document

A hybrid segmentation method for partitioning the liver based on 4D DCE-MR images

Zhang, T. (author), Wu, Z. (author), Runge, Jurgen H. (author), Lavini, Cristina (author), Stoker, Jaap (author), Van Gulik, Thomas (author), Cieslak, Kasia P. (author), van Vliet, L.J. (author), Vos, F.M. (author)

The Couinaud classification of hepatic anatomy partitions the liver into eight functionally independent segments. Detection and segmentation of the hepatic vein (HV), portal vein (PV) and inferior vena cava (IVC) plays an important role in the subsequent delineation of the liver segments. To facilitate pharmacokinetic modeling of the liver...

conference paper 2018

document

Spatial organization in nano-sculptured bacteria, a tale of shape, scale, patterns, and genomes

Wu, F. (author)

One of the most basic features that pervade biology is the existence of boundaries that separate living cells from their outer environments. Molecules responsible for the internal organization of a living cell must adapt to its boundaries, as the cell grows, divides, and changes in shape and size. In this thesis, we aim to understand how...

doctoral thesis 2015

document

Engineering Acetyl Coenzyme A Supply: Functional Expression of a Bacterial Pyruvate Dehydrogenase Complex in the Cytosol of Saccharomyces cerevisiae

Kozak, B.U. (author), Van Rossum, H.M. (author), Luttik, M.A.H. (author), Akeroyd, M. (author), Benjamin, K.R. (author), Wu, L. (author), De Vries, S. (author), Daran, J.M. (author), Pronk, J.T. (author), Van Maris, A.J.A. (author)

The energetic (ATP) cost of biochemical pathways critically determines the maximum yield of metabolites of vital or commercial relevance. Cytosolic acetyl coenzyme A (acetyl-CoA) is a key precursor for biosynthesis in eukaryotes and for many industrially relevant product pathways that have been introduced into Saccharomyces cerevisiae, such as...

journal article 2014

document

Engineering acetyl coenzyme A supply: Functional expression of a bacterial pyruvate dehydrogenase complex in the cytosol of Saccharomyces cerevisiae

Kozak, B.U. (author), Van Rossum, M.H. (author), Luttik, M.A. (author), Akeroyd, M. (author), Benjamin, K.R. (author), Wu, L. (author), De Vries, S. (author), Daran, J.M. (author), Pronk, J.T. (author), Van Maris, A.J.A. (author)

The energetic (ATP) cost of biochemical pathways critically determines the maximum yield of metabolites of vital or commercial relevance. Cytosolic acetyl coenzyme A (acetyl-CoA) is a key precursor for biosynthesis in eukaryotes and for many industrially relevant product pathways that have been introduced into Saccharomyces cerevisiae, such as...

journal article 2014

document

Physiological and genomic features of highly alkaliphilic hydrogen-utilizing Betaproteobacteria from a continental serpentinizing site

Suzuki, S. (author), Kuenen, J.G. (author), Schipper, K. (author), Van der Velde, S. (author), Ishii, S. (author), Wu, A. (author), Sorokin, D.Y. (author), Tenney, A. (author), Meng, X.Y. (author), Morrill, P.L. (author), Kamagata, Y. (author), Muyzer, G. (author), Nealson, K.H. (author)

Serpentinization, or the aqueous alteration of ultramafic rocks, results in challenging environments for life in continental sites due to the combination of extremely high pH, low salinity and lack of obvious electron acceptors and carbon sources. Nevertheless, certain Betaproteobacteria have been frequently observed in such environments. Here...

journal article 2014

document

Engineered Tumor Cell Apoptosis Monitoring Method Based on Dynamic Laser Tweezers

Zhang, Y. (author), Wu, X. (author), Min, C. (author), Zhu, S. (author), Urbach, H.P. (author), Yuan, X. (author)

Monitoring the cells’ apoptosis progression could provide a valuable insight into the temporal events that initiate cell death as well as the potential for rescue of apoptotic cells. In this paper, we engineered a novel and robust method for monitoring apoptosis of tumor cells based on dynamic laser tweezers, using A549 and HeLa cell line as...

journal article 2014

document

Photoacoustic imaging of human coronary atherosclerosis in two spectral bands

Jansen, K. (author), Wu, M. (author), Van der Steen, A.F.W. (author), Van Soest, G. (author)

Spectroscopic intravascular photoacoustic imaging (sIVPA) has shown promise to detect and distinguish lipids in atherosclerotic plaques. sIVPA generally utilizes one of the two high absorption bands in the lipid absorption spectrum at 1.2 ?m and 1.7 ?m. Specific absorption signatures of various lipid compounds within the bands in either...

journal article 2014

document

Spectroscopic intravascular photoacoustic imaging of lipids in atherosclerosis

Jansen, K. (author), Van der Steen, A.F.W. (author), Wu, M. (author), Van Beusekom, H.M.M. (author), Springeling, G. (author), Li, X. (author), Zhou, Q. (author), Shung, K.K. (author), De Kleijn, D.P.V. (author), Van Soest, G. (author)

The natural history of atherosclerosis is marked by changes in the lipid biochemistry in the diseased arterial wall. As lesions become more vulnerable, different cholesterol species accumulate in the plaque. Understanding unstable atherosclerosis as a pharmacological and interventional therapeutic target requires chemically specific imaging of...

journal article 2014

document

Replacement of the Saccharomyces cerevisiae acetyl-CoA synthetases by alternative pathways for cytosolic acetyl-CoA synthesis

Kozak, B.U. (author), Van Rossum, H.M. (author), Benjamin, K.R. (author), Wu, L. (author), Daran, J.G. (author), Pronk, J.T. (author), Van Maris, A.J.A. (author)

Cytosolic acetyl-coenzyme A is a precursor for many biotechnologically relevant compounds produced by Saccharomyces cerevisiae. In this yeast, cytosolic acetyl-CoA synthesis and growth strictly depend on expression of either the Acs1 or Acs2 isoenzyme of acetyl-CoA synthetase (ACS). Since hydrolysis of ATP to AMP and pyrophosphate in the ACS...

journal article 2013

document

Method for removing a high definition nanostructure, a partly freestanding layer, a sensor comprising said layer and a method using said sensor

Xu, Q. (author), Schneider, G. (author), Zandbergen, H.W. (author), Wu, M.Y. (author), Song, B. (author)

The present invention is in the field of a method for removing a high definition nanostructure in a partly free-standing layer, the layer, a sensor comprising said layer, a use of said sensor, and a method of detecting a species, and optional further characteristics thereof, using said sensor. The sensor and method are suited for detecting...

patent 2013

document

Lipid detection in atherosclerotic human coronaries by spectroscopic intravascular photoacoustic imaging

Jansen, K. (author), Wu, M. (author), Van der Steen, A.F.W. (author), Van Soest, G. (author)

The presence of lipids in atherosclerotic coronary lesions is an important determinant of their potential to trigger acute coronary events. Spectroscopic intravascular photoacoustic imaging (sIVPA) has the potential to automatically detect lipids in atherosclerotic lesions. For realtime in vivo imaging, limiting the number of excitation...

journal article 2013

document

Effects of attenuation map accuracy on attenuation-corrected micro-SPECT images

Wu, C. (author), Gratama van Andel, H.A. (author), Laverman, P. (author), Boerman, O.C. (author), Beekman, F.J. (author)

Background In single-photon emission computed tomography (SPECT), attenuation of photon flux in tissue affects quantitative accuracy of reconstructed images. Attenuation maps derived from X-ray computed tomography (CT) can be employed for attenuation correction. The attenuation coefficients as well as registration accuracy between SPECT and CT...

journal article 2013

document

Selective Photocatalytic Reduction of NOx with Fe-doped TiO2: A New Approach Towards Photocatalyst Design

Wu, Q. (author)

Conventional TiO2 based photocatalysts oxidize NOx to nitrates which do not automatically desorb and have to be washed away from the catalyst surface. To avoid this, the research described in this thesis aims to design new photocatalysts that can photo-reduce NO into N2 and O2. Previous efforts in the literature have shown that catalysts...

doctoral thesis 2012

document

Robustness and accuracy of cell division in Escherichia coli in diverse cell shapes

Männik, J. (author), Wu, F. (author), Hol, F.J.H. (author), Bisicchia, P. (author), Sherratt, D.J. (author), Keymer, J.E. (author), Dekker, C. (author)

Cell division in typical rod-shaped bacteria such as Escherichia coli shows a remarkable plasticity in being able to adapt to a variety of irregular cell shapes. Here, we investigate the roles of the Min system and the nucleoid-occlusion factor SlmA in supporting this adaptation. We study “squeezed” E. coli in narrow nanofabricated channels...

journal article 2012

document

Excimer laser crystallization of InGaZnO4 on SiO2 substrate

Chen, T. (author), Wu, M.Y. (author), Ishihara, R. (author), Nomura, K. (author), Kamiya, T. (author), Hosono, H. (author), Beenakker, C.I.M. (author)

In this paper, we were able to crystallize InGaZnO4 (IGZO) by excimer laser on SiO2 substrate. It was observed that uniform [0001] textured polycrystalline IGZO film has been obtained without any grain boundaries and oxygen vacancies on SiO2 substrate. This process is very promising in fabricating high quality IGZO thin film transistors (TFT) at...

journal article 2011

document

Absolute quantitative total-body small-animal SPECT with focusing pinholes

Wu, C. (author), Van der Have, F. (author), Vastenhouw, B. (author), Dierckx, R.A.J.O. (author), Paans, A.M.J. (author), Beekman, F.J. (author)

Purpose: In pinhole SPECT, attenuation of the photon flux on trajectories between source and pinholes affects quantitative accuracy of reconstructed images. Previously we introduced iterative methods that compensate for image degrading effects of detector and pinhole blurring, pinhole sensitivity and scatter for multi-pinhole SPECT. The aim of...

journal article 2010

document

Controlling nanopore size, shape and stability

Van den Hout, M. (author), Hall, A.R. (author), Wu, M.Y. (author), Zandbergen, H.W. (author), Dekker, C. (author), Dekker, N.H. (author)

Solid-state nanopores are considered a promising tool for the study of biological polymers such as DNA and RNA, due largely to their flexibility in size, potential in device integration and robustness. Here, we show that the precise shape of small nanopores (?5 nm diameter in 20 nm SiN membranes) can be controlled by using transmission electron...

journal article 2010

document

Small-animal SPECT and SPECT/CT: Application in cardiovascular research

Golestani, R. (author), Wu, C. (author), Tio, R.A. (author), Zeebregts, C.J. (author), Petrov, A.D. (author), Beekman, F.J. (author), Dierckx, R.A.J.O. (author), Boersma, H.H. (author), Slart, R.H.J.A. (author)

Preclinical cardiovascular research using noninvasive radionuclide and hybrid imaging systems has been extensively developed in recent years. Single photon emission computed tomography (SPECT) is based on the molecular tracer principle and is an established tool in noninvasive imaging. SPECT uses gamma cameras and collimators to form projection...

journal article 2010

document

Fast single-step fabrication of nanopores

Chen, P. (author), Wu, M.Y. (author), Salemink, H.W.M. (author), Alkemade, P.F.A. (author)

We report a new method for the fabrication of sub-10 nm nanopores in a fast single process step. The pore formation is accomplished by exploiting the competition between sputtering and deposition in ion-beam-induced deposition (IBID) on a thin membrane. The pore diameter can be controlled by adjusting the ion beam and gas exposure conditions....

journal article 2008

document

Novel Evolutionary Engineering Approach for Accelerated Utilization of Glucose, Xylose, and Arabinose Mixtures by Engineered Saccharomyces cerevisiae Strains

Wisselink, H.W. (author), Toirkens, M.J. (author), Wu, Q. (author), Pronk, J.T. (author), Van Maris, A.J.A. (author)

Lignocellulosic feedstocks are thought to have great economic and environmental significance for future biotechnological production processes. For cost-effective and efficient industrial processes, complete and fast conversion of all sugars derived from these feedstocks is required. Hence, simultaneous or fast sequential fermentation of sugars...

journal article 2008