Publications

2020

Trukhan S., Tafintseva V., Tøndel K., Großerueschkamp F., Mosig A., Kovalev V., Gerwert K., Kohler A.
Grayscale representation of infrared microscopy images by Extended Multiplicative Signal Correction for registration with histological images.
Journal of Biophotonics 13 (2020) e201960223

Diehn S., Zimmermann B., Tafintseva V., Bağcıoğlu M., Kohler A., Ohlson M., Fjellheim S., Kneipp J.
Discrimination of grass pollen of different species by FTIR spectroscopy of individual pollen grains.
Analytical and Bioanalytical Chemistry (2020)

Meyer V., Basenko E.Y., Benz J.P., Braus G.H., Caddick M.X., Csukai M., de Vries R.P., Endy D., Frisvad J.C., Gunde‑Cimerman N., Haarmann T., Hadar Y., Hansen K., Johnson R.I., Keller N.P., Kraševec N., Mortensen U.H., Perez R., Ram A.F.J., Record E., Ross P., Shapaval V., Steiniger C., van den Brink H., van Munster J., Yarden O., Wösten H.A.B.
Growing a circular economy with fungal biotechnology: a white paper.
Fungal Biology and Biotechnology 7 (2020) 5

Sirovica, S., Solheim, J.H., Skoda, M.W.A., Hirschmugl C.J., Mattson E.C., Aboualizadeh E., Guo Y., Chen X., Kohler A., Romanyk D.L., Rosendahl S.M., Morsch S., Martin R.A., Addison O.
Origin of micro-scale heterogeneity in polymerisation of photo-activated resin composites.
Nature Communications 11 (2020) 1849

Kenđel A., Zimmermann B.
Chemical Analysis of Pollen by FT-Raman and FTIR Spectroscopies.
Frontiers in Plant Science 11 (2020) 352

Tafintseva V., Shapaval V., Smirnova M., Kohler A.
Extended multiplicative signal correction for FTIR spectral quality test and pre‐processing of infrared imaging data.
Journal of Biophotonics 13 (2020) e201960112

Diehn S., Zimmermann S., Tafintseva V., Seifert S., Bagcioglu M., Ohlson M., Weidner S., Fjellheim S., Kohler A., Kneipp J.
Combining chemical information from grass pollen in multimodal characterization.
Frontiers in Plant Science 10 (2020) 1788

Muthreich F., Zimmermann B., Birks H.J.B., Vila‐Viçosa C.M., Seddon A.W.R.
Chemical variations in Quercus pollen as a tool for taxonomic identification: Implications for long‐term ecological and biogeographical research.
Journal of Biogeography (2020)

2019

Szotkowski M., Byrtusova D., Haronikova A., Vysoka M., Rapta M., Shapaval V., Marova I.
Study of Metabolic Adaptation of Red Yeasts to Waste Animal Fat Substrate.
Microorganisms 7 (2019) 578.

Sanden K.W., Kohler A., Afseth N.K., Böcker U., Rønning S.B., Liland K.H., Pedersen M.E.
The use of Fourier‐transform infrared spectroscopy to characterize connective tissue components in skeletal muscle of Atlantic cod (Gadus morhua L.).
Journal of Biophotonics 12 (2019) e201800436

Xiong Y., Shapaval V., Kohler A., Li J., From PJ.
A Fully Automated Robot for the Preparation of Fungal Samples for FTIR Spectroscopy Using Deep Learning.
IEEE Access 7 (2019) 132763-132774

Xiong Y., Shapaval V., Kohler A., From PJ.
A Laboratory-Built Fully Automated Ultrasonication Robot for Filamentous Fungi Homogenization.
SLAS Technology (2019) 1-13

Shapaval V., Brandenburg J., Blomqvist J., Tafintseva V., Passoth V., Sandgren M., Kohler A.
Biochemical profiling, prediction of total lipid content and fatty acid profile in oleaginous yeasts by FTIR spectroscopy.
Biotechnology for Biofuels 12 (2019) 140

Solheim J., Gunko E., Petersen D., Grosserruschkamp F., Gerwert K., Kohler A.
An open source code for Mie Extinction EMSC for infrared microscopy spectra of cells and tissues.
Journal of Biophotonics 12 (2019) e201800415

Brandsrud M.A., Seim E., Lukacs R., Kohler A., Marstein E.S., Olsen E., Blümel R. 
Exact ray theory for the calculation of the optical generation rate in optically thin solar cells.
Physica E: Low-dimensional Systems and Nanostructures 105 (2019) 125 – 138.

Schofield A.J., Blümel R., Kohler A., Lukacs R., Hirschmugl C.J.
Extracting pure absorbance spectra in infrared microspectroscopy by modeling absorption bands as Fano resonances.
Journal of Chemical Physics 150 (2019) 154124.

Seddon A.W.R., Festi D., Robson T.M., Zimmermann B. 
Fossil pollen and spores as a tool for reconstructing ancient solar-ultraviolet irradiance received by plants: an assessment of prospects and challenges using proxy-system modelling.
Photochemical and Photobiological Sciences 18 (2019) 275.

Seim E., Kohler A., Lukacs R., Brandsrud M.A, Marstein E.S, Olsen E., Blümel R. 
Chaos: A new mechanism for enhancing the optical generation rate in thin-film solar cells.
SPIE West 10913 (2019).

Innes S.N., Arve L.E., Zimmermann B., Nybakken L., Melby T.I., Solhaug K.A., Olsen J.E., Torre S.
Elevated air humidity increases UV mediated leaf and DNA damage in pea (Pisum sativum) due to reduced flavonoid content and antioxidant power
Photochemical and Photobiological Sciences 18 (2019) 387.

2018

Konevskikh T., Lukacs R., Kohler A. 
An improved algorithm for fast resonant Mie scatter correction of infrared spectra of cells and tissues
Journal of Biophotonics 11 (2018) DOI: 10.1002/jbio.201600307

Tzimorotas D., Afseth N. K., Lindberg D., Kjørlaug O., Axelsson L., Shapaval V.
Pretreatment of different food rest materials for bioconversion into fungal lipid-rich biomass
Journal of Bioprocess and Biosystems Engineering 41 (2018) 1039.

Kosa G., Zimmermann B., Kohler A., Ekeberg D., Afseth N.K., Mounier J., Shapaval V.
High-throughput screening of Mucoromycota fungi for production of low- and high value lipids.
Biotechnology for Biofuels 11:66 (2018)

Guoa S., Kohler A., Zimmermann B., Heinke R., Stöckel S., Rösch P., Popp J., Bocklitz T. 
EMSC based model transfer for Raman spectroscopy in biological applications.
Analytical Chemistry 90 (2018) 9787.

Knutsen T.M., Olsen H.G., Tafintseva V., Svendsen M., Kohler A., Kent M.P., Lien S.
Unravelling genetic variation underlying de novo-synthesis of bovine milk fatty acids.
Scientific reports 8 (2018) 2179.

Diehn S., Zimmermann B., Bağcıoğlu M., Seifert S., Kohler A., Ohlson M., Fjellheim S., Weidner S., Kneipp J. 
Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) shows adaptation of grass pollen composition.
Scientific Reports 8 (2018) 16591.

Kosa G., Vuoristo K., Horn S.J., Zimmermann B., Afseth N.K., Kohler A., Shapaval V.
Assessment of the scalability of a microtiter plate system for screening of oleaginous microorganisms.
Applied Microbiology and Biotechnology 102 (2018) 4915.

Zimmermann B. 
Chemical characterization and identification of Pinaceae pollen by infrared microspectroscopy.
Planta 247 (2018) 171.

Vanek M., Mravec F., Szotkowski M., Byrtusova D., Haronikova A., Certik M., Shapaval V., Marova I.
Fluorescence lifetime imaging of red yeast Cystofilobasidium capitatum during growth.
The EuroBiotech Journal 2 (2018) 114.

Blümel R., Lukacs R., Zimmermann B., Bağcıoğlu M., Kohler A. 
Observation of Mie ripples in the synchrotron FTIR spectra of spheroidal pollen grains.
Journal of the Optical Society of America A 35 (2018) 1769.

Tafintseva V., Vigneau E., Shapaval V., Cariou V., Qannari E.M., Kohler A.
Hierarchical classification of microorganisms based on high-dimensional phenotypic data.
Journal of Biophotonics 11 (2018)

Azarfar G., Aboualizadeh E., Walter N.M., Ratti S., Olivieri C., Norici A., Nasse M., Kohler A., Giordano M., Hirschmugl C.J.
Estimating and correcting interference fringes in infrared spectra in infrared hyperspectral imaging.
Analyst 143 (2018) 4674.

2017

Zimmermann B., Bağcıoğlu M., Tafinstseva V., Kohler A., Ohlson M., Fjellheim S.
A high-throughput FTIR spectroscopy approach to assess adaptive variation in pollen quality.
Ecology and Evolution 7 (2017) 10839.

Olsen H.G., Knutsen T.M., Kohler A., Svendsen M., Gidskehaug L., Grove H., Nome T., Sodeland M., Sundsaasen K.K., Kent M.P., Martens H., Lien S.
Genome-wide association mapping for milk fat composition and fine mapping of a QTL for de novo synthesis of milk fatty acids on bovine chromosome 13.
Genetics Selection Evolution, 49:20 (2017) doi:10.1186/s12711-017-0294-5

Marova I., Rapta M., Vanek M., Haronikova A., Szotkowski M., Shapaval V.
Use of high-throughput techniques to study simultaneous production of lipid metabolites in carotenogenic yeasts grown on waste animal fat.
Journal of Biotechnology 256 (2017) 42.

Kosa G., Kohler A., Tafintseva V., Zimmermann B., Forfang K., Afseth N.K., Tzimorotas D., Vuoristo K.S., Horn S.J., Mounier J., Shapaval V. 
Microtiter plate cultivation of oleaginous fungi and monitoring of lipogenesis by high-throughput FTIR spectroscopy.
Microbial Cell Factories 16:101 (2017).

Forfang, K., Zimmermann B., Kosa, G. Kohler A., Shapaval V.
FTIR spectroscopy for evaluation and monitoring of lipid extraction efficiency for oleaginous fungi. 
PLOS One 12 (2017) e0170611.

Marova I., Szotkowski M., Vanek M., Rapta M., Byrrtusova D., Mikheichyk N., Haronikova A., Certik M., Shapaval V.
Utilization of animal fat waste as carbon source by carotenogenic yeasts – a screening study.
The EuroBiotech Journal 1 (2017) 310.

Bağcıoğlu M., Kohler A., Seifert S., Kneipp J., Zimmermann B.
Monitoring of plant-environment interactions by high throughput FTIR spectroscopy of pollen.
Methods in Ecology and Evolution 8 (2017) 870-880.

Kosa G., Shapaval V., Kohler A., Zimmermann B.
FTIR spectroscopy as a unified method for simultaneous analysis of intra- and extracellular metabolites in high-throughput screening of microbial bioprocesses.
Microbial Cell Factories 16:195 (2017).

Shapaval V., Møretrø T., Suso H-P., Schmitt J., Lilehaug D., Kohler A.
A novel library-independent approach based on FTIR spectroscopy for source tracking of moulds contamination in food.
Letters in Applied Microbiology 64 (2017) 335.

Colabella C., Corte L., Roscini L., Shapaval V., Kohler A., Tafintseva V., Tascini C., Cardinali G.
Merging FT-IR and NGS for simultaneous phenotypic and genotypic identification of pathogenic Candida species.
PLoS One 12 (2017) e0188104

2016

Zimmermann B., Tafintseva V., Bağcıoğlu M., Høegh Berdahl M., Kohler A.
Analysis of allergenic pollen by FTIR microspectroscopy.
Analytical Chemistry 88 (2016) 803-811.

Hovde Liland K., Kohler A., Afseth N.K. 
Model-based pre-processing in Raman spectroscopy of biological samples. 
Journal of Raman Spectroscopy (2016) DOI: 10.1002/jrs.4886. 

Konevskikh T., Lukacs R., Blümel R., Ponossov A., Kohler A.
Mie scatter corrections in single cell infrared microspectroscopy
Faraday Discussions 187 (2016) 235-257.

Blümel R., Bağcıoğlu M., Lukacs R., Kohler A.
Infrared refractive index dispersion of polymethyl methacrylate spheres from Mie ripples in Fourier-transform infrared microscopy extinction spectra
Journal of the Optical Society of America A 33 (2016) 1687-1696.

2015

Li J., Shapaval V., Kohler A., Talintyre R., Schmitt J., Stone R., Gallant A.J., Zeze D.A.
A Modular Liquid Sample Handling Robot for High-Throughput Fourier Transform Infrared Spectroscopy.
In Ding X., Kong X. & Dai S.J. (eds) Advances in Reconfigurable Mechanics and Robotics II (2015). Cham: Springer International Publishing

Bağcıoğlu M., Zimmermann B., Kohler A. 
A multiscale vibrational spectroscopic approach for identification and biochemical characterization of pollen.
PLOS One 10 (2015) e0137899

Zimmermann B., Bağcıoğlu M., Sandt C., Kohler A.
Vibrational microspectroscopy enables chemical characterization of single pollen grains as well as comparative analysis of plant species based on pollen ultrastructure.
Planta 242 (2015) 1237-1250

Konevskikh T., Ponossov A., Blumel R., Lukacs R., Kohler A. 
Fringes in FTIR spectroscopy revisited: understanding and modelling fringes in infrared spectroscopy of thin films. 
Analyst 140 (2015) 3969.

Zimmermann B., Tkalčec Z., Mešić A., Kohler A. 
Characterizing aeroallergens by infrared spectroscopy of fungal spores and pollen.
PLOS One 10 (2015) e0124240

Lukacs R., Blümel R., Zimmermann B., Bağcıoğlu M., Kohler A. 
Recovery of absorbance spectra of micrometer-sized biological and inanimate particles.
Analyst 140 (2015) 3273-3284

Karaman I., Nørskov N.P., Yde C.C., Skou Hedemann M., Bach Knudsen K.E., Kohler A. 
Sparse multi-block PLSR for biomarker discovery when integrating data from LC-MS and NMR metabolomics.
Metabolomics 11 (2015) 367.

2014

Shapaval V., Afseth N.K., Vogt G., Kohler A. 
Fourier Transform Infrared Spectroscopy for the prediction of fatty acid profiles in Mucor fungi in media with different carbone sources.
Microbial Cell Factories 4 (2014)

Kohler A., Boecker U., Shapaval V., Forsmark A., Anderssion M., Warringer J., Martens H., Omholt S.W., Blomberg A.
High-throughput biochemical fingerprinting of Saccharomyces cerevisiae by Fourier transform infrared spectroscopy.
PLOS One 10 (2014) e0118052

Hovde Liland K., Kohler A., Shapaval V.   
Hot PLS—a framework for hierarchically ordered taxonomic classification by partial least squares.
Chemometrics and Intelligent Laboratory Systems 15 (2014)

Zimmermann B., Kohler A. 
Infrared spectroscopy of pollen identifies plant species and genus as well as environmental conditions.
PLOS One 9 (2014) e95417

Kohler A., Boecker U., Shapaval V., Forsmark A., Anderssion M., Warringer J., Martens H., Omholt S.W., Blomberg A.
High-throughput biochemical fingerprinting of Saccharomyces cerevisiae by Fourier transform infrared spectroscopy.
PLOS One 10 (2014)

2013

Shapaval V., Schmitt J., Møretrø T., Suso HP, Skaar I., Åsli AW., Lilehaug D., and Kohler A.
Characerization of food spoilage fungi by FTIR spectroscopy.
Journal of Applied Microbiology 114 (2013)

Hassani S., Hanafi M., Qannari M., Kohler A. 
Deflation strategies for multi-block principal component analysis revisited. 
Chemometrics and Intelligent Laboratory Systems. 120 (2013) 154–168.

Karaman I., Qannari M., Martens H., Skou Hedemann M., Bach Knudsen K.E., Kohler A., 
Comparison of Sparse and Jack-knife partial least squares regression methods for variable selection. 
Chemometrics and Intelligent Laboratory Systems. 122 (2013) 65-77.

Eslami A., Qannari E.M., Kohler A., Bougeard S.
Analyses factorielles de données structurées en groupes d’individus (Multivariate data analysis of multi-group datasets). 
Journal de la Société Française de Statistique 44 (2013) 2102.

Zimmermann B., Kohler A.
Optimizing Savitzky-Golay parameters for improving spectral resolution and quantification in infrared spectroscopy.
Applied Spectroscopy 67 (2013) 892-902.

Eslami A., Qannari E.M., Kohler A., Bougeard S., 
General overview of methods of analysis of multi-group datasets. 
Revue des Nouvelles Technologies de l’information (RNTI) 25 (2013) 113.

2012

Shapaval V., Walczak B., Gognies S., Møretrø T., Suso HP, Åsli AW., Belarbi A., and Kohler A.
FTIR spectroscopic characterization of differently cultivated food related yeasts.
Analyst 138 (2012)

Hassani S., Martens H., Qannari M., Hanafi M., Kohler A. 
Model validation and error estimation in multi-block partial least squares regression.
Chemometrics and Intelligent Laboratory Systems 117 (2012) 42-53

Hassani S., Martens H., Qannari M., Kohler A. 
Degrees of freedom estimation in Principal Component Analysis and consensus principal component analysis.
Chemometrics and Intelligent Laboratory Systems 118 (2012) 246-259

Bassan P., Sachdevaa A., Kohler A., Hughes C., Henderson A., Boyle J., Shanks J.H., Brown M., Clarke N.W., Gardner P. 
FTIR Microscopy of biological cells and tissue: data analysis using resonant Mie scattering (RMieS) EMSC algorithm. 
Analyst 137 (2012) 1370. 

Afseth N.K., Kohler A. 
Extended multiplicative signal correction in vibrational spectroscopy, a tutorial. 
Chemometrics and Intelligent Laboratory Systems 117 (2012) 92.

2011

Hanafi M., Kohler A., Qannari M.
Connections between multiple co-inertia analysis and consensus principal component analysis.
Chemometrics and Intelligent Laboratory Systems 106 (2011) 37-40. 

2010

Shapaval V., Møretrø T., Suso HP, Åsli AW., Schmitt J., Lilehaug D.,  Martens H, Boecker U., and Kohler A. 
A high-throughput microcultivation protocol for FTIR spectroscopic characterization and identification of fungi.
Journal of Biophotonics 3 (2010)

Zimmermann B. 
Characterization of pollen by vibrational spectroscopy.
Appl. Spectrosc. 64 (2010) 1364-1373

Hanafi M., Kohler A., Quannari, M. 
Shedding new light on Hierarchical Principal Component Analysis. 
Journal of Chemometics 24 (2010) 703-709.

Hassani S., Martens H., Qannari M., Hanafi M., Borge G.I., Kohler A. 
Analysis of –omics data: Graphical interpretation- and validation tools in multi–block methods. 
Chemometrics and Intelligent Laboratory Systems 104 (2010) 140-153.

Bassan P., Kohler A., Martens H., Lee J., Byrne H.J., Dumas P., Gazi E., Brown M., Clarke N., Gardner P. 
Resonant Mie Scattering (RMieS) Correction of Infrared Spectra from Highly Scattering Biological Samples. 
Analyst 135 (2010) 268.

2009

Kohler A., Böcker U., Warringer J., Blomberg A., Omholt S.W., Stark E., Martens H. 
Reducing inter-replicate variation in Fourier-transform infrared spectroscopy by extended multiplicative signal correction. 
Applied spectroscopy 63 (2009) 296.

2008

Kohler A., Sulé-Suso J., Sockalingum G.D., Tobin M., Bahrami F., Yang Y., Pijanka J., Dumas P., Cotte M., Martens H.
Estimating and correcting Mie scattering in synchrotron based microscopic FTIR spectra by extended multiplicative signal correction (EMSC). 
Applied Spectroscopy 62 (2008) 259.

2006

Martens H., Bruun S.W., Adt I., Sockalingum G.D., Kohler A. 
Pre-processing in biochemometrics: correction for path-length and temperature effects of water in FTIR bio-spectroscopy by EMSC. 
Journal of Chemometrics 20 (2006) 402.

Bruun S.W., Kohler A., Adt I., Sockalingum G.D., Manfait M., Martens H. 
Correcting attenuated total reflection-Fourier transform infrared spectra for water vapour and carbon dioxide. 
Applied Spectroscopy 60 (2006) 1029.

Thennadil S., Martens H., Kohler A. 
Physics-based Multiplicative Scatter Correction Approaches for Improving the Performance of Calibration Models.
Applied Spectroscopy 60 (2006) 315.

2005

Kohler A., Kirschner C., Oust A., Martens H. 
Extended multiplicative signal correction as a tool for separation and characterisation of physical and chemical information in Fourier transform infrared microscopy images of cryo-sections of beef loin.
Applied Spectroscopy 59 (2005) 707.

Published 12. February 2016 - 14:34 - Updated 14. May 2020 - 9:48