@article{BauerHeinrichVillasmuntaetal.2025, author = {Bauer, Joachim and Heinrich, Friedhelm and Villasmunta, Francesco and Villringer, Claus and Reck, Johanna and Peters, Sven and Treffer, Alexander and Kuhnt, Christian and Marschmeyer, Steffen and Fursenko, Oksana and Stolarek, David and Mai, Andreas and Regehly, Martin}, title = {Reflectometric method for measuring residual oxides in through-silicon vias for 3D chip integration}, series = {Optics Express}, volume = {33}, journal = {Optics Express}, number = {15}, publisher = {Optica}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:526-opus4-20633}, pages = {32175 -- 32189}, year = {2025}, abstract = {A significant aspect of fabricating 3D chip architectures is ensuring proper contact between the different layers of the chip, which often requires removing the underside of isolation layers before filling vias with conductive material. Currently, scanning electron microscopy is the established method for investigating such structures. In this paper, we propose a rapid, non-destructive optical analysis technique for the simultaneous measurement of through-silicon vias (TSV) depths, silicon wafer thickness, and residual oxide thickness. The proposed method utilizes Fourier peak shift analysis (FPSA) of reflectance measurements in the near-infrared (1200 nm—2200 nm) spectral regions. The application of FPSA to representative samples taken from a commercial TSV integration process for MEMS and CMOS fabrication demonstrated good agreement with reference scanning electron microscopy measurements, confirming the feasibility of the method for in-line and in-situ metrology. The results indicate that FPSA has great potential for real-time process monitoring and control during 3D chip manufacturing.}, language = {en} } @article{HollandMoritzVandenhouten2013, author = {Holland-Moritz, Ralph and Vandenhouten, Ralf}, title = {Detection of Movement Profiles in Facility Management Using Complex Event Processing}, series = {International Journal of Information Science}, volume = {3}, journal = {International Journal of Information Science}, number = {1}, issn = {2163-193X}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:526-opus4-9495}, pages = {7 -- 12}, year = {2013}, abstract = {This paper presents a solution for detecting movement and spreading profiles by analyzing sensor data in the facility management. First of all, a scenario is defined and described. On the basis of this scenario an approach is made using integration of events over time and location. For making the integration possible the required information, which the data objects have to provide, is identified. At the end a solution is presented using Complex Event Processing to implement the integration of events.}, language = {en} } @article{BalabanovWilhelmVenzetal.2013, author = {Balabanov, Stefan and Wilhelm, Thomas and Venz, Simone and Keller, Gunhild and Scharf, Christian and Pospisil, Heike and Braig, Melanie and Barett, Christine and Bokemeyer, Carsten and Walther, Reinhard and Br{\"u}mmendorf, Tim H. and Schuppert, Andreas}, title = {Combination of a Proteomics Approach and Reengineering of Meso Scale Network Models for Prediction of Mode-of-Action for Tyrosine Kinase Inhibitors}, series = {PLoS ONE}, volume = {8}, journal = {PLoS ONE}, number = {1}, issn = {1932-6203}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:526-opus4-6370}, pages = {14}, year = {2013}, abstract = {In drug discovery, the characterisation of the precise modes of action (MoA) and of unwanted off-target effects of novel molecularly targeted compounds is of highest relevance. Recent approaches for identification of MoA have employed various techniques for modeling of well defined signaling pathways including structural information, changes in phenotypic behavior of cells and gene expression patterns after drug treatment. However, efficient approaches focusing on proteome wide data for the identification of MoA including interference with mutations are underrepresented. As mutations are key drivers of drug resistance in molecularly targeted tumor therapies, efficient analysis and modeling of downstream effects of mutations on drug MoA is a key to efficient development of improved targeted anti-cancer drugs. Here we present a combination of a global proteome analysis, reengineering of network models and integration of apoptosis data used to infer the mode-of-action of various tyrosine kinase inhibitors (TKIs) in chronic myeloid leukemia (CML) cell lines expressing wild type as well as TKI resistance conferring mutants of BCR-ABL. The inferred network models provide a tool to predict the main MoA of drugs as well as to grouping of drugs with known similar kinase inhibitory activity patterns in comparison to drugs with an additional MoA. We believe that our direct network reconstruction approach, demonstrated on proteomics data, can provide a complementary method to the established network reconstruction approaches for the preclinical modeling of the MoA of various types of targeted drugs in cancer treatment. Hence it may contribute to the more precise prediction of clinically relevant on- and off-target effects of TKIs.}, language = {en} } @article{ThiemannFuSeifertetal.2014, author = {Thiemann, Alexander and Fu, Junjie and Seifert, Felix and Grant-Downton, Robert T and Schrag, Tobias A and Pospisil, Heike and Frisch, Matthias and Melchinger, Albrecht E and Scholten, Stefan}, title = {Genome-wide meta-analysis of maize heterosis reveals the potential role of additive gene expression at pericentromeric loci}, series = {BMC Plant Biology}, volume = {14}, journal = {BMC Plant Biology}, number = {88}, issn = {1471-2229}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:526-opus4-5999}, pages = {14}, year = {2014}, abstract = {The identification of QTL involved in heterosis formation is one approach to unravel the not yet fully understood genetic basis of heterosis - the improved agronomic performance of hybrid F1 plants compared to their inbred parents. The identification of candidate genes underlying a QTL is important both for developing markers and determining the molecular genetic basis of a trait, but remains difficult owing to the large number of genes often contained within individual QTL. To address this problem in heterosis analysis, we applied a meta-analysis strategy for grain yield (GY) of Zea mays L. as example, incorporating QTL-, hybrid field-, and parental gene expression data.}, language = {en} } @article{UmmanniMundtPospisiletal.2011, author = {Ummanni, Ramesh and Mundt, Frederike and Pospisil, Heike and Venz, Simone and Scharf, Christian and Barett, Christine and F{\"a}lth, Maria and K{\"o}llermann, Jens and Walther, Reinhard and Schlomm, Thorsten and Sauter, Guido and Bokemeyer, Carsten and S{\"u}ltmann, Holger and Schuppert, Andreas and Br{\"u}mmendorf, Tim H. and Balabanov, Stefan}, title = {Identification of Clinically Relevant Protein Targets in Prostate Cancer with 2D-DIGE Coupled Mass Spectrometry and Systems Biology Network Platform}, series = {PLoS ONE}, volume = {6}, journal = {PLoS ONE}, number = {2}, issn = {1932-6203}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:526-opus4-6432}, pages = {14}, year = {2011}, abstract = {Prostate cancer (PCa) is the most common type of cancer found in men and among the leading causes of cancer death in the western world. In the present study, we compared the individual protein expression patterns from histologically characterized PCa and the surrounding benign tissue obtained by manual micro dissection using highly sensitive two-dimensional differential gel electrophoresis (2D-DIGE) coupled with mass spectrometry. Proteomic data revealed 118 protein spots to be differentially expressed in cancer (n = 24) compared to benign (n = 21) prostate tissue. These spots were analysed by MALDI-TOF-MS/MS and 79 different proteins were identified. Using principal component analysis we could clearly separate tumor and normal tissue and two distinct tumor groups based on the protein expression pattern. By using a systems biology approach, we could map many of these proteins both into major pathways involved in PCa progression as well as into a group of potential diagnostic and/or prognostic markers. Due to complexity of the highly interconnected shortest pathway network, the functional sub networks revealed some of the potential candidate biomarker proteins for further validation. By using a systems biology approach, our study revealed novel proteins and molecular networks with altered expression in PCa. Further functional validation of individual proteins is ongoing and might provide new insights in PCa progression potentially leading to the design of novel diagnostic and therapeutic strategies.}, language = {en} } @article{StandfussPospisilKlein2012, author = {Standfuß, Christoph and Pospisil, Heike and Klein, Andreas}, title = {SNP microarray analyses reveal copy number alterations and progressive genome reorganization during tumor development in SVT/t driven mice breast cancer}, series = {BMC Cancer}, volume = {12}, journal = {BMC Cancer}, number = {380}, issn = {1471-2407}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:526-opus4-6414}, pages = {15}, year = {2012}, abstract = {Tumor development is known to be a stepwise process involving dynamic changes that affect cellular integrity and cellular behavior. This complex interaction between genomic organization and gene, as well as protein expression is not yet fully understood. Tumor characterization by gene expression analyses is not sufficient, since expression levels are only available as a snapshot of the cell status. So far, research has mainly focused on gene expression profiling or alterations in oncogenes, even though DNA microarray platforms would allow for high-throughput analyses of copy number alterations (CNAs).}, language = {en} } @article{KleinPospisil2014, author = {Klein, Andreas and Pospisil, Heike}, title = {Gene Expression Profiling of Pancreatic Cancer Reveals a Significant Deregulation of the TGF-β Pathway and the Discovery of Genes for Prognosis}, series = {Global Journal of Human Genetics \& Gene Therapy}, volume = {2}, journal = {Global Journal of Human Genetics \& Gene Therapy}, number = {1}, issn = {2311-0309}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:526-opus4-6519}, pages = {30 -- 39}, year = {2014}, abstract = {We have re-analyzed previously published gene expression data from ninety-four pancreatic ductal adenocarcinomas (PDAC) samples. We determined the gene expression profile of genes differentially expressed in PDAC compared to non-malignant pancreatic tissue. Using the 100 top-ranked genes, we were able to discriminate between PDAC and non-malignant pancreatic tissue. A hierarchical cluster analysis revealed only a 6 \% false discovery rate. The prognostic strength of these discriminative genes was underscored by a SVM classification and 3-fold cross validation with an 89 \% correct class assignment. The annotation of the 100 top-ranked genes revealed that most of the genes were involved in the processes of signal transduction, cell adhesion, extracellular matrix organization and cell migration. The most greatly affected signal cascade was the transforming growth factor β receptor signaling pathway, which was significantly enriched in the top-ranked genes. Furthermore, we identified eleven genes that were associated with good prognosis.}, language = {en} } @article{HannemannMeyerStaecklingKemmingetal.2011, author = {Hannemann, Juliane and Meyer-Staeckling, S{\"o}nke and Kemming, Dirk and Alpers, Iris and Joosse, Simon A. and Pospisil, Heike and Kurtz, Stefan and G{\"o}rndt, Jennifer and P{\"u}schel, Klaus and Riethdorf, Sabine and Pantel, Klaus and Brandt, Burkhard}, title = {Quantitative High-Resolution Genomic Analysis of Single Cancer Cells}, series = {PLoS ONE}, volume = {6}, journal = {PLoS ONE}, number = {11}, issn = {1932-6203}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:526-opus4-6426}, pages = {6}, year = {2011}, abstract = {During cancer progression, specific genomic aberrations arise that can determine the scope of the disease and can be used as predictive or prognostic markers. The detection of specific gene amplifications or deletions in single blood-borne or disseminated tumour cells that may give rise to the development of metastases is of great clinical interest but technically challenging. In this study, we present a method for quantitative high-resolution genomic analysis of single cells. Cells were isolated under permanent microscopic control followed by high-fidelity whole genome amplification and subsequent analyses by fine tiling array-CGH and qPCR. The assay was applied to single breast cancer cells to analyze the chromosomal region centred by the therapeutical relevant EGFR gene. This method allows precise quantitative analysis of copy number variations in single cell diagnostics.}, language = {en} } @article{SilbermannWernickePospisiletal.2013, author = {Silbermann, Jascha and Wernicke, Catrin and Pospisil, Heike and Frohme, Marcus}, title = {RefPrimeCouch—a reference gene primer CouchApp}, series = {Database: The Journal of Biological Databases and Curation}, volume = {2013}, journal = {Database: The Journal of Biological Databases and Curation}, issn = {1758-0463}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:526-opus4-6330}, pages = {8}, year = {2013}, abstract = {To support a quantitative real-time polymerase chain reaction standardization project, a new reference gene database application was required. The new database application was built with the explicit goal of simplifying not only the development process but also making the user interface more responsive and intuitive. To this end, CouchDB was used as the backend with a lightweight dynamic user interface implemented client-side as a one-page web application. Data entry and curation processes were streamlined using an OpenRefine-based workflow. The new RefPrimeCouch database application provides its data online under an Open Database License.}, language = {en} } @article{DuscharlaBhumireddyLakshettietal.2016, author = {Duscharla, Divya and Bhumireddy, Sudarshana Reddy and Lakshetti, Sridhar and Pospisil, Heike and Murthy, P. V. L. N. and Walther, Reinhard and Sripadi, Prabhakar and Ummanni, Ramesh}, title = {Prostate Cancer Associated Lipid Signatures in Serum Studied by ESI-Tandem Mass Spectrometryas Potential New Biomarkers}, series = {PLoS ONE}, volume = {11}, journal = {PLoS ONE}, number = {3}, issn = {1932-6203}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:526-opus4-5863}, pages = {21}, year = {2016}, abstract = {Prostate cancer (PCa) is one amongst the most common cancersin western men. Incidence rate ofPCa is on the rise worldwide. The present study deals with theserum lipidome profiling of patients diagnosed with PCa to identify potential new biomarkers. We employed ESI-MS/MS and GC-MS for identification of significantly altered lipids in cancer patient's serum compared to controls. Lipidomic data revealed 24 lipids are significantly altered in cancer patinet's serum (n = 18) compared to normal (n = 18) with no history of PCa. By using hierarchical clustering and principal component analysis (PCA) we could clearly separate cancer patients from control group. Correlation and partition analysis along with Formal Concept Analysis (FCA) have identified that PC (39:6) and FA (22:3) could classify samples with higher certainty. Both the lipids, PC (39:6) and FA (22:3) could influence the cataloging of patients with 100\% sensitivity (all 18 control samples are classified correctly) and 77.7\% specificity (of 18 tumor samples 4 samples are misclassified) with p-value of 1.612×10-6 in Fischer's exact test. Further, we performed GC-MS to denote fatty acids altered in PCa patients and found that alpha-linolenic acid (ALA) levels are altered in PCa. We also performed an in vitro proliferation assay to determine the effect of ALA in survival of classical human PCa cell lines LNCaP and PC3. We hereby report that the altered lipids PC (39:6) and FA (22:3) offer a new set of biomarkers in addition to the existing diagnostic tests that could significantly improve sensitivity and specificity in PCa diagnosis.}, language = {en} } @article{GladischSarauliSchaeferetal.2016, author = {Gladisch, Johannes and Sarauli, David and Sch{\"a}fer, Daniel and Dietzel, Birgit and Schulz, Burkhard and Lisdat, Fred}, title = {Towards a novel bioelectrocatalytic platform based on "wiring" of pyrroloquinoline quinone-dependent glucose dehydrogenase with an electrospun conductive polymeric fiber architecture}, series = {Scientific Reports}, volume = {6}, journal = {Scientific Reports}, issn = {2045-2322}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:526-opus4-5846}, pages = {10}, year = {2016}, abstract = {Electrospinning is known as a fabrication technique for electrode architectures that serve as immobilization matrices for biomolecules. The current work demonstrates a novel approach to construct a conductive polymeric platform, capable not only of immobilization, but also of electrical connection of the biomolecule with the electrode. It is produced upon electrospinning from mixtures of three different highly conductive sulfonated polyanilines and polyacrylonitrile on ITO electrodes. The resulting fiber mats are with a well-retained conductivity. After coupling the enzyme pyrroloquinoline quinone-dependent glucose dehydrogenase (PQQ-GDH) to polymeric structures and addition of the substrate glucose an efficient bioelectrocatalysis is demonstrated. Depending on the choice of the sulfonated polyanilline mediatorless bioelectrocatalysis starts at low potentials; no large overpotential is needed to drive the reaction. Thus, the electrospun conductive immobilization matrix acts here as a transducing element, representing a promising strategy to use 3D polymeric scaffolds as wiring agents for active enzymes. In addition, the mild and well reproducible fabrication process and the active role of the polymer film in withdrawing electrons from the reduced PQQ-GDH lead to a system with high stability. This could provide access to a larger group of enzymes for bioelectrochemical applications including biosensors and biofuel cells.}, language = {en} } @article{SeifertThiemannPospisiletal.2012, author = {Seifert, Felix and Thiemann, Alexander and Pospisil, Heike and Scholten, Stefan}, title = {Re-annotation of the maize oligonucleotide array}, series = {Maydica}, volume = {57}, journal = {Maydica}, number = {1}, issn = {0025-6153}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:526-opus4-6178}, pages = {49 -- 55}, year = {2012}, abstract = {The microarray technology has become an established approach for large-scale gene expression analysis with mature protocols for sample, microarray, and data processing. The maize oligonucleotide array (maizearray) is one of the few microarray platforms designed for genome-wide gene expression analysis in Zea mays L. Many datas-ets addressing various genetic, physiological and developmental topics generated with this platform are available. The original 57,452 microarray probes were compiled based on expressed sequence tags (ESTs). Meanwhile the maize genome sequence became available providing the possibility for an improved annotation of the microar-ray probe set. In this study we determined the genome positions of all maizearray probes to obtain current gene annotations and generated current Gene Ontology (GO) annotations. These new data allow tracing redundancy of the probe set and interfering cross-hybridizations, and doubled the number of genes with functional GO data. Our re-annotation will largely improve the functional analysis of available and future datasets generated on this microarray platform.}, language = {en} } @article{MarczokBortzWangetal.2016, author = {Marczok, Stefanie and Bortz, Birgit and Wang, Chong and Pospisil, Heike}, title = {Comprehensive Analysis of Genome Rearrangements in Eight Human Malignant Tumor Tissues}, series = {PLoS ONE}, volume = {11}, journal = {PLoS ONE}, number = {7}, issn = {1932-6203}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:526-opus4-6607}, pages = {18}, year = {2016}, abstract = {Carcinogenesis is a complex multifactorial, multistage process, but the precise mechanisms are not well understood. In this study, we performed a genome-wide analysis of the copy number variation (CNV), breakpoint region (BPR) and fragile sites in 2,737 tumor samples from eight tumor entities and in 432 normal samples. CNV detection and BPR identification revealed that BPRs tended to accumulate in specific genomic regions in tumor samples whereas being dispersed genome-wide in the normal samples. Hotspots were observed, at which segments with similar alteration in copy number were overlapped along with BPRs adjacently clustered. Evaluation of BPR occurrence frequency showed that at least one was detected in about and more than 15\% of samples for each tumor entity while BPRs were maximal in 12\% of the normal samples. 127 of 2,716 tumor-relevant BPRs (termed 'common BPRs') exhibited also a noticeable occurrence frequency in the normal samples. Colocalization assessment identified 20,077 CNV-affecting genes and 169 of these being known tumor-related genes. The most noteworthy genes are KIAA0513 important for immunologic, synaptic and apoptotic signal pathways, intergenic non-coding RNA RP11-115C21.2 possibly acting as oncogene or tumor suppressor by changing the structure of chromatin, and ADAM32 likely importance in cancer cell proliferation and progression by ectodomain-shedding of diverse growth factors, and the well-known tumor suppressor gene p53. The BPR distributions indicate that CNV mutations are likely non-random in tumor genomes. The marked recurrence of BPRs at specific regions supports common progression mechanisms in tumors. The presence of hotspots together with common BPRs, despite its small group size, imply a relation between fragile sites and cancer-gene alteration. Our data further suggest that both protein-coding and non-coding genes possessing a range of biological functions might play a causative or functional role in tumor biology. This research enhances our understanding of the mechanisms for tumorigenesis and progression.}, language = {en} } @article{PfeilSiptrothPospisiletal.2023, author = {Pfeil, Juliane and Siptroth, Julienne and Pospisil, Heike and Frohme, Marcus and Hufert, Frank T. and Moskalenko, Olga and Yateem, Murad and Nechyporenko, Alina}, title = {Classification of Microbiome Data from Type 2 Diabetes Mellitus Individuals with Deep Learning Image Recognition}, series = {Big Data and Cognitive Computing}, volume = {7}, journal = {Big Data and Cognitive Computing}, number = {1}, publisher = {MDPI}, issn = {2504-2289}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:526-opus4-17184}, year = {2023}, abstract = {Microbiomic analysis of human gut samples is a beneficial tool to examine the general well-being and various health conditions. The balance of the intestinal flora is important to prevent chronic gut infections and adiposity, as well as pathological alterations connected to various diseases. The evaluation of microbiome data based on next-generation sequencing (NGS) is complex and their interpretation is often challenging and can be ambiguous. Therefore, we developed an innovative approach for the examination and classification of microbiomic data into healthy and diseased by visualizing the data as a radial heatmap in order to apply deep learning (DL) image classification. The differentiation between 674 healthy and 272 type 2 diabetes mellitus (T2D) samples was chosen as a proof of concept. The residual network with 50 layers (ResNet-50) image classification model was trained and optimized, providing discrimination with 96\% accuracy. Samples from healthy persons were detected with a specificity of 97\% and those from T2D individuals with a sensitivity of 92\%. Image classification using DL of NGS microbiome data enables precise discrimination between healthy and diabetic individuals. In the future, this tool could enable classification of different diseases and imbalances of the gut microbiome and their causative genera.}, language = {en} } @article{SiptrothMoskalenkoKrumbiegeletal.2023, author = {Siptroth, Julienne and Moskalenko, Olga and Krumbiegel, Carsten and Ackermann, J{\"o}rg and Koch, Ina and Pospisil, Heike}, title = {Variation of butyrate production in the gut microbiome in type 2 diabetes patients}, series = {International Microbiology}, volume = {26}, journal = {International Microbiology}, publisher = {Springer Nature}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:526-opus4-17802}, pages = {601 -- 610}, year = {2023}, abstract = {Background Diabetes mellitus type 2 is a common disease that poses a challenge to the healthcare system. The disease is very often diagnosed late. A better understanding of the relationship between the gut microbiome and type 2 diabetes can support early detection and form an approach for therapies. Microbiome analysis offers a potential opportunity to find markers for this disease. Next-generation sequencing methods can be used to identify the bacteria present in the stool sample and to generate a microbiome profile through an analysis pipeline. Statistical analysis, e.g., using Student's t-test, allows the identification of significant differences. The investigations are not only focused on single bacteria, but on the determination of a comprehensive profile. Also, the consideration of the functional microbiome is included in the analyses. The dataset is not from a clinical survey, but very extensive. Results By examining 946 microbiome profiles of diabetes mellitus type 2 sufferers (272) and healthy control persons (674), a large number of significant genera (25) are revealed. It is possible to identify a large profile for type 2 diabetes disease. Furthermore, it is shown that the diversity of bacteria per taxonomic level in the group of persons with diabetes mellitus type 2 is significantly reduced compared to a healthy control group. In addition, six pathways are determined to be significant for type 2 diabetes describing the fermentation to butyrate. These parameters tend to have high potential for disease detection. Conclusions With this investigation of the gut microbiome of persons with diabetes type 2 disease, we present significant bacteria and pathways characteristic of this disease.}, language = {en} } @article{SiptrothMoskalenkoKrumbiegeletal.2023, author = {Siptroth, Julienne and Moskalenko, Olga and Krumbiegel, Carsten and Ackermann, J{\"o}rg and Koch, Ina and Pospisil, Heike}, title = {Investigation of metabolic pathways from gut microbiome analyses regarding type 2 diabetes mellitus using artificial neural networks}, series = {Discover Artificial Intelligence}, volume = {3}, journal = {Discover Artificial Intelligence}, number = {1}, publisher = {Springer Nature}, issn = {2731-0809}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:526-opus4-17497}, year = {2023}, abstract = {Background Type 2 diabetes mellitus is a prevalent disease that contributes to the development of various health issues, including kidney failure and strokes. As a result, it poses a significant challenge to the worldwide healthcare system. Research into the gut microbiome has enabled the identification and description of various diseases, with bacterial pathways playing a critical role in this context. These pathways link individual bacteria based on their biological functions. This study deals with the classification of microbiome pathway profiles of type 2 diabetes mellitus patients. Methods Pathway profiles were determined by next-generation sequencing of 16S rDNA from stool samples, which were subsequently assigned to bacteria. Then, the involved pathways were assigned by the identified gene families. The classification of type 2 diabetes mellitus is enabled by a constructed neural network. Furthermore, a feature importance analysis was performed via a game theoretic approach (SHapley Additive exPlanations). The study not only focuses on the classification using neural networks, but also on identifying crucial bacterial pathways. Results It could be shown that a neural network classification of type 2 diabetes mellitus and a healthy comparison group is possible with an excellent prediction accuracy. It was possible to create a ranking to identify the pathways that have a high impact on the model prediction accuracy. In this way, new associations between the alteration of, e.g. a biosynthetic pathway and the presence of diabetes mellitus type 2 disease can also be discovered. The basis is formed by 946 microbiome pathway profiles from diabetes mellitus type 2 patients (272) and healthy comparison persons (674). Conclusion With this study of the gut microbiome, we present an approach using a neural network to obtain a classification of healthy and type 2 diabetes mellitus and to identify the critical features. Intestinal bacteria pathway profiles form the basis.}, language = {en} } @book{OPUS4-1931, title = {Radlogistik: Grundlagen zu Logistik und Wirtschaftsverkehr mit Lasten- und Transportr{\"a}dern}, editor = {Assmann, Tom and B{\"u}rklen, Anna and Gruber, Johannes and Knese, Dennis and Mayregger, Patrick and Rudolph, Christian}, isbn = {978-3-658-44449-5}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:526-opus4-19318}, publisher = {Technische Hochschule Wildau}, year = {2024}, abstract = {Aus den Straßen europ{\"a}ischer St{\"a}dte sind sie kaum noch wegzudenken: Lasten- und Transportr{\"a}der. Im Personenverkehr sind sie f{\"u}r Eink{\"a}ufe und Kindertransporte bereits Standard, ebenso im Kuriersegment sowie der Paketzustellung. Besonders in der Logistik und im Wirtschaftsverkehr liegt noch ein sehr breit gef{\"a}chertes und ausdifferenziertes Einsatzpotenzial. Die Renaissance des Lastenrads als Transportmittel nimmt auch im gewerblichen Sektor an Bedeutung zu. Das Open Access-Buch bietet in dieser Form erstmals systematisch aufbereitetes Wissen f{\"u}r Praktiker in Wirtschaft, Politik und Verwaltung sowie f{\"u}r Studierende in den Bereichen Logistik und Verkehrsplanung. Zu den einzelnen Aspekten der Radlogistik (u. a. Fahrzeuge und Technik, gewerblicher Einsatz, logistischer Einsatz, Planung, Infrastrukturen, intermodale Einbindung, Best-Practice-Beispiele, Entwicklungstrends) haben national renommierte Wissenschaftler:innen Beitr{\"a}ge verfasst. Dieses Buch b{\"u}ndelt den aktuellen Wissensstand auf Basis von Forschungsergebnissen und stellt ihn kompakt und {\"u}bersichtlich dar.}, language = {de} } @article{HeroldRoedenbeck2025, author = {Herold, Marcel and Roedenbeck, Marc}, title = {AI-Driven Research in the Recruitment and Selection Process: Application of an AI Taxonomy With a Systematic Literature Review}, series = {SAGE Open}, volume = {15}, journal = {SAGE Open}, number = {3}, publisher = {Sage}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:526-opus4-20736}, year = {2025}, abstract = {A review of the literature on the application of artificial intelligence (AI) in the recruitment and selection process (RSP) was conducted, but no relevant studies were identified. While several reviews have focussed on AI in human resource management in general, none of these have examined the RSP in detail or employed an AI taxonomy for clustering. Consequently, we applied an AI taxonomy identified in the literature with the aim to identify the stages of the RSP in the focus of research and the algorithms mostly used. We conducted a systematic literature review underpinned by a concept matrix, complemented by a computational literature review (CLR), that employed natural language processing (NLP). The initial 4,579 studies were sourced from three databases and narrowed down to a total of 502. Our major findings indicate that the majority of studies were categorised under the stages "assessment \& selection" and "processing incoming applications" in the RSP. The predominant algorithms in use pertain to the field of NLP and machine learning. The CLR emphasised the significance of ethics in AI research. While our study has expanded the general AI taxonomy by incorporating an ethical perspective and is one of the studies with the most articles used to reflect this topic, it is solely focussing on describing the past. Nevertheless, this article helps to align research on exploring and testing alternative approaches with those most frequently used.}, language = {en} } @article{FeifelStiegerKappetal.2016, author = {Feifel, Sven Christian and Stieger, Kai Ralf and Kapp, Andreas and Weber, Dennis and Allegrozzi, Marco and Piccioli, Mario and Turano, Paola and Lisdat, Fred}, title = {Insights into Interprotein Electron Transfer of Human Cytochrome c Variants Arranged in Multilayer Architectures by Means of an Artificial Silica Nanoparticle Matrix}, series = {ACS Omega}, volume = {1}, journal = {ACS Omega}, number = {6}, issn = {2470-1343}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:526-opus4-6753}, pages = {1058 -- 1066}, year = {2016}, abstract = {The redox behavior of proteins plays a crucial part in the design of bioelectronic systems. We have demonstrated several functional systems exploiting the electron exchange properties of the redox protein cytochrome c (cyt c) in combination with enzymes and photoactive proteins. The operation is based on an effective reaction at modified electrodes but also to a large extent on the capability of self-exchange between cyt c molecules in a surface-fixed state. In this context, different variants of human cyt c have been examined here with respect to an altered heterogeneous electron transfer (ET) rate in a monolayer on electrodes as well as an enhanced self-exchange rate while being incorporated in multilayer architectures. For this purpose, mutants of the wild-type (WT) protein have been prepared to change the chemical nature of the surface contact area near the heme edge. The structural integrity of the variants has been verified by NMR and UV-vis measurements. It is shown that the single-point mutations can significantly influence the heterogeneous ET rate at thiol-modified gold electrodes and that electroactive protein/silica nanoparticle multilayers can be constructed with all forms of human cyt c prepared. The kinetic behavior of electron exchange for the mutant proteins in comparison with that of the WT has been found altered in some multilayer arrangements. Higher self-exchange rates have been found for K79A. The results demonstrate that the position of the introduced change in the charge situation of cyt c has a profound influence on the exchange behavior. In addition, the behavior of the cyt c variants in assembled multilayers is found to be rather similar to the situation of cyt c self-exchange in solution verified by NMR.}, language = {en} } @article{FeifelLisdat2011, author = {Feifel, Sven Christian and Lisdat, Fred}, title = {Silica nanoparticles for the layer-by-layer assembly of fully electro-active cytochrome c multilayers}, series = {Journal of Nanobiotechnology}, volume = {9}, journal = {Journal of Nanobiotechnology}, number = {59}, issn = {1477-3155}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:526-opus4-5819}, pages = {12}, year = {2011}, abstract = {For bioanalytical systems sensitivity and biomolecule activity are critical issues. The immobilization of proteins into multilayer systems by the layer-by-layer deposition has become one of the favorite methods with this respect. Moreover, the combination of nanoparticles with biomolecules on electrodes is a matter of particular interest since several examples with high activities and direct electron transfer have been found. Our study describes the investigation on silica nanoparticles and the redox protein cytochrome c for the construction of electro-active multilayer architectures, and the electron transfer within such systems. The novelty of this work is the construction of such artificial architectures with a non-conducting building block. Furthermore a detailed study of the size influence of silica nanoparticles is performed with regard to formation and electrochemical behavior of these systems.}, language = {en} }