This study develops a sodium ion-assisted structural lipidomics method to improve ceramide annotation by stabilizing ions and enabling structural determination of hydrophobic moieties.

bioRxiv · Feb 5, 2026 · PreprintBioengineering

Characterizing lipoprotein profiles in coronary atherosclerosis development through quantitative lipidomics and proteomics approaches

Hiroaki Takeda, Yoshihiro Izumi, Yui Koike, Tomonari Koike, Kohta Nakatani, Kosuke Hata, Masaki Matsumoto, Masashi Shiomi, Takeshi Bamba

This study uses lipidomics and proteomics to analyze lipoprotein changes in coronary atherosclerosis, finding ceramide molecules are significantly associated with early stage progression.

npj Cardiovascular Health · Oct 30, 2025Peer-reviewedBioengineering

Dual fragmentation via collision-induced and oxygen attachment dissociations using water and its radicals for C=C position-resolved lipidomics

Hiroaki Takeda, Mami Okamoto, Hidenori Takahashi, Bujinlkham Buyantogtokh, Noriyuki Kishi, Hideyuki Okano, Hiroyuki Kamiguchi, Hiroshi Tsugawa

This study introduces OAciD, a method combining OAD and CID in negative-ion mode for C=C position-resolved lipidomics, applied to marmoset brain regions.

Communications Chemistry · May 13, 2025Peer-reviewedBioengineering

Data-independent acquisition coupled with electron-activated dissociation for in-depth structure elucidation of fatty acid ester of hydroxy fatty acids

Yuto Kurizaki, Yuki Matsuzawa, Mikiko Takahashi, Hiroaki Takeda, Mayu Hasegawa, Makoto Arita, Junki Miyamoto, Hiroshi Tsugawa

This study develops a LC-SWATH-EAD-MS/MS method to deeply characterize FAHFAs in mouse fecal samples, identifying multiple structural variants and age-related changes.

Analytical Chemistry · Apr 4, 2025Peer-reviewedBiochemistry

MS-DIAL 5 multimodal mass spectrometry data mining unveils lipidome complexities

Hiroaki Takeda, Yuki Matsuzawa, Manami Takeuchi, Mikiko Takahashi, Kozo Nishida, 武士原山, Yoshimasa Todoroki, Kuniyoshi Shimizu, Nami Sakamoto, Takaki Oka, Masashi Maekawa, Mi Hwa Chung, Yuto Kurizaki, Saki Kiuchi, Kanako Tokiyoshi, , Hiroshi Tsugawa

The paper introduces MS-DIAL 5, a tool for analyzing multimodal mass spectrometry data to elucidate lipid structures and localization using structural annotations.

Nature Communications · Nov 28, 2024Peer-reviewedBioinformatics

Using data-dependent and independent hybrid acquisitions for fast liquid chromatography-based untargeted lipidomics

Kanako Tokiyoshi, Yuki Matsuzawa, Mikiko Takahashi, Hiroaki Takeda, Mayu Hasegawa, Junki Miyamoto, Hiroshi Tsugawa

The paper proposes a hybrid LC-MS/MS approach combining data-dependent and data-independent acquisitions to improve lipid annotation in fast untargeted lipidomics.

Analytical Chemistry · Jan 11, 2024Peer-reviewedBioinformatics