; Robert T. Giessmann; Ibrahim Emam; Yojana Gadiya et al.
Source: check_circle
Crossref
grade
Preferred source (of 2)‎

Mpox Knowledge Graph: a comprehensive representation embedding chemical entities and associated biology of Mpox

Bioinformatics Advances
2023-01-05 | Journal article
Contributors: Reagon Karki; Yojana Gadiya; Andrea Zaliani; Philip Gribbon; Nicola Mulder
Source: check_circle
Crossref

PEMT: a patent enrichment tool for drug discovery

Bioinformatics
2023-01-01 | Journal article
Contributors: Yojana Gadiya; Andrea Zaliani; Philip Gribbon; Martin Hofmann-Apitius; Jonathan Wren
Source: check_circle
Crossref
grade
Preferred source (of 5)‎

Ensembles of knowledge graph embedding models improve predictions for drug discovery

Briefings in Bioinformatics
2022-11-19 | Journal article
Contributors: Daniel Rivas-Barragan; Daniel Domingo-Fernández; Yojana Gadiya; David Healey
Source: check_circle
Crossref
grade
Preferred source (of 2)‎

Comprehensive Fragment Screening of the SARS-CoV-2 Proteome Explores Novel Chemical Space for Drug Development.

Angewandte Chemie (International ed. in English)
2022-10 | Journal article
Contributors: Berg H; Wirtz Martin MA; Altincekic N; Alshamleh I; Kaur Bains J; Blechar J; Ceylan B; de Jesus V; Dhamotharan K; Fuks C et al.
Source: Self-asserted source
Yojana Gadiya via Europe PubMed Central
grade
Preferred source (of 2)‎

BPO: the Bioassay Protocol Ontology, a semantic approach to elevate the reusability of AMR-related drug discovery data

ESCMID/ASM Conference on Drug Development to Meet the Challenge of Antimicrobial Resistance
2022-10-06 | Conference poster | Writing - review & editing
Contributors: Yojana Gadiya; Rakel Arrazuria; Jon Ulf Hansen; Danielle Welter; Fuqi Xu; Philippe Rocca-Serra; Nick Juty; Philip Gribbon
Source: Self-asserted source
Yojana Gadiya

Monkeypox Knowledge Graph: A comprehensive representation embedding chemical entities and associated biology of Monkeypox

2022-08-02 | Preprint
Contributors: Reagon Karki; Andrea Zaliani; Yojana Gadiya; Philip Gribbon
Source: check_circle
Crossref

Selection of data sets for FAIRification in drug discovery and development: Which, why, and how?

Drug Discovery Today
2022-05 | Journal article
Part of ISSN: 1359-6446
Source: Self-asserted source
Yojana Gadiya
grade
Preferred source (of 3)‎

SASC: A Simple Approach to Synthetic Cohorts for generating longitudinal observational patient cohorts from COVID-19 clinical data

Patterns
2022-02 | Journal article
Contributors: Takoua Khorchani; Yojana Gadiya; Gesa Witt; Delia Lanzillotta; Carsten Claussen; Andrea Zaliani
Source: check_circle
Crossref
grade
Preferred source (of 5)‎

Causal reasoning over knowledge graphs leveraging drug-perturbed and disease-specific transcriptomic signatures for drug discovery

PLOS Computational Biology
2022-02-25 | Journal article
Contributors: Daniel Domingo-Fernández; Carl Herrmann; Yojana Gadiya; Abhishek Patel; Sarah Mubeen; Daniel Rivas-Barragan; Chris W. Diana; Biswapriya B. Misra; David Healey; Joe Rokicki et al.
Source: check_circle
Crossref
grade
Preferred source (of 7)‎

Curating, collecting, and cataloguing global COVID-19 datasets for the aim of predicting personalized risk

2021-11-15 | Other
Contributors: Sepehr Golriz Khatami; Maria Francesca Russo; Daniel Domingo-Fernández; Andrea Zaliani; Sarah Mubeen; Yojana Gadiya; Astghik Sargsyan; Reagon Karki; Stephan Gebel; Ram Kumar Ruppa Surulinathan et al.
Source: check_circle
Crossref
grade
Preferred source (of 2)‎

DecoPath: a web application for decoding pathway enrichment analysis

NAR Genomics and Bioinformatics
2021-06-23 | Journal article
Contributors: Sarah Mubeen; Vinay S Bharadhwaj; Yojana Gadiya; Martin Hofmann-Apitius; Alpha T Kodamullil; Daniel Domingo-Fernández
Source: check_circle
Crossref
grade
Preferred source (of 7)‎

A method for the rational selection of drug repurposing candidates from multimodal knowledge harmonization

Nature Scientific Reports
2021-05-26 | Journal article
Part of ISSN: 2045-2322
Source: Self-asserted source
Yojana Gadiya
grade
Preferred source (of 6)‎

Linking COVID-19 and heme-driven pathophysiologies: A combined computational-experimental approach

2021-03-18 | Other
Contributors: Marie-T. Hopp; Daniel Domingo-Fernandez; Yojana Gadiya; Milena S. Detzel; Regina Graf; Benjamin F. Schmalohr; Alpha T. Kodamullil; Diana Imhof; Martin Hofmann-Apitius
Source: Self-asserted source
Yojana Gadiya
grade
Preferred source (of 8)‎

Data-Driven Modeling of Knowledge Assemblies in Understanding Comorbidity Between Type 2 Diabetes Mellitus and Alzheimer’s Disease

Journal of Alzheimer's Disease
2020-09-08 | Journal article
Source: Self-asserted source
Yojana Gadiya
grade
Preferred source (of 3)‎

COVID-19 Knowledge Graph: a computable, multi-modal, cause-and-effect knowledge model of COVID-19 pathophysiology

2020-04-15 | Other
Contributors: Daniel Domingo-Fernández; Shounak Baksi; Bruce Schultz; Yojana Gadiya; Reagon Karki; Tamara Raschka; Christian Ebeling; Martin Hofmann-Apitius; Alpha Tom Kodamullil
Source: Self-asserted source
Yojana Gadiya
grade
Preferred source (of 6)‎

Peer review (5 reviews for 5 publications/grants)

Review activity for Artificial intelligence chemistry. (1)
Review activity for Bioinformatics advances. (1)
Review activity for Journal of biologically active products from nature. (1)
Review activity for Pharmaceutical patent analyst. (1)
Review activity for Wellcome open research. (1)