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International Journal of AI
for Material and Design MMDB: A comprehensive biofabrication database

as reflective of their research themes. Consequently, a biomaterials. Consequently, the devised knowledge graph
single paper could encompass multiple topics within encompasses ten entity types: biomaterials, crosslinkers,
the collaboration analysis framework. We compiled modification materials, manufacturing methods, organs,
data pertaining to collaborative topics, institutions, and structural components, cells, scholarly papers, and the
nations, identifying the most frequent collaborative topics affiliations of authors. This graph incorporates a network
for a given institution. Our examination extended to the of interrelations among these diverse entities.
frequency of inter-nation collaborations, pinpointing Subsequent to the schema design, we embarked on
the top ten nations distinguished by their cooperative the assembly of the biomaterial knowledge graph by
endeavors. In addition, we conducted an in-depth analysis meticulously extracting entities and their interconnections
for each topic to ascertain the nations with the most prolific from pertinent literature. This graph served as a foundation
collaboration per annum. for further analytical inquiries.
Conversely, knowledge mapping of organ functions For each biomaterial, we quantified its co-occurrence
yields informative knowledge graphs, instrumental in with specific cell types, ranking the cells based on the
equipping researchers to thoroughly evaluate organ frequency of this metric. Analogously, the co-occurrence of
functions. These graphs are invaluable, providing each biomaterial with associated manufacturing methods,
multidimensional insights across biological, chemical, modifications, and crosslinkers underwent a similar
and purposive spectrums, thereby enhancing the holistic analytical process. Furthermore, we documented the
comprehension of organ functionality and its relevance developmental trajectory of each biomaterial, cataloging
within the wider scope of biofabrication research. the organs fabricated from it alongside supplementary data
Specifically, we extracted keywords pertinent to organ such as authorship and institutional affiliations. In terms
functions from the corpus of papers, grouping them into of knowledge graph visualization, our approach supports
four categories: biological, chemical, purposive functions, the depiction of individual entities and their interrelations,
and evaluative functions. Subsequently, we constructed a or alternatively, a holistic representation encompassing the
hierarchical knowledge graph to articulate these functions. entirety of entities and their interconnected web.
By examining the recurrence of each keyword, we achieved
a graphical visualization of the hierarchical structures 2.6. Real-time update
inherent in organ function assessments. In the rapidly evolving field of biofabrication, staying
abreast of the latest research findings is crucial. To address
2.5. Knowledge mapping of biomaterials this need, MMDB incorporates a dynamic data integration
The intricate complexity of biofabrication processes system powered by PiFlow, a robust big data pipeline tool.
requires an in-depth understanding of the various This system serves as the backbone of our real-time update
biomaterials employed in the manufacturing of human mechanism, ensuring that MMDB consistently reflects the
organs. These biomaterials, ranging from biological most current research developments.
polymers to synthetic constructs, interact in multifaceted The process begins with daily data retrieval from
ways to influence organ functionality, stability, and PubMed. Each day, the latest data are downloaded and
biocompatibility. Despite the burgeoning literature on added to our primary database. This process includes
this subject, the lack of a consolidated and organized extracting key information such as titles, authors, and
knowledge framework has impeded an all-encompassing keywords from newly published articles. Our system then
comprehension of these materials and their optimal applies specific filters to this influx of data to identify and
utilization. The knowledge map of biomaterials within the select publications that are most relevant to our field of
MMDB seeks to address this critical gap. By systematically study. This selection is crucial as it allows us to maintain a
categorizing and visualizing the vast array of biomaterials focused and pertinent database.
and their relationships, the knowledge map serves as an
indispensable tool in understanding biofabrication. Once the relevant articles are identified, the next
phase involves integrating this new data with our existing
Our initial endeavor in the construction of the database. This integration is not a mere addition of new
biomaterial knowledge graph was to formulate its entries but a sophisticated fusion that enhances the existing
schema with a particular emphasis on elements pivotal knowledge graph. Subsequently, the PiFlow tool re-executes
to biofabrication, namely, biomaterials, crosslinkers, the knowledge graph construction and statistical analysis
modification materials, and manufacturing methodologies. modules, ensuring the accurate reflection of updated
In addition, our interest extended to discern which information in our database. The outcome of this process
specific organ cells could be synthesized utilizing these is a continuously updated, comprehensive database that

Volume 1 Issue 1 (2024) 80 https://doi.org/10.36922/ijamd.2420