A representation learning approach for recovering scatter-corrected spectra from Fourier-transform infrared spectra of tissue samples.

Abstract:

:Infrared spectra obtained from cell or tissue specimen have commonly been observed to involve a significant degree of scattering effects, often Mie scattering, which probably overshadows biochemically relevant spectral information by a nonlinear, nonadditive spectral component in Fourier transform infrared (FTIR) spectroscopic measurements. Correspondingly, many successful machine learning approaches for FTIR spectra have relied on preprocessing procedures that computationally remove the scattering components from an infrared spectrum. We propose an approach to approximate this complex preprocessing function using deep neural networks. As we demonstrate, the resulting model is not just several orders of magnitudes faster, which is important for real-time clinical applications, but also generalizes strongly across different tissue types. Using Bayesian machine learning approaches, our approach unveils model uncertainty that coincides with a band shift in the amide I region that occurs when scattering is removed computationally based on an established physical model. Furthermore, our proposed method overcomes the trade-off between computation time and the corrected spectrum being biased towards an artificial reference spectrum.

journal_name

J Biophotonics

journal_title

Journal of biophotonics

authors

Raulf AP,Butke J,Menzen L,Küpper C,Großerueschkamp F,Gerwert K,Mosig A

doi

10.1002/jbio.202000385

subject

Has Abstract

pub_date

2020-12-08 00:00:00

pages

e202000385

eissn

1864-063X

issn

1864-0648

pub_type

杂志文章
  • Monitoring caffeine and resveratrol cutaneous permeation by confocal Raman microspectroscopy.

    abstract::Dynamic follow-up of exogenous molecules permeation through the skin is one among many competing applications for confocal Raman microspectroscopy. Previous studies showed the feasibility of tracking actives through the skin; the next step should be recording in vivo kinetics. Thus, we conducted a study to evaluate th...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.201300011

    authors: Tfaili S,Josse G,Angiboust JF,Manfait M,Piot O

    更新日期:2014-09-01 00:00:00

  • Therapeutic prognosis of prostate cancer using surface-enhanced Raman scattering of patient urine and multivariate statistical analysis.

    abstract::Surface-enhanced Raman scattering (SERS) is highly sensitive and label-free analytical technique based on Raman spectroscopy aided by field-multiplying plasmonic nanostructures. We report the use of SERS measurements of patient urine in conjunction with biostatistical algorithms to assess the treatment response of pro...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.202000275

    authors: Ma Y,Chi J,Zheng Z,Attygalle A,Kim IY,Du H

    更新日期:2021-01-01 00:00:00

  • Detecting hemodynamic changes in the foot vessels of diabetic patients by photoacoustic tomography.

    abstract::Limb perfusion monitoring is critical for diabetes mellitus (DM) patients as they are vulnerable to vascular complications due to prolonged hyperglycemia. However, current clinical approaches are ineffective in vascular imaging and in assessing vascular function in lower limbs. In this work, a concave ultrasound trans...

    journal_title:Journal of biophotonics

    pub_type: 信件

    doi:10.1002/jbio.202000011

    authors: Yang J,Zhang G,Shang Q,Wu M,Huang L,Jiang H

    更新日期:2020-08-01 00:00:00

  • Optical clearing for multiscale biological tissues.

    abstract::Three-dimensional reconstruction of tissue structures is essential for biomedical research. The development of light microscopes and various fluorescent labeling techniques provides powerful tools for this motivation. However, optical imaging depth suffers from strong light scattering due to inherent heterogeneity of ...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章,评审

    doi:10.1002/jbio.201700187

    authors: Yu T,Qi Y,Gong H,Luo Q,Zhu D

    更新日期:2018-02-01 00:00:00

  • Topographic prominence as a method for cluster identification in single-molecule localisation data.

    abstract::Single-molecule localisation based super-resolution fluorescence imaging produces maps of the coordinates of fluorescent molecules in a region of interest. Cluster analysis algorithms provide information concerning the clustering characteristics of these molecules, often through the generation of cluster heat maps bas...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.201400127

    authors: Griffié J,Boelen L,Burn G,Cope AP,Owen DM

    更新日期:2015-11-01 00:00:00

  • Assessment of the dynamics of human glymphatic system by near-infrared spectroscopy.

    abstract::Fluctuations in brain water content has attracted increasing interest, particularly as regards studies of the glymphatic system, which is connected with the complex organization of dural lymphatic vessels, responsible for cleaning tissue. Disturbances of glymphatic circulation are associated with several brain disorde...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.201700123

    authors: Myllylä T,Harju M,Korhonen V,Bykov A,Kiviniemi V,Meglinski I

    更新日期:2018-08-01 00:00:00

  • Impact of cell division on intracellular uptake and nuclear targeting with fluorescent SiC-based nanoparticles.

    abstract::Semiconductor nanoparticles (NPs) became important and wide-used tool for cell imaging because of their unique remarkable properties. Nevertheless, all previous investigations in this area were done on proliferating cells. For the first time, this work demonstrates strong influence of cell active proliferation/contact...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.201200066

    authors: Serdiuk T,Lysenko V,Mognetti B,Skryshevsky V,Géloën A

    更新日期:2013-03-01 00:00:00

  • Quantitative analysis of shape and volume changes in activated thrombocytes in real time by single-shot spatial light modulator-based differential interference contrast imaging.

    abstract::We suggest to use a combination of optical tweezers and single-image quantitative differential interference contrast (DIC) emulated by a spatial light modulator (SLM) to study physiological shape changes in thrombocytes after activation and demonstrate the effectiveness of this system for the given task. A specially d...

    journal_title:Journal of biophotonics

    pub_type: 社论

    doi:10.1002/jbio.201100010

    authors: Khan S,Jesacher A,Nussbaumer W,Bernet S,Ritsch-Marte M

    更新日期:2011-09-01 00:00:00

  • Joint tagging assisted fluctuation nanoscopy enables fast high-density super-resolution imaging.

    abstract::In fluctuation-based optical nanoscopy, investigating high-density labeled subcellular structures with high fidelity has been a significant challenge. In this study, based on super-resolution radial fluctuation (SRRF) microscopy, the joint tagging (JT) strategy is employed to enable fast high-density nanoscopic imagin...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.201800020

    authors: Zeng Z,Ma J,Xi P,Xu C

    更新日期:2018-09-01 00:00:00

  • Inhibition of cortical neural networks using infrared laser.

    abstract::The aim of the present study is to optimize parameters for inhibiting neuronal activity safely and investigating thermal inhibition of rat cortex neural networks in vitro by continuous infrared (IR) laser. Rat cortex neurons were cultured on multi-electrode arrays until neural networks were formed with spontaneous neu...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.201800403

    authors: Xia Q,Nyberg T

    更新日期:2019-07-01 00:00:00

  • Safety and delivery efficiency of a photodynamic treatment of the lungs using indocyanine green and extracorporeal near infrared illumination.

    abstract::Photodynamic inactivation (PDI) is a promising alternative for combating infections caused by antimicrobial resistant bacteria. Pneumonias are among the most worrisome infections because of their high-mortality rate. Previous studies have demonstrated the feasibility of using PDI with extracorporeal light to treat pne...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.202000176

    authors: Kassab G,Cheburkanov V,Willis J,Moule MG,Kurachi C,Yakovlev V,Cirillo JD,Bagnato VS

    更新日期:2020-10-01 00:00:00

  • Artifact-free objective-type multicolor total internal reflection fluorescence microscopy with light-emitting diode light sources-Part I.

    abstract::Total internal reflection fluorescence excitation (TIRF) microscopy allows the selective observation of fluorescent molecules in immediate proximity to an interface between different refractive indices. Objective-type or prism-less TIRF excitation is typically achieved with laser light sources. We here propose a simpl...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.201900033

    authors: Kogel A,Kalwa H,Urban N,Schaefer M

    更新日期:2019-11-01 00:00:00

  • Widefield fluorescence lifetime imaging of protoporphyrin IX for fluorescence-guided neurosurgery: An ex vivo feasibility study.

    abstract::Achieving a maximal safe extent of resection during brain tumor surgery is the goal for improved patient prognosis. Fluorescence-guided neurosurgery using 5-aminolevulinic acid (5-ALA) induced protoporphyrin IX has thereby become a valuable tool enabling a high frequency of complete resections and a prolonged progress...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.201800378

    authors: Erkkilä MT,Bauer B,Hecker-Denschlag N,Madera Medina MJ,Leitgeb RA,Unterhuber A,Gesperger J,Roetzer T,Hauger C,Drexler W,Widhalm G,Andreana M

    更新日期:2019-06-01 00:00:00

  • Nonlinear-optical stain-free stereoimaging of astrocytes and gliovascular interfaces.

    abstract::Methods of nonlinear optics provide a vast arsenal of tools for label-free brain imaging, offering a unique combination of chemical specificity, the ability to detect fine morphological features, and an unprecedentedly high, subdiffraction spatial resolution. While these techniques provide a rapidly growing platform f...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.201800432

    authors: Lanin AA,Pochechuev MS,Chebotarev AS,Kelmanson IV,Belousov VV,Zheltikov AM

    更新日期:2019-11-01 00:00:00

  • Hyperlipidemic mice as a model for a real-time in vivo detection of atherosclerosis by gold nanorods-based diffusion reflection technique.

    abstract::Atherosclerosis (AS), the leading cause of morbidity and mortality in cardiovascular disease, needs an early detection for treatment and prevention of fatal events. Here, for the first time, we applied gold nanorods (GNRs)-assisted diffusion reflection (DR), a noninvasive technique for in vivo detection of AS in a hig...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.201800218

    authors: Chakraborty R,Ankri R,Leshem-Lev D,Hochhauser E,Kornowski R,Motiei M,Lev EI,Fixler D

    更新日期:2019-01-01 00:00:00

  • SPR-based plastic optical fibre biosensor for the detection of C-reactive protein in serum.

    abstract::A plastic optical fibre biosensor based on surface plasmon resonance for the detection of C-reactive protein (CRP) in serum is proposed. The biosensor was integrated into a home-made thermo-stabilized microfluidic system that allows avoiding any thermal and/or mechanical fluctuation and maintaining the best stable con...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.201500315

    authors: Aray A,Chiavaioli F,Arjmand M,Trono C,Tombelli S,Giannetti A,Cennamo N,Soltanolkotabi M,Zeni L,Baldini F

    更新日期:2016-10-01 00:00:00

  • Tracking heavy-water-incorporated confocal Raman spectroscopy for evaluating the effects of PEGylated emulsifiers on skin barrier.

    abstract::The class of PEGylated emulsifiers finds broad application in the pharmaceutical and cosmetic industry. We target on one of the categories of polyethylene glycol (PEG) alkyl ethers with different lipophilic and hydrophilic chain length and aim to examine their effects on the skin comprehensively. In this study, we emp...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.202000286

    authors: Liu Y,Lunter DJ

    更新日期:2020-12-01 00:00:00

  • Retraction: Zhong H, Lu L, Wang Y, Yang H. Single layer molybdenum disulfide as an optical nanoprobe for 2 photon luminescence and second harmonic generation cell imaging. J. Biophotonics. 2018;11:e201700354.

    abstract::The above article from the Journal of Biophotonics, published online on 9 January 2018 in Wiley Online Library as Early View (https://onlinelibrary.wiley.com/doi/abs/10.1002/jbio.201700354), and in Volume 11, e201700354, has been retracted by agreement between the authors (Hong Zhong, Lin Lu, Yuanhao Wang, Hongxing Ya...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章,撤回出版物

    doi:10.1002/jbio.201890133

    authors:

    更新日期:2020-04-01 00:00:00

  • A two-photon europium complex as specific endoplasmic reticulum probe.

    abstract::Highly emissive europium complexes with specific endoplasmic reticulum localization potential includes several advantages such as fast uptake, long resident lifetime, low dosage requirement, low cytotoxicity and highly emissive two-photon induced f-f emission imaging. ...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.200910052

    authors: Law GL,Wong KL,Man CW,Tsao SW,Wong WT

    更新日期:2009-12-01 00:00:00

  • 3-photon microscopy of myelin in mouse digital skin excited at the 1700-nm window.

    abstract::Myelin is a key component of the peripheral nervous system, whose structure anomaly in the digital skin is implicated in neuropathy. Here we demonstrate an in vivo labeling and imaging technique, capable of visualizing myelin sheaths deep in the mouse digital skin. Through material characterization, we verify that 3-p...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.202000321

    authors: He C,Deng X,Pan Y,Tong S,Kang J,Li J,Qiu P,Wang K

    更新日期:2020-12-01 00:00:00

  • In vivo imaging of hematopoietic stem cells and their microenvironment.

    abstract::In this review we provide a description of the basic concepts and paradigms currently constituting the foundations of adult stem cell biology, and discuss the role that live imaging techniques have in the development of the field. We focus on live imaging of hematopoietic stem cells (HSCs) as the basic biology and cli...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章,评审

    doi:10.1002/jbio.200910072

    authors: Lo Celso C,Wu JW,Lin CP

    更新日期:2009-11-01 00:00:00

  • Use of 2D images of depth and integrated reflectivity to represent the severity of demineralization in cross-polarization optical coherence tomography.

    abstract::Several studies have demonstrated the potential of cross-polarization optical coherence tomography (CP-OCT) to quantify the severity of early caries lesions (tooth decay) on tooth surfaces. The purpose of this study is to show that 2D images of the lesion depth and the integrated reflectivity can be used to accurately...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.201300137

    authors: Chan KH,Chan AC,Fried WA,Simon JC,Darling CL,Fried D

    更新日期:2015-01-01 00:00:00

  • Development of full-field optical spatial coherence tomography system for automated identification of malaria using the multilevel ensemble classifier.

    abstract::Malaria is a life-threatening infectious blood disease affecting humans and other animals caused by parasitic protozoans belonging to the Plasmodium type especially in developing countries. The gold standard method for the detection of malaria is through the microscopic method of chemically treated blood smears. We de...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.201700279

    authors: Singla N,Srivastava V,Mehta DS

    更新日期:2018-05-01 00:00:00

  • A helpful technology--the luminescence detection of singlet oxygen to investigate photodynamic inactivation of bacteria (PDIB).

    abstract::Photodynamic inactivation of bacteria (PDIB) is considered a new approach for the struggle against multiresistant bacteria. To achieve a sufficient level of bacteria killing, the photosensitizer must attach to and/or penetrate the bacteria and generate a sufficiently high amount of singlet oxygen. To optimize PDIB, th...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.200900106

    authors: Regensburger J,Maisch T,Felgenträger A,Santarelli F,Bäumler W

    更新日期:2010-06-01 00:00:00

  • Eliminating the scattering ambiguity in multifocal, multimodal, multiphoton imaging systems.

    abstract::In this work we present how to entirely remove the scattering ambiguity present in existing multiphoton multifocal systems. This is achieved through the development and implementation of single-element detection systems that incorporate high-speed photon-counting electronics. These systems can be used to image entire ...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.201100139

    authors: Hoover EE,Field JJ,Winters DG,Young MD,Chandler EV,Speirs JC,Lapenna JT,Kim SM,Ding SY,Bartels RA,Wang JW,Squier JA

    更新日期:2012-05-01 00:00:00

  • Treatment of tumor in lymph nodes using near-infrared laser light-activated thermosensitive liposome-encapsulated doxorubicin and gold nanorods.

    abstract::Tumor metastasis to lymph nodes is an important contributory factor for cancer-related deaths despite recent developments in cancer therapy. In this study, we demonstrate that tumor in the proper axillary lymph node (PALN) of the mouse can be treated by the application of external laser light to trigger the unloading ...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.201600241

    authors: Matsuki D,Adewale O,Horie S,Okajima J,Komiya A,Oluwafemi O,Maruyama S,Mori S,Kodama T

    更新日期:2017-12-01 00:00:00

  • Efficacy and safety of long pulse 1064 and 2940 nm lasers in noninvasive lipolysis and skin tightening.

    abstract::Noninvasive body shaping is becoming a growing demand. The aim of this study was to investigate the efficacy and safety of the combined treatments of 1064 nm Nd:YAG and 2940 nm Er:YAG in noninvasive lipolysis and skin tightening. Ten females were enrolled, and all women's side of the waist or the lower part of the abd...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.201900083

    authors: Vas K,Besenyi Z,Urbán S,Badawi A,Pávics L,Erős G,Kemény L

    更新日期:2019-09-01 00:00:00

  • Rapid discrimination of colon cancer cells with single base mutation in KRAS gene segment using laser tweezers Raman spectroscopy.

    abstract::Laser tweezers Raman spectroscopy (LTRS) as a label-free and noninvasive technology has been proven to be an ideal tool for analysis of single living cells, which provides important fingerprint information without interference from surrounding environments. For the first time, LTRS system was successfully used to exam...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.201800332

    authors: Liu M,Liu X,Huang Z,Tang X,Lin X,Xu Y,Chen G,Kwok HF,Lin Y,Feng S

    更新日期:2019-03-01 00:00:00

  • Scattering based hyperspectral imaging of plasmonic nanoplate clusters towards biomedical applications.

    abstract::A new optical scattering contrast-agent based on polymer-nanoparticle encapsulated silver nanoplates (PESNs) is presented. Silver nanoplates were chosen due to the flexibility of tuning their plasmon frequencies. The polymer coating preserves their physical and optical properties and confers other advantages such as c...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.201500177

    authors: Ray A,Kopelman R,Chon B,Briggman K,Hwang J

    更新日期:2016-07-01 00:00:00

  • Optical emission of 223 Radium: in vitro and in vivo preclinical applications.

    abstract::223 Radium (223 Ra) is widely used in nuclear medicine to treat patients with osseous metastatic prostate cancer. In clinical practice 223 Ra cannot be imaged directly; however, gamma photons produced by its short-lived daughter nuclides can be captured by conventional gamma cameras. In this work, we show that 223 Ra ...

    journal_title:Journal of biophotonics

    pub_type: 杂志文章

    doi:10.1002/jbio.201700209

    authors: Boschi F,De Sanctis F,Spinelli AE

    更新日期:2018-04-01 00:00:00