Marcin P Joachimiak
Overview
Explore the profile of Marcin P Joachimiak including associated specialties, affiliations and a list of published articles.
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38
Citations
2100
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Recent Articles
1.
Toro S, Anagnostopoulos A, Bello S, Blumberg K, Cameron R, Carmody L, et al.
J Biomed Semantics
. 2024 Oct;
15(1):19.
PMID: 39415214
Background: Ontologies are fundamental components of informatics infrastructure in domains such as biomedical, environmental, and food sciences, representing consensus knowledge in an accurate and computable form. However, their construction and...
2.
Santangelo B, Apgar M, Colorado A, Martin C, Sterrett J, Wall E, et al.
Front Microbiol
. 2024 Apr;
15:1351678.
PMID: 38638909
Advances in high-throughput technologies have enhanced our ability to describe microbial communities as they relate to human health and disease. Alongside the growth in sequencing data has come an influx...
3.
Callahan T, Tripodi I, Stefanski A, Cappelletti L, Taneja S, Wyrwa J, et al.
Sci Data
. 2024 Apr;
11(1):363.
PMID: 38605048
Translational research requires data at multiple scales of biological organization. Advancements in sequencing and multi-omics technologies have increased the availability of these data, but researchers face significant integration challenges. Knowledge...
4.
Ladau J, Brodie E, Falco N, Bansal I, Hoffman E, Joachimiak M, et al.
Infect Dis Model
. 2024 Apr;
9(2):634-643.
PMID: 38572058
Objectives: We aim to estimate geographic variability in total numbers of infections and infection fatality ratios (IFR; the number of deaths caused by an infection per 1,000 infected people) when...
5.
Caufield J, Hegde H, Emonet V, Harris N, Joachimiak M, Matentzoglu N, et al.
Bioinformatics
. 2024 Feb;
40(3).
PMID: 38383067
Motivation: Creating knowledge bases and ontologies is a time consuming task that relies on manual curation. AI/NLP approaches can assist expert curators in populating these knowledge bases, but current approaches...
6.
Cappelletti L, Fontana T, Casiraghi E, Ravanmehr V, Callahan T, Cano C, et al.
Nat Comput Sci
. 2024 Jan;
3(6):552-568.
PMID: 38177435
Graph representation learning methods opened new avenues for addressing complex, real-world problems represented by graphs. However, many graphs used in these applications comprise millions of nodes and billions of edges...
7.
Park H, Joachimiak M, Jungbluth S, Yang Z, Riehl W, Canon R, et al.
mSystems
. 2023 Dec;
9(1):e0002623.
PMID: 38078749
Microbial communities have evolved to colonize all ecosystems of the planet, from the deep sea to the human gut. Microbes survive by sensing, responding, and adapting to immediate environmental cues....
8.
Caufield J, Putman T, Schaper K, Unni D, Hegde H, Callahan T, et al.
Bioinformatics
. 2023 Jun;
39(7).
PMID: 37389415
Motivation: Knowledge graphs (KGs) are a powerful approach for integrating heterogeneous data and making inferences in biology and many other domains, but a coherent solution for constructing, exchanging, and facilitating...
9.
Joachimiak M, Caufield J, Harris N, Kim H, Mungall C
ArXiv
. 2023 Jun;
PMID: 37292480
Molecular biologists frequently interpret gene lists derived from high-throughput experiments and computational analysis. This is typically done as a statistical enrichment analysis that measures the over- or under-representation of biological...
10.
Taneja S, Callahan T, Paine M, Kane-Gill S, Kilicoglu H, Joachimiak M, et al.
J Biomed Inform
. 2023 Mar;
140:104341.
PMID: 36933632
Background: Pharmacokinetic natural product-drug interactions (NPDIs) occur when botanical or other natural products are co-consumed with pharmaceutical drugs. With the growing use of natural products, the risk for potential NPDIs...