Lukasz Migas

Lukasz Migas
Delft University of Technology | TU · Delft Center for Systems and Control (DCSC)

PhD

About

44
Publications
3,610
Reads
How we measure 'reads'
A 'read' is counted each time someone views a publication summary (such as the title, abstract, and list of authors), clicks on a figure, or views or downloads the full-text. Learn more
670
Citations
Citations since 2016
43 Research Items
669 Citations
2016201720182019202020212022050100150
2016201720182019202020212022050100150
2016201720182019202020212022050100150
2016201720182019202020212022050100150
Additional affiliations
February 2019 - present
Delft University of Technology
Position
  • PostDoc Position
September 2018 - January 2019
The University of Manchester
Position
  • PostDoc Position
September 2015 - May 2016
The University of Manchester
Position
  • Demonstrator
Description
  • Supervised five year 3 students in completion of their Group research project.
Education
August 2014 - December 2018
The University of Manchester
Field of study
  • Biochemistry
September 2010 - June 2014
Manchester Metropolitan University
Field of study
  • Chemistry

Publications

Publications (44)
Article
Full-text available
Introduction Although Staphylococcus aureus is the leading cause of biofilm-related infections, the lipidomic distributions within these biofilms is poorly understood. Here, lipidomic mapping of S. aureus biofilm cross-sections was performed to investigate heterogeneity between horizontal biofilm layers. Methods S. aureus biofilms were grown stati...
Preprint
Full-text available
The need for deep molecular and spatial characterization of tissues is growing rapidly to study complex diseases and disorders, particularly in the context of relationships between the cellular and molecular architecture from single cells to functional and anatomical regions of tissue. The human kidney is composed of over 26 cell types that activel...
Preprint
Full-text available
Gangliosides are classified as acidic glycosphingolipids, containing ceramide moieties and oligosaccharide chains with one or multiple sialic acid residue(s). The presence of multiple sialylation sites gives rise to highly diverse isomeric structures with distinct biological roles. Matrix-assisted laser desorption/ionization imaging mass spectromet...
Preprint
Gangliosides are classified as acidic glycosphingolipids, containing ceramide moieties and oligosaccharide chains with one or multiple sialic acid residue(s). The presence of multiple sialylation sites gives rise to highly diverse isomeric structures with distinct biological roles. Matrix-assisted laser desorption/ionization imaging mass spectromet...
Article
The search for molecular species that are differentially expressed between biological states is an important step towards discovering promising biomarker candidates. In imaging mass spectrometry (IMS), performing this search manually is often impractical due to the large size and high-dimensionality of IMS datasets. Instead, we propose an interpret...
Article
Full-text available
Here, we describe the preservation and preparation of human kidney tissue for interrogation by histopathology, imaging mass spectrometry, and multiplexed immunofluorescence. Custom image registration and integration techniques are used to create cellular and molecular atlases of this organ system. Through careful optimization, we ensure high-qualit...
Article
We demonstrate the utility of combining silicon nanopost arrays (NAPA) and trapped ion mobility imaging mass spectrometry (TIMS IMS) for high spatial resolution and specificity mapping of neutral lipid classes in tissue. Ionization of neutral lipid species such as triglycerides (TGs), cholestryl esters (CEs), and hexosylceramides (HexCers) from bio...
Preprint
Full-text available
Scope: Annotate lipid species detected by MALDI IMS analysis, and register MALDI IMS images to different types of microscopy images. Expected Outcome: A list of lipid identifications with low mass errors (<5 ppm) that correlate to ion images produced by MALDI IMS analysis, and the ability to layer different images from different assays.
Preprint
p>Our work demonstrates the ability to perform high spatial resolution imaging mass spectrometry (IMS) using silicon nanopost arrays (NAPA), a matrix-free laser desorption ionization (LDI) substrate, for multiple classes of neutral lipids from biological tissue sections. Utilized trapped ion-mobility spectrometry (TIMS) coupled with IMS to enhance...
Preprint
Full-text available
The search for molecular species that are differentially expressed between biological states is an important step towards discovering promising biomarker candidates. In imaging mass spectrometry (IMS), performing this search manually is often impractical due to the large size and high-dimensionality of IMS datasets. Instead, we propose an interpret...
Article
Lipids are a structurally diverse class of molecules with important biological functions including cellular signaling and energy storage. Matrix-assisted laser desorption/ionization (MALDI) imaging mass spectrometry (IMS) allows for direct map-ping of biomolecules in tissue. Fully characterizing the structural diversity of lipids remains a challeng...
Article
Low molecular weight metabolites are essential for defining the molecular phenotypes of cells. However, spatial metabolom-ics tools often lack the sensitivity, specify, and spatial resolution to provide comprehensive descriptions of these species in tissue. MALDI imaging mass spectrometry (IMS) of low molecular weight ions is particularly challengi...
Article
Native mass spectrometry (MS) allows the interrogation of structural aspects of macromolecules in the gas phase, under the premise of having initially maintained their solution-phase non-covalent interactions intact. In the more than 25 years since the first reports, the utility of native MS has become well established in the structural biology com...
Article
The last few years have seen a dramatic increase in applications of native mass and ion mobility spectrometry, especially for the study of proteins and protein complexes. This increase has been catalysed by the availability of commercial instrumentation capable of carrying out such analyses. As in most fields, however, the software to process the d...
Preprint
p> Lipids are a structurally diverse class of molecules, with important biological functions including cellular signaling and energy storage. Matrix-assisted laser desorption/ionization (MALDI) imaging mass spectrometry (IMS) allows for visualization of molecules directly from tissue, but has difficulty addressing the structural diversity of the li...
Preprint
p> Lipids are a structurally diverse class of molecules, with important biological functions including cellular signaling and energy storage. Matrix-assisted laser desorption/ionization (MALDI) imaging mass spectrometry (IMS) allows for visualization of molecules directly from tissue, but has difficulty addressing the structural diversity of the li...
Preprint
div> Small metabolites are essential for normal and diseased biological function but are difficult to study because of their inherent structural complexity. MALDI imaging mass spectrometry (IMS) of small metabolites is particularly challenging as MALDI matrix clusters are often isobaric with metabolite ions, requiring high resolving power instrum...
Preprint
div> Small metabolites are essential for normal and diseased biological function but are difficult to study because of their inherent structural complexity. MALDI imaging mass spectrometry (IMS) of small metabolites is particularly challenging as MALDI matrix clusters are often isobaric with metabolite ions, requiring high resolving power instrum...
Article
Careful transfer of ions into the gas-phase permits the measurement of protein structures, with ion mobility-mass spectrometry, which provides shape and stoichiometry information. Collision cross sections (CCS) can be obtained from measurements made of the proteins mobility through a given gas, and such structural information once obtained should a...
Preprint
In this study we explore the use of collision cross section distributions to allow comparability of IM-MS data for proteins on different instruments. We present measurements on seven standard proteins across three IM-MS configurations, namely an Agilent 6560 IM QToF, a Waters Synapt G2 possessing a TWIMS cell and a modified Synapt G2 possessing an...
Preprint
Full-text available
div> The last few years have seen a dramatic increase in applications of native mass and ion mobility spectrometry, especially for the study of proteins and protein complexes. This increase has been catalysed by the availability of commercial instrumentation capable of carrying out such analyses. Like in most fields, however, the software to proce...
Preprint
Full-text available
p>Native mass spectrometry (MS) allows the interrogation of structural aspects of macromolecules in the gas phase, under the premise of having initially maintained their solution-phase non-covalent interactions intact. In the more than 25 years since the first reports, the utility of native MS has become well established in the structural biology c...
Article
Imaging mass spectrometry (IMS) enables the spatially targeted molecular assessment of biological tissues at cellular resolutions. New developments and technologies are essential for uncovering the molecular drivers of native physiological function and disease. Instrumentation must maximize spatial resolution, throughput, sensitivity, and specifici...
Article
Carbohydrates possess a variety of distinct features with stereochemistry playing a particularly important role in distinguishing their structure and function. Monosaccharide building blocks are defined by a high density of chiral centers. Additionally, the anomericity and regio-chemistry of the glycosidic linkages carry important biological inform...
Preprint
Imaging mass spectrometry (IMS) enables the spatially targeted molecular assessment of biological tissues at cellular resolutions. New developments and technologies are essential for uncovering the molecular drivers of native physiological function and disease. Instrumentation must maximize spatial resolution, throughput, sensitivity, and specifici...
Article
Full-text available
The global dimensions and amplitudes of conformational fluctuations of intrinsically disordered proteins are governed, in part, by the linear segregation versus clustering of oppositely charged residues within the primary sequence. Ion Mobility-Mass Spectrometry (IM-MS) affords unique advantages for probing the conformational consequences of the li...
Article
Full-text available
To quantify the measurable variations in the structure of a biopharmaceutical product we systematically evaluate three lots of Herceptin®, two mAb standards and an intact Fc-hinge fragment. Each mAb is examined in three states; glycan intact, truncated (following endoS2 treatment) and fully deglycosylated. Despite equivalence at the intact protein...
Article
Intrinsically disordered proteins have been reported to undergo ‘disorder to order’ transitions upon binding to their partners in the cell. The extent of the ordering on binding and the lack of order prior to binding is difficult to visualize with classical structure determination methods. Binding of p27 to the Cdk2/cyclin A complex is accompanied...
Article
Intrinsically disordered proteins have been reported to undergo ‘disorder to order’ transitions upon binding to their partners in the cell. The extent of the ordering on binding and the lack of order prior to binding is difficult to visualize with classical structure determination methods. Binding of p27 to the Cdk2/cyclin A complex is accompanied...
Preprint
The global dimensions and amplitudes of conformational fluctuations of intrinsically disordered proteins are governed, in part, by the linear segregation versus clustering of oppositely charged residues within the primary sequence. Ion Mobility-Mass Spectrometry (IM-MS) affords unique advantages for probing the conformational consequences of the li...
Preprint
Full-text available
Intrinsically disordered proteins have been reported to undergo ‘disorder to order’ transitions upon binding to their partners in the cell. The extent of the ordering on binding and the lack of order prior to binding is difficult to visualize with classical structure determination methods. Binding of p27 to the Cdk2/cyclin A complex is accompanied...
Preprint
p>To consider the measurable variations in biopharmaceuticals we use mass spectrometry and systematically evaluate three lots of Herceptin®, two mAb standards and an intact Fc-hinge fragment. Each mAb is examined in three states; glycan intact, truncated (following endoS2 treatment) and fully deglycosylated. Despite equivalence at the protein level...
Article
Desorption electrospray ionisation mass spectrometry is a surface analysis technique that can rapidly analyse the lipid and metabolite composition of a tissue section. By moving the tissue under the analysis probe, a chemical map of the sample can be generated in a matter of minutes. As has been shown in the literature 1,2, each tissue type or dise...
Chapter
A sizeable proportion of active protein sequences lack structural motifs making them irresolvable by NMR and crystallography. Such intrinsically disordered proteins (IDPs) or regions (IDRs) play a major role in biological mechanisms. They are often involved in cell regulation processes, and by extension can be the perpetrator or signifier of diseas...
Article
The early stages of fibril formation are difficult to capture in solution. We use cold ion spectroscopy to examine an 11-residue peptide derived from the protein transthyretin, and clusters of this fibre forming peptide containing up to five units in the gas phase. For each oligomer, the UV spectra exhibit distinct changes in the electronic environ...
Article
The early stages of fibril formation are difficult to capture in solution. We use cold ion spectroscopy to examine an 11-residue peptide derived from the protein transthyretin, and clusters of this fibre forming peptide containing up to five units in the gas phase. For each oligomer, the UV spectra exhibit distinct changes in the electronic environ...
Article
We present here a software suite (ORIGAMI) that facilitates the rapid acquisition and analysis of ion mobility data following collisional activation. ORIGAMI was developed for use on Waters Synapt instruments where data acquisition is achieved by interfacing WREnS (Waters Research Enabled Software) and MassLynx. Two components are presented, the fi...
Preprint
Full-text available
Molecular modelling is routinely employed to assign 3D structures to collision cross sections (CCSs) derived from ion mobility mass spectrometry experiments (IM-MS). The assignment of model structures to the experimental CCSs remains an ambiguous task, where one of several methods may be used to obtain a CCS from a given set of coordinates. The mos...
Preprint
Full-text available
We present here a software suite ( ORIGAMI ) that facilitates the rapid acquisition and analysis of ion mobility data following collisional activation. ORIGAMI was developed for use on Waters Synapt instruments where data acquisition is achieved by interfacing WREnS (Waters Research Enabled Software) and MassLynx. Two components are presented, the...
Article
The lack of robust, high-throughput and sensitive analytical strategies that can conclusively map the structure of glycans has significantly hampered progress in fundamental and applied aspects of glycoscience. Resolution of the anomeric α/β glycan linkage within oligosaccharides remains a particular challenge. Here, we show that ‘memory’ of anomer...
Article
Full-text available
Fdc1 is a decarboxylase enzyme that requires the novel prenylated FMN cofactor for activity. Here, we use it as an exemplar system to show how native top-down and bottom-up mass spectrometry can measure the structural effect of cofactor binding by a protein. For Fdc1 Ubix, the cofactor confers structural stability to the enzyme. IM-MS shows the hol...
Data
Supplementary Figures 1-8 and Supplementary Reference
Article
Background: Diverse varieties of often heterogeneous glycans are ubiquitous in nature. They play critical roles in recognition events, act as energy stores and provide structural stability at both molecular and cellular levels. Technologies capable of fully elucidating the structures of glycans are far behind the other '-omic' fields. Liquid chrom...
Article
Synthetic approaches to produce scaffolds that will act as efficient biosensors have been the subject of considerable research efforts in recent years. The preparation of host complexes which will specifically bind a given guest necessitates structural analysis of the potential complexes formed, as well as an assessment of the strength of the bindi...

Network

Cited By