Dataset Information

Full-frequency correction of spatial impulse response in back-projection scheme using space-variant filtering for optoacoustic mesoscopy.

ABSTRACT: The fidelity and quality of reconstructed images in optoacoustic mesoscopy (OPAM) can be significantly improved by considering the spatial impulse response (SIR) of the employed focused transducer into reconstruction. However, the traditional method fully taking the SIR into account can hardly meet the data-intensive requirements of high resolution OPAM because of excessive memory and time consumption. Herein, a modified back-projection method using a space-variant filter for full-frequency correction of the SIR is presented, and applied to the OPAM system with a sphere-focused transducer. The proposed method can readily manage the large datasets of the OPAM and effectively reduce the extra time consumption. The performance of the proposed method is showcased by simulations and experiments of phantoms and biological tissue. The results demonstrate that the modified back-projection method exhibits better image fidelity, resolution and contrast compared to the common and weighted back-projection methods that are not or not fully accounting for the SIR.

SUBMITTER: Lu T

PROVIDER: S-EPMC7264078 | biostudies-literature | 2020 Sep

REPOSITORIES: biostudies-literature

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Full-frequency correction of spatial impulse response in back-projection scheme using space-variant filtering for optoacoustic mesoscopy.

Lu Tong T Wang Yihan Y Li Jiao J Prakash Jaya J Gao Feng F Ntziachristos Vasilis V

Photoacoustics 20200521

The fidelity and quality of reconstructed images in optoacoustic mesoscopy (OPAM) can be significantly improved by considering the spatial impulse response (SIR) of the employed focused transducer into reconstruction. However, the traditional method fully taking the SIR into account can hardly meet the data-intensive requirements of high resolution OPAM because of excessive memory and time consumption. Herein, a modified back-projection method using a space-variant filter for full-frequency corr ...[more]

PMID: 32509524

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Project description:BackgroundThe current chemical space of known small molecules is estimated to exceed 1060 structures. Though the largest physical compound repositories contain only a few tens of millions of unique compounds, virtual screening of databases of this size is still difficult. In recent years, the application of physicochemical descriptor-based profiling, such as Lipinski's rule-of-five for drug-likeness and Oprea's criteria of lead-likeness, as early stage filters in drug discovery has gained widespread acceptance. In the current study, we outline a kinase-likeness scoring function based on known kinase inhibitors.ResultsThe method employs a collection of 22,615 known kinase inhibitors from the ChEMBL database. A kinase-likeness score is computed using statistical analysis of nine key physicochemical descriptors for these inhibitors. Based on this score, the kinase-likeness of four publicly and commercially available databases, i.e., National Cancer Institute database (NCI), the Natural Products database (NPD), the National Institute of Health's Molecular Libraries Small Molecule Repository (MLSMR), and the World Drug Index (WDI) database, is analyzed. Three of these databases, i.e., NCI, NPD, and MLSMR are frequently used in the virtual screening of kinase inhibitors, while the fourth WDI database is for comparison since it covers a wide range of known chemical space. Based on the kinase-likeness score, a kinase-focused library is also developed and tested against three different kinase targets selected from three different branches of the human kinome tree.ConclusionsOur proposed methodology is one of the first that explores how the narrow chemical space of kinase inhibitors and its relevant physicochemical information can be utilized to build kinase-focused libraries and prioritize pre-existing compound databases for screening. We have shown that focused libraries generated by filtering compounds using the kinase-likeness score have, on average, better docking scores than an equivalent number of randomly selected compounds. Beyond library design, our findings also impact the broader efforts to identify kinase inhibitors by screening pre-existing compound libraries. Currently, the NCI library is the most commonly used database for screening kinase inhibitors. Our research suggests that other libraries, such as MLSMR, are more kinase-like and should be given priority in kinase screenings.

Project description:BackgroundChronic kidney disease (CKD) is a global burden affecting both children and adults. Novel imaging modalities hold great promise to visualize and quantify structural, functional, and molecular organ damage. The aim of the study was to visualize and quantify murine renal vasculature using label-free raster scanning optoacoustic mesoscopy (RSOM) in explanted organs from mice with renal injury.Material and methodsFor the experiments, freshly bisected kidneys of alpha 8 integrin knock-out (KO) and wildtype mice (WT) were used. A total of n=7 female (n=4 KO, n=3 WT) and n=6 male animals (n=2 KO, n=4 WT) aged 6 weeks were examined with RSOM optoacoustic imaging systems (RSOM Explorer P50 at SWL 532nm and/or ms-P50 imaging system at 532 nm, 555 nm, 579 nm, and 606 nm). Images were reconstructed using a dedicated software, analyzed for size and vascular area and compared to standard histologic sections.ResultsRSOM enabled mapping of murine kidney size and vascular area, revealing differences between kidney sizes of male (m) and female (f) mice (merged frequencies (MF) f vs. m: 52.42±6.24 mm2 vs. 69.18±15.96 mm2, p=0.0156) and absolute vascular area (MF f vs. m: 35.67±4.22 mm2 vs. 49.07±13.48 mm2, p=0.0036). Without respect to sex, the absolute kidney area was found to be smaller in knock-out (KO) than in wildtype (WT) mice (WT vs. KO: MF: p=0.0255) and showed a similar trend for the relative vessel area (WT vs. KO: MF p=0.0031). Also the absolute vessel areas of KO compared to WT were found significantly different (MF p=0.0089). A significant decrease in absolute vessel area was found in KO compared to WT male mice (MF WT vs. KO: 54.37±9.35 mm2 vs. 34.93±13.82 mm2, p=0.0232). In addition, multispectral RSOM allowed visualization of oxygenated and deoxygenated parenchymal regions by spectral unmixing.ConclusionThis study demonstrates the capability of RSOM for label-free visualization of differences in vascular morphology in ex vivo murine renal tissue at high resolution. Due to its scalability optoacoustic imaging provides an emerging modality with potential for further preclinical and clinical imaging applications.

Dataset Information

Full-frequency correction of spatial impulse response in back-projection scheme using space-variant filtering for optoacoustic mesoscopy.

Publications

Full-frequency correction of spatial impulse response in back-projection scheme using space-variant filtering for optoacoustic mesoscopy.

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