cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Residue level description of In vivo self-association of Plasmodium falciparum P2
Creators: name: Mishra, Pushpa
name: Shobhona Sharma
name: Ramakrishna V. Hosur
Publisher: name: Taylor & Francis
Year: 2014
Subjects: Molecular Biology

description: Plasmodium falciparum P2 (PfP2) is a ribosomal stalk protein. It also performs extra ribosomal novel functions that seem to be associated with homo oligomerization . Previous in vitro studies have demonstrated that the protein has a high tendency to self-associate predominantly into an 8-mer. In vitro Heteronuclear Single Quantum Coherence (HSQC) of the pure recombinant protein (rPfP2) and its in-cell (Escherichia coli) HSQC spectrum has very similar features, indicating that the protein intrinsically, both inside the cell and under in vitro conditions, has similar aggregation tendencies. In view of this, we have characterized here the folding and concomitant self-association of rPfP2, using an in vitro dissociation–association strategy. We observed that the residue stretch, (Met31-Leu44) of the rPfP2, mapping to Met1-Leu14 of PfP2 protein acts as a nucleation site for helix formation and subsequent self-association. Further association appears to be driven by hydrophobic and complimentary electrostatic charge interactions on the surfaces formed. One stretch of rPfP2, (Ile97-Ala116), always remains floppy, and this may serve as “hinge” for protein segmental motions. Based on these, we have proposed a possible model for rPfP2 self-association into an 8-mer.
The use of soluble protein structures in modeling helical proteins in a layered membrane
Creators: name: Lee, Hong Wing
name: Lee, Hong Ching
name: Lee, Lawrence K.
name: Erdahl T. Teber
name: W. Bret Church
Publisher: name: Taylor & Francis
Year: 2013
Subjects: Molecular Biology

description: Major advances have been made in the prediction of soluble protein structures, led by the knowledge-based modeling methods that extract useful structural trends from known protein structures and incorporate them into scoring functions. The same cannot be reported for the class of transmembrane proteins, primarily due to the lack of high-resolution structural data for transmembrane proteins, which render many of the knowledge-based method unreliable or invalid. We have developed a method that harnesses the vast structural knowledge available in soluble protein data for use in the modeling of transmembrane proteins. At the core of the method, a set of transmembrane protein decoy sets that allow us to filter and train features recognized from soluble proteins for transmembrane protein modeling into a set of scoring functions. We have demonstrated that structures of soluble proteins can provide significant insight into transmembrane protein structures. A complementary novel two-stage modeling/selection process that mimics the two-stage helical membrane protein folding was developed. Combined with the scoring function, the method was successfully applied to model 5 transmembrane proteins. The root mean square deviations of the predicted models ranged from 5.0 to 8.8 Å to the native structures.
Exploring the structural features of Aspartate Trans Carbamoylase (TtATCase) from Thermus thermophilus HB8 through in silico approaches: a potential drug target for inborn error of pyrimidine metabolism
Creators: name: Kanagarajan, Surekha
name: Nachiappan Mutharasappan
name: Prabhu Dhamodharan
name: Muthukumaran Jeyaraman
name: Ramadas, Krishna
name: Jeyakanthan Jeyaraman
Publisher: name: Taylor & Francis
Year: 2014
Subjects: Molecular Biology

description: Enzymes involved in the pyrimidine biosynthesis pathway have become an important target for the pharmacological intervention. One among those enzymes, Aspartate Trans Carbamoylase (ATCase), catalyses the condensation of aspartate and carbamoyl phosphate to form N-carbamoyl-l-aspartate and inorganic phosphate. The present study provides the molecular insights into the enzyme ATCase. The three-dimensional structure of ATCase from Thermus thermophilus HB8 was modeled based on the crystal structure of ATCase in Pyrococcus abyssi (PDB ID:1ML4). Molecular dynamics simulation was performed to identify the conformational stability of TtATCase with and without its ligand complexes. Based on the pharmacokinetic properties and the glide-docking scores of ligands from four databases (Maybridge, Binding, Asinex and Technology for Organic Synthesis (TOS laboratory) for the screening of ligands, we identified four potential ligand molecules for TtATCase. From the molecular docking results, we proposed that the residues Thr53, Arg104, and Gln219 are consistently involved in strong hydrogen-bonding interactions and play a vital role in the TtATCase activity. From the results of molecular dynamics simulation, the ligand molecules are found to bind appropriately to the target enzyme. However, the structure of TtATCase needs to be determined experimentally to confirm this.
title: Early Complication Analysis of Dynamic Intraligamentary Stabilization versus Anterior Cruciate Ligament Reconstruction
Creators: name: Endreß, Frank
Publisher: name: Friedrich-Alexander-Universität Erlangen-Nürnberg (FAU)
Year: 2024

description: 1 Summary (German) Dynamische intraligamentäre Stabilisierung im Vergleich zur vorderen Kreuzbandersatzplastik – eine Bewertung der frühen postoperativen Ergeb nisse 1.1 Hintergrund und Ziele Sowohl die vordere Kreuzbandersatzplastik mit Semitendinosussehne (VKB-Er satz) als auch die dynamische intraligamentäre Stabilisierung (DIS, in unserer Studie: Ligamys®, Mathys, Bettlach, Schweiz) sind gängige Behandlungsmetho den bei einer Ruptur des vorderen Kreuzbandes. In dieser Studie werden klini sche Kurzzeitergebnisse, insbesondere frühe postoperative Komplikationen und deren Häufigkeitsverteilung, miteinander verglichen. 1.2 Methoden Die prospektive Studie wurde am akademischen Lehrkrankenhaus Kliniken Dr. Erler in Nürnberg durchgeführt. Es wurden 1148 Nachuntersuchungen aus einem Pool von 690 Patienten ausgewertet. Das durchschnittliche Patientenalter betrug 32 Jahre (Standardabweichung 11,1). Die Patienten wurden im Zeitraum von 2012 bis 2022 mittels VKB-Ersatzplastik oder Ligamys® versorgt und anschlie ßend nachuntersucht. 147 Patienten (21%) erhielten eine Ligamys®-Versorgung und 543 Patienten (79 %) eine VKB-Ersatzplastik. Die Patienten wurden zu Nachuntersuchungen jeweils 6 und 12 Wochen nach operativer Versorgung eingeladen. Alle Patienten, die an mindestens einer Nach untersuchung teilnahmen, wurden in die Studie einbezogen. Die standardisierten Nachuntersuchungen dienten dazu, frühzeitige Komplikati onen, insbesondere Instabilitäten, Bewegungseinschränkungen und Anzeichen einer beginnenden Arthrofibrose zu identifizieren, um eine zeitnahe operative Re vision indizieren zu können. Die entsprechenden Revisionsraten wurden analy siert. 1 Summary (German) 2 1.3 Ergebnisse und Beobachtungen Es wurden keine signifikanten Unterschiede zwischen Ligamys®- Versorgung und VKB-Ersatzplastik in Bezug auf äußere Entzündungszeichen wie Ergussbil dung, Schwellung, Rötung, Beinumfang sowie anteroposteriore Instabilitäten ge funden. Die klinische Diagnose einer Arthrofibrose wurde nach DIS deutlich häu figer gestellt als nach einer VKB-Rekonstruktion (4.8% vs. 1.3%; p=0.008). Die durchschnittliche Kniebeugung war nach DIS stärker eingeschränkt als nach VKB-Ersatz (110° vs. 124°, p<0,001). Obwohl das durchschnittliche Streckdefizit am operierten Kniegelenk überwiegend gering war (zwischen 1° und 5°), trat ein solches nach DIS im Vergleich zur VKB-Rekonstruktion (49,7 % vs. 24,5 %; p<0,001) häufiger auf. Die Revisionsrate betrug 9,1 %, wobei Patienten nach der Ligamys®-Versorgung signifikant häufiger betroffen waren (20,4% vs. 6,1%; p<0,001). Frauen waren häufiger betroffen als Männer (12,6% vs. 7,1%; p=0,015). 1.4 Schlussfolgerungen und Diskussion Unsere Ergebnisse zeigen ein signifikant höheres Risiko für postoperative Bewe gungseinschränkungen und Arthrofibrosen nach Ligamys® Versorgung im Ver gleich zur VKB-Ersatzplastik.
Residue level description of In vivo self-association of Plasmodium falciparum P2
Creators: name: Mishra, Pushpa
name: Shobhona Sharma
name: Ramakrishna V. Hosur
Publisher: name: Taylor & Francis
Year: 2013
Subjects: Molecular Biology

description: Plasmodium falciparum P2 (PfP2) is a ribosomal stalk protein. It also performs extra ribosomal novel functions that seem to be associated with homo oligomerization . Previous in vitro studies have demonstrated that the protein has a high tendency to self-associate predominantly into an 8-mer. In vitro Heteronuclear Single Quantum Coherence (HSQC) of the pure recombinant protein (rPfP2) and its in-cell (Escherichia coli) HSQC spectrum has very similar features, indicating that the protein intrinsically, both inside the cell and under in vitro conditions, has similar aggregation tendencies. In view of this, we have characterized here the folding and concomitant self-association of rPfP2, using an in vitro dissociation–association strategy. We observed that the residue stretch, (Met31-Leu44) of the rPfP2, mapping to Met1-Leu14 of PfP2 protein acts as a nucleation site for helix formation and subsequent self-association. Further association appears to be driven by hydrophobic and complimentary electrostatic charge interactions on the surfaces formed. One stretch of rPfP2, (Ile97-Ala116), always remains floppy, and this may serve as “hinge” for protein segmental motions. Based on these, we have proposed a possible model for rPfP2 self-association into an 8-mer.
title: Amantadine treatment is associated with improved consciousness in patients with non-traumatic brain injury
title: Die Behandlung mit Amantadin ist assoziiert mit verbessertem Bewusstsein bei Patienten mit nicht-traumatischer Hirnerkrankung
Creators: name: Rühl, Lena
Publisher: name: Friedrich-Alexander-Universität Erlangen-Nürnberg (FAU)
Year: 2024
Subjects: subject: Amantadin
subject: Bewusstseinsstörung

description: Anhaltende Bewusstseinsstörungen sind eine gefürchtete Folge von schweren akuten Hirnerkrankungen und behindern frühzeitige Rehabilitationsmaßnahmen. Die vorliegende Arbeit beschäftigt sich mit der Wirkung des Medikaments Amantadin auf prolongierte Bewusstseinsstörungen im Rahmen nicht-traumatischer Hirnerkrankungen. Es wurden Daten aus fünf Beobachtungsstudien über ischämischen Schlaganfall, intrazerebrale Blutung, Subarachnoidalblutung, Status epilepticus und ambulant erworbene bakterielle Meningitis zur Analyse herangezogen. Die Patienten wurden zwischen Januar 2012 und Dezember 2015 auf der neurologischen Intensivstation des Universitätsklinikums Erlangen behandelt und mindestens sieben Tage lang invasiv beatmet. Die Assoziation zwischen Amantadin-Gabe und Studienendpunkten wurde mittels multivariabler statistischer Modelle analysiert. Als primärer Studienendpunkt wurde die Verbesserung des Bewusstseins innerhalb von fünf Tagen nach Therapiebeginn festgelegt. Zu den sekundären Studienendpunkten zählten neben der Verbesserung des Bewusstseins zu verschiedenen Zeitpunkten auch das Auftreten von epileptischen Anfällen und Delir sowie die Gesamtmortalität an Tag 90 nach stationärer Aufnahme. Die Ergebnisse dieser Studie deuten darauf hin, dass Amantadin zu einer Bewusstseinsverbesserung bei Patienten mit nicht-traumatischer Hirnerkrankung führt
Accounting professional quality education and employment guidance
Creators: name: Bu, Hua
name: Chen, San-Wu
Publisher: name: Swinburne
Year: 2024

description: Under the new economic situation in China, employers put forward higher quality requirements to graduates. As a student who majors in accounting, in order to step into the society and work in the companies well, they should comprehensively improve the theoretical knowledge, professional skills and English proficiency and communication skills. In this paper, the initial exploration of accounting professional quality education and employment can specify the direction of professional education for the accounting department attached to school of management.
title: Einfluss der CT-Metallartefaktreduktion auf die SPECT/CT-Quantifizierung der Skelettszintigrafie – Retrospektive Studie für ausgewählte Arten von Metallimplantaten
Creators: name: Kugler, Amelie Charlotte
Publisher: name: Friedrich-Alexander-Universität Erlangen-Nürnberg (FAU)
Year: 2024

description: 10.1055/a-1883-9281
description: Implantierte Metallprothesen können schwere Artefakte in rekonstruierten Computertomographiebildern (CT) verursachen und so die Bildqualität und den diagnostischen Wert beeinträchtigen. Zudem werden die rekonstruierten CT-Bilder zur Korrektur der Photonenabschwächung bei der Einzelphotonen-Emissions Computertomographie (SPECT) verwendet. Um die diagnostischen Auswirkungen dieser Artefakte zu verringern und die Schwächungskorrektur zu verbessern, wurde ein Algorithmus zur iterativen Reduktion von Metallartefakten (iMAR) entwickelt, der seit einigen Jahren auch für SPECT/CT-Systeme verfügbar ist. Die Bedeutung dieses Algorithmus für die visuelle Interpretation von CT-Bildern ist bereits in mehreren Studien untersucht worden. Über den Einfluss von iMAR auf die Schwächungskorrektur von SPECT-Bildern ist jedoch nur sehr wenig bekannt. Ziel dieser Studie war es, (a) den Unterschied in der visuellen Bildqualität durch den Vergleich von CT- und SPECT-Bildern zu bewerten, die mit und ohne Verwendung von iMAR rekonstruiert wurden, und (b) den Einfluss von iMAR auf die quantitative 99mTc-Aufnahme und die quantitativ gemessenen Hounsfield-Einheiten (HU) in SPECT/CT zu bestimmen.
title: Structured light matter interactions at the micro- and nanoscale - Towards all-integrated nano-metrology and magneto-optical effects
Creators: name: Beck, Paul
Publisher: name: Friedrich-Alexander-Universität Erlangen-Nürnberg (FAU)
Year: 2024
Subjects: subject: Nano-Optics
subject: Integrated Photonics
subject: Metrology
subject: Localization

description: In this thesis, we theoretically and experimentally investigate two different areas of research in nano-optics, one focusing on making use of integrated photonics for the development of optical sensors, and the other one revolving around optical activity in its most general sense. Though appearing to be quite different, the physics underlying both projects are in large parts similar. To create a solid foundation, we first introduce the fundamentals of light-matter interaction, especially the generation of structured light in the paraxial and tightly focused regime, as well as the scattering of light by nanoscopic structures of different kind. The goal of the first project of this thesis, which is also the main one, is the development of an all-optical position sensor, capable of measuring displacements in two dimensions with a resolution of 7.2nm. The sensor, implemented on a silicon-on-insulator platform, relies on position-dependent directional coupling of light to photonic waveguides. Subsequently we present an approach to employ a similar platform to retrieve the intricate electromagnetic field and phase distribution of an arbitrary tightly focused beam. Moreover, we investigate different kinds of optical activity in its most general sense. We distinguish between geometrically induced optical activity, which is exhibited by chiral structures, and magneto-optical activity occurring in a certain class of materials upon application of an external magnetic field. In both cases, we make use of optical metasurfaces to resonantly enhance light-matter interaction. Owing to the intrinsic weakness of magneto-optical effects, the investigations of this type of optical activity are mostly of theoretical nature.
Modelling and analysis of early aggregation events of BMHP1-derived self-assembling peptides
Creators: name: Saracino, Gloria Anna Ada
name: Gelain, Fabrizio
Publisher: name: Taylor & Francis
Year: 2014
Subjects: Molecular Biology

description: Despite the increasing use and development of peptide-based scaffolds in different fields including that of regenerative medicine, the understanding of the factors governing the self-assembly process and the relationship between sequence and properties have not yet been fully understood. BMHP1-derived self-assembling peptides (SAPs) have been developed and characterized showing that biotinylation at the N-terminal cap corresponds to better performing assembly and scaffold biomechanics. In this study, the effects of biotinylation on the self-assembly dynamics of seven BMHP1-derived SAPs have been investigated by molecular dynamics simulations. We confirmed that these SAPs self-assemble into β-structures and that proline acts as a β-breaker of the assembled aggregates. In biotinylated peptides, the formation of ordered β-structured aggregates is triggered by both the establishment of a dense and dynamic H-bonds network and the formation of a ‘hydrophobic wall’ available to interact with other peptides. Such conditions result from the peculiar chemical composition of the biotinyl-cap, given by the synergic cooperation of the uracil function of the ureido ring with the high hydrophobic portion consisting of the thiophenyl ring and valeryl chain. The inbuilt propensity of biotinylated peptides towards the formation of ordered small aggregates makes them ideal precursors of higher hierarchically organized self-assembled nanostructures as experimentally observed.
title: Der Fachinformationsdienst für internationale und interdisziplinäre Rechtsforschung stellt sich vor
Creators: name: :None
Publisher: name: Fachinformationsdienst für internationale und interdisziplinäre Rechtsforschung
Year: 2022
Subjects: subject: 340

description: Der seit Januar 2014 von der Deutschen Forschungsgemeinschaft geförderte Fachinformationsdienst für internationale und interdisziplinäre Rechtsforschung löst an der Staatsbibliothek zu Berlin das Sondersammelgebiet Recht ab. Im nationalen System der Fachinformationsdienste für die Wissenschaft hat er die Funktion, die juristischen Forschungsaktivitäten an Universitäten und außeruniversitären Wissenschaftseinrichtungen in Deutschland mit nachfrageorientierten Informationsdienstleistungen zu unterstützen. Dabei orientiert er sich – insbesondere auch in Hinblick auf sein Erwerbungsprofil – an den Empfehlungen des Wissenschaftsrates zu den Perspektiven der Rechtswissenschaft in Deutschland, die vor allem auf die Aufwertung der juristischen Grundlagenfächer, die Förderung der Interdisziplinarität rechtswissenschaftlicher Forschung sowie deren stärkere Internationalisierung zielen. Seine Serviceangebote sind erreichbar via: https://vifa-recht.de/.
title: Kalzifikationen der Arteria carotis als medizinisch relevanter Nebenbefund der Panoramaschichtaufnahme im zahnärztlichen Alltag und deren Verifikation durch die digitale Volumentomographie
Creators: name: Schmid, Magdalena
Publisher: name: Friedrich-Alexander-Universität Erlangen-Nürnberg (FAU)
Year: 2024

description: Hintergrund und Ziele: Die Panoramaschichtaufnahme (PSA) ist ein in der Zahnmedizin häufig verwendetes bildgebendes Verfahren. Da die gesamte maxillofaziale Region inklusive angrenzender Strukturen im Halsbereich abgebildet werden, ergeben sich häufig Zufallsbefunde. Diese können über den rein zahnmedizinischen Tätigkeitsbereich hinausgehen. Hierbei verdienen verkalkte arteriosklerotische Läsionen der Halsschlagader besondere Aufmerksamkeit. Sie können bereits bei neurologisch asymptomatischen Patienten sichtbar sein. Diese Kalzifikation stellen oft die Ursache für einen Schlaganfall dar und haben so möglicherweise letale Folgen. Deshalb ist eine frühzeitige Diagnose in der PSA von Vorteil, um so Risikopatienten zu identifizieren und eine rechtzeitige Therapie einzuleiten. Diese Studie soll aufzeigen wie häufig Karotisverkalkungen (CAC) im Patientenklientel der Abteilung für Mund-, Kiefer- und Gesichtschirurgie, Universitätsklinikum Erlangen, Deutschland zu finden sind. Zudem wurden die Ergebnisse durch eine dreidimensionale Aufnahme überprüft. Der Fokus der Untersuchung lag hierbei in der Altersgruppe der über 60-Jährigen. Material und Methoden: In die Studie eingeschlossen wurden Patienten mit einem Mindestalter von 60 Jahren, die innerhalb eines Jahres sowohl eine PSA, als auch eine Digitale Volumentomographie (DVT) erhalten hatten (mittlere Differenz 39,5 ± 68,8 Tage). Das Durchschnittsalter der Patienten betrug 70,4 Jahre. In die retrospektive Analyse wurden n=710 Fälle aufgenommen, davon 49,3 % (n=350) männlich und 50,7 % (n=360) weiblich. Die DVT-Aufnahme diente dabei der Verifizierung des in der PSA erhobenen Befundes. Beobachtungen und Ergebnisse: Eine CAC war auf der PSA in 26,1 % der Fälle (n=185) zu erkennen. Die Frauen waren mit 23,3 % (n=84), die Männer mit 28,9 % (n=101) betroffen. Wie zu erwarten, zeigte sich mit 33,4 % (n=237) in den dreidimensionalen Aufnahmen eine höhere Prävalenz. Davon waren 40,9 % (n=143) der Fälle männlich und 26,1 % (n=94) weiblich. Ein statistisch signifikanter Einfluss des Geschlechts auf die Entdeckungsrate der CAC zeigte sich somit zwar für die dreidimensionale Aufnahme, allerdings nicht für die zweidimensionale Technik. In 76,1 % der Fälle zeigte sich eine Übereinstimmung der beiden Aufnahmetechniken. Allgemein wurde eine statistisch signifikante Korrelation zwischen Patientenalter und Diagnose einer CAC festgestellt. Schlussfolgerungen: Bei Patienten mit einem Alter von mehr als 60 Jahren sind Karotisverkalkungen ein häufiger Nebenbefund bei routinemäßig durchgeführten PSA. Die Ergebnisse zeigen den hohen Stellenwert der korrekten Befundung im zahnärztlichen Alltag. Aufgrund der breiten Verfügbarkeit und Frequenz der PSA kann so frühzeitig auf eine Kalzifikation aufmerksam gemacht und im Anschluss weitere diagnostische und therapeutische Schritte eingeleitet werden.
Computational properties of η6-toluene and η6-trifluorotoluene half-sandwich Ru(II) anticancer complexes
Creators: name: Adebayo A. Adeniyi
name: Ajibade, Peter A.
Publisher: name: Taylor & Francis
Year: 2014
Subjects: Molecular Biology

description: The computational properties of the η6-toluene and η6-trifluorotoluene half-sandwich Ru(II) anticancer complexes and their respective hydrated complexes are computed using DFT method and the quantum theory of atoms in a molecule (QTAIM) analysis. The interatomic properties that are crucial in understanding the noncovalent interactions and the stability of these complexes are considered. We observed that high polarization, charge transfer (CT) and strong networks of intramolecular hydrogen bond (HB) interactions significant influenced the stability of these complexes. The trifluorotoluene and the hydrated models are characterized with higher CT, polarizability, synergistic effect of ligand fragments, stronger and higher HB interactions that support their reported experimental anticancer activities and the mechanism of their activation by hydrolysis. The complexes are predominantly characterized with metal to ligand CT.
Exploring the structural features of Aspartate Trans Carbamoylase (TtATCase) from Thermus thermophilus HB8 through in silico approaches: a potential drug target for inborn error of pyrimidine metabolism
Creators: name: Kanagarajan, Surekha
name: Nachiappan Mutharasappan
name: Prabhu Dhamodharan
name: Muthukumaran Jeyaraman
name: Ramadas, Krishna
name: Jeyakanthan Jeyaraman
Publisher: name: Taylor & Francis
Year: 2013
Subjects: Molecular Biology

description: Enzymes involved in the pyrimidine biosynthesis pathway have become an important target for the pharmacological intervention. One among those enzymes, Aspartate Trans Carbamoylase (ATCase), catalyses the condensation of aspartate and carbamoyl phosphate to form N-carbamoyl-l-aspartate and inorganic phosphate. The present study provides the molecular insights into the enzyme ATCase. The three-dimensional structure of ATCase from Thermus thermophilus HB8 was modeled based on the crystal structure of ATCase in Pyrococcus abyssi (PDB ID:1ML4). Molecular dynamics simulation was performed to identify the conformational stability of TtATCase with and without its ligand complexes. Based on the pharmacokinetic properties and the glide-docking scores of ligands from four databases (Maybridge, Binding, Asinex and Technology for Organic Synthesis (TOS laboratory) for the screening of ligands, we identified four potential ligand molecules for TtATCase. From the molecular docking results, we proposed that the residues Thr53, Arg104, and Gln219 are consistently involved in strong hydrogen-bonding interactions and play a vital role in the TtATCase activity. From the results of molecular dynamics simulation, the ligand molecules are found to bind appropriately to the target enzyme. However, the structure of TtATCase needs to be determined experimentally to confirm this.
Using circuit simulator software in the study of electronic circuit behaviour
Creators: name: Banky, George
Publisher: name: Swinburne
Year: 2024

description: This paper reports on a pilot research project that investigated the use of a digital circuit simulation software, EasySim, in the study of digital electronics in the first year of an undergraduate engineering course. The ultimate aim of this research, to be completed in 2005, was to investigate the student experience with such software and its effect on one of their study outcomes (that is their exam results). Students were encouraged to use the tool during their normal learning activities. Those who used the software found it to be helpful. Statistical analysis of exam results for the pilot group of ten respondents indicated a strong relationship between the exam marks obtained and the time spent using the software.
title: Novel inhibitors of the transcriptional coactivator MRTF-A for tumor therapy
Creators: name: Franz, Miriam
Publisher: name: Friedrich-Alexander-Universität Erlangen-Nürnberg (FAU)
Year: 2024

description: Serum Response Factor (SRF) and its transcriptional coactivator Myocardin-related transcription factor A (MRTF-A) control fundamental biological processes such as cell proliferation and cell migration. They also play an important role in hepatocellular carcinoma (HCC) growth and senescence. Previously, we demonstrated that MRTF-A mediates tumorigenesis. Upon depletion or inhibition of MRTF-A HCC growth arrests due to induced oncogene-induced senescence. Since HCC is the second leading cause of cancer related mortality worldwide, new drugs are desperately needed. In this thesis, we identified new inhibitors, which are promising candidates for HCC treatment. We demonstrated that compound 5 inhibits the Transient Receptor Potential Cation Channel Subfamily M Member 7 (TRPM7), causing lower activation of RhoA. Upon nuclear export of MRTF-A, the reporter gene activity of SRF was significantly reduced resulting in lower expression of the target genes TSPAN5 and TGFβ1. The reduction of target gene expression than led to induced oncogene-induced senescence, a proliferation arrest and a lower ability for cell invasion. To further optimize the structure, we then synthesized new derivatives based on compound 5. A substitution of the structure in one specific orientation – orientation A -showed beneficial effects on the activity. We next synthesized additional variants orientated in direction A. In comparison to the lead structure NS8593, we were able to significantly lower the concentration needed. Compounds 14 and 16 caused a total proliferation arrest of the HCC cells by senescence induction. This was accompanied by the greatly reduced nuclear localization of MRTF-A and the strong reduction in SRF reporter gene activity. Because our newly designed structures can be used at significantly lower concentration compared to the lead structure, we found promising compounds for the treatment of HCC.
title: Eine “treue Hand” für schwere Zeiten
Creators: name: Tietje, Christian
name: Ruff, Darius
name: Borrmann, Tim
Publisher: name: Fachinformationsdienst für internationale und interdisziplinäre Rechtsforschung
Year: 2022
Subjects: subject: 342

description: Verfassungsblog: On Matters Constitutional
Identifying subset errors in multiple sequence alignments
Creators: name: Roy, Aparna
name: Bruck Taddese
name: Vohra, Shabana
name: Phani K. Thimmaraju
name: Illingworth, Christopher J.R.
name: Simpson, Lisa M.
name: Keya Mukherjee
name: Reynolds, Christopher A.
name: Sree V. Chintapalli
Publisher: name: Taylor & Francis
Year: 2014
Subjects: Molecular Biology

description: Multiple sequence alignment (MSA) accuracy is important, but there is no widely accepted method of judging the accuracy that different alignment algorithms give. We present a simple approach to detecting two types of error, namely block shifts and the misplacement of residues within a gap. Given a MSA, subsets of very similar sequences are generated through the use of a redundancy filter, typically using a 70–90% sequence identity cut-off. Subsets thus produced are typically small and degenerate, and errors can be easily detected even by manual examination. The errors, albeit minor, are inevitably associated with gaps in the alignment, and so the procedure is particularly relevant to homology modelling of protein loop regions. The usefulness of the approach is illustrated in the context of the universal but little known [K/R]KLH motif that occurs in intracellular loop 1 of G protein coupled receptors (GPCR); other issues relevant to GPCR modelling are also discussed.
title: Sprachevozierte auditorische Potentiale im Störgeräusch
Creators: name: Ilczyszyn, Kristyna
Publisher: name: Friedrich-Alexander-Universität Erlangen-Nürnberg (FAU)
Year: 2024

description: Akustisch evozierte Potentiale (AEP) werden erzeugt, sobald dem Gehörgangein akustischer Reiz dargeboten wird. Siespiegeln die neuronale Aktivität im Zusammenhang mit der Erkennung, Wahrnehmung und Unterscheidung eingehender Geräusche anhand ihres zeitlichen Ablaufs (Latenz)und ihrer Größe (Amplitude) auf der Ebene des primären auditorischen Kortex unddamit verbundener Bereiche des Temporallappens wider. Die neuronale Aktivität erzeugt im umgebendenHirngewebe eine Spannung, die über Elektroden an der Kopfoberfläche (EEG)aufgezeichnet werden kann. Akustisch evozierte Potentiale sind ein Maß für dievon den aktiven Neuronen gemeinsam erzeugte Spannung.Frühere Studien haben eine starkeKorrelation zwischen der Sprachwahrnehmung und den abgeleiteten kortikal akustischevozierten Potentialen (CAEP) als Reaktion auf Geräuschstimuli festgestellt. Sprachverstehen in schwierigen Hörumgebungen ist eine häufige Beschwerde von älterenMenschen und Patienten mit Hörminderung. Ziel dieser Studie ist die Auswirkungdes Signal-Rausch-Verhältnisses (signal-to-noise ratio, SNR) auf dieLatenz und Amplitude akustisch evozierter kortikaler Potentiale zu bestimmen und die Ableitbarkeit einzelnerElektroden zu überprüfen.
title: No fear of the impossible: defining a global legal history
Creators: name: Coutinho, Luisa
name: Sirotti, Raquel
name: Bogdandy, Luca
name: Guerra Pedrosa, Gilberto
name: Gonzales, Damian
name: Ku, Haochen
name: Li, Min
name: Heins, Maya
Publisher: name: Fachinformationsdienst für internationale und interdisziplinäre Rechtsforschung
Year: 2022
Subjects: subject: 340

description: How can you create a comprehensive global legal history without getting completely overwhelmed by the sheer enormity of it? The researchers of the Glocalising Normativities project explain how they use a reading group in order to seek this immense goal.
description: Legal History Insights
Molecular modeling of protein–protein interaction to decipher the structural mechanism of nonhost resistance in rice
Creators: name: Bahadur, Ranjit Prasad
name: Basak, Jolly
Publisher: name: Taylor & Francis
Year: 2014
Subjects: Molecular Biology

description: Nonhost resistance (NHR) is the most common and durable form of plant resistance to disease-causing organisms. A successful example of NHR is the cloning of a maize R gene Rxo1 in rice and validating its function in conferring bacterial streak resistance in transgenic rice lines. In order to understand the structural mechanism of NHR in rice, we built the model of the protein–protein interaction between the encoded Rxo1 (RXO1) and AvrRXO1 (avirulence protein of rice pathogen, Xanthomonas oryzae pv. oryzicola). Interestingly, although a RXO1 homolog in rice (RHR) is present, it does not interact with AvrRXO1 in nature. We have confirmed that the specificity of RXO1–AvrRXO1 interaction originates from the structured leucine rich repeat (LRR) domain of RXO1, facilitating the recognition process, while the absence of such ordered LRR region makes RHR unfavorable to recognize AvrRXO1. We postulate that the RXO1–AvrRXO1 complex formation is a three step process where electrostatic interactions, shape complementarity and short-range interactions play an important role. The presence of the structural and physicochemical properties essential for the protein–protein recognition process empowers RXO1 to mediate NHR, which the host protein RHR lacks and consequently loses its specificity to bind with AvrRXO1. To the best of our knowledge, this is the first report on the understanding of NHR in rice from the structural perspective of protein–protein interaction.
Connecting to Downstream Outputs: Field Station Experiences Self-Publishing Project Applications
Creators: name: Davies, Neil
name: Robinson, Erin
name: Hyde, Adam
Publisher: name: Zenodo
Year: 2024

description: This presentation shared iPlaces, a platform that allows field stations to self-publish project artifacts like descriptions, permits and reports for projects at the station.  iPlaces uses a familiar manuscript review process (with the Station director acting as editor) and the researchers as authors. iPlaces leverages Kotahi's flexible review mechanisms to introduce a way to layer ethical, legal, social, and scientific metadata to place-based projects and their subsequent outputs.  This presentation highlights the collaborative ecosystem, linking and building on various online services (e.g., ORCID, DataCite, iSamples, Local Contexts), facilitating their uptake by place-based institutions and projects.
title: SHORTS: Europarat mit Konstantin Kuhle
Creators: name: Schuberth, Sophie
name: Eschenhagen, Philipp
name: Lischewski, Isabel
name: Tuchtfeld, Erik
Publisher: name: Fachinformationsdienst für internationale und interdisziplinäre Rechtsforschung
Year: 2022
Subjects: subject: 341

description: Philipp spricht mit Konstantin Kuhle, MdB und Mitglied der parlamentarischen Versammlung des Europarates, über die Organisation und praktische Tätigkeit des Europarates. Konkret geht es um das Thema illegaler Parteienfinanzierung aus dem Ausland, zu dem der Europarat mit Kuhle als Rapporteur eine Resolution verabschiedet hat. Wir sprechen auch über die Rolle Russlands im Europarat, wobei die Folge noch vor dem Ausschluss Russlands aufgenommen wurde. Interview: Konstantin Kuhle & Philipp Eschenhagen Schnitt: Philipp Eschenhagen
description: Völkerrechtsblog
Interaction of YOYO-1 with guanine-rich DNA
Creators: name: Shohini Ghosh Datta
name: Reynolds, Christopher
name: Yugender K. Goud
name: Datta, Bhaskar
Publisher: name: Taylor & Francis
Year: 2014
Subjects: Molecular Biology

description: The oxazole homodimer YOYO-1 has served as a valuable tool for the detection and quantification of nucleic acids. While the base specificity and selectivity of binding of YOYO-1 has been researched to some extent, the effect of unorthodox nucleic acid conformations on dye binding has received relatively less attention. In this work, we attempt to correlate the quadruplex-forming ability of G-rich sequences with binding of YOYO-1. Oligonucleotides differing in the number of tandem G repeats, total length, and length of loop sequence were evaluated for their ability to form quadruplexes in presence of sodium (Na+) or potassium (K+) ions. The fluorescence behavior of YOYO-1 upon binding such G-rich sequences was also ascertained. A distinct correlation was observed between the strength and propensity of quadruplex formation, and the affinity of YOYO-1 to bind such sequences. Specifically, as exemplified by the oligonucleotides 5′-G4T2G4-3′ and 5′-G3TG3TG3-3′, sequences possessing longer G-rich regions and shorter loop sequences formed stronger quadruplexes in presence of K+ which translated to weaker binding of YOYO-1. The dependence of binding of YOYO-1 on sequence and structural features of G-rich DNA has not been explored previously and such studies are expected to aid in more effective interpretation of applications involving the fluorophore.
Collaborative development of multimedia courseware in geotechnical engineering education
Creators: name: Naidu, Som
name: Yuen, Samuel T. S.
name: Kodikara, Jayantha K.
Publisher: name: Swinburne
Year: 2024

description: This paper reports a collaborative courseware development project in geotechnical engineering,conducted by the University of Melbourne and Monash University in Australia. The project aimed at developing multimedia learning modules to be used by lecturers and students. Specific modules developed included videos in DVD format and self-learning programs in CD or webbased format. The topics included deep excavation (construction of a multi-level basement in thecity of Melbourne) and laboratory direct shear test. In a climate where student field excursions are becoming increasingly difficult owing to large class sizes and extensive occupational health and safety requirements, the former provides opportunities for students to gain a detailed understanding of a complex construction activity undertaken in an urban setting. On the otherhand, the laboratory module supplements limited hands-on laboratory experiments undertaken by students. The modules have been incorporated in elective subjects in geotechnical engineering and also presented as additional information in some other subjects. This paper describes the basis, project execution, and lessons learnt from the collaborative project. Finally, it gives a summary of an evaluation of the deep excavation module based on feedbacks received from a cohort of students. It is evident that students appreciate the availability of the modules, and perform arguably better in the respective subjects.
Molecular modeling of protein–protein interaction to decipher the structural mechanism of nonhost resistance in rice
Creators: name: Bahadur, Ranjit Prasad
name: Basak, Jolly
Publisher: name: Taylor & Francis
Year: 2013
Subjects: Molecular Biology

description: Nonhost resistance (NHR) is the most common and durable form of plant resistance to disease-causing organisms. A successful example of NHR is the cloning of a maize R gene Rxo1 in rice and validating its function in conferring bacterial streak resistance in transgenic rice lines. In order to understand the structural mechanism of NHR in rice, we built the model of the protein–protein interaction between the encoded Rxo1 (RXO1) and AvrRXO1 (avirulence protein of rice pathogen, Xanthomonas oryzae pv. oryzicola). Interestingly, although a RXO1 homolog in rice (RHR) is present, it does not interact with AvrRXO1 in nature. We have confirmed that the specificity of RXO1–AvrRXO1 interaction originates from the structured leucine rich repeat (LRR) domain of RXO1, facilitating the recognition process, while the absence of such ordered LRR region makes RHR unfavorable to recognize AvrRXO1. We postulate that the RXO1–AvrRXO1 complex formation is a three step process where electrostatic interactions, shape complementarity and short-range interactions play an important role. The presence of the structural and physicochemical properties essential for the protein–protein recognition process empowers RXO1 to mediate NHR, which the host protein RHR lacks and consequently loses its specificity to bind with AvrRXO1. To the best of our knowledge, this is the first report on the understanding of NHR in rice from the structural perspective of protein–protein interaction.
Binding of polarity-sensitive hydrophobic ligands to erythroid and nonerythroid spectrin: fluorescence and molecular modeling studies
Creators: name: Patra, Malay
name: Madhurima Mitra
name: Abhijit Chakrabarti
name: Chaitali Mukhopadhyay
Publisher: name: Taylor & Francis
Year: 2014
Subjects: Molecular Biology

description: We have used three polarity-sensitive fluorescence probes, 6-propionyl 2-(N,N-dimethyl-amino) naphthalene (Prodan), pyrene and 8-anilino 1-naphthalene sulphonic acid, to study their binding with erythroid and nonerythroid spectrin, using fluorescence spectroscopy. We have found that both bind to prodan and pyrene with high affinities with apparent dissociation constants (Kd) of .50 and .17 μM, for prodan, and .04 and .02 μM, for pyrene, respectively. The most striking aspect of these bindings have been that the binding stoichiometry have been equal to 1 in erythroid spectrin, both in dimeric and tetrameric form, and in tetrameric nonerythroid spectrin. From an estimate of apparent dielectric constants, the polarity of the binding site in both erythroid and nonerythroid forms have been found to be extremely hydrophobic. Thermodynamic parameters associated with such binding revealed that the binding is favored by positive change in entropy. Molecular docking studies alone indicate that both prodan and pyrene bind to the four major structural domains, following the order in the strength of binding to the Ankyrin binding domain > SH3 domain > Self-association domain > N-terminal domain of α-spectrin of both forms of spectrin. The binding experiments, particularly with the tetrameric nonerythroid spectrin, however, indicate more toward the self association domain in offering the unique binding site, since the binding stoichiometry have been 1 in all forms of dimeric and tetrameric spectrin, so far studied by us. Further studies are needed to characterize the hydrophobic binding sites in both forms of spectrin.
Identification of antagonists to the vasotocin receptor sub-type 4 (VT4R) involved in stress by molecular modelling and verification using anterior pituitary cells
Creators: name: Jayanthi, Srinivas
name: Kang, Seong Wook
name: Bingham, Daniel
name: Tessaro, Brian A.
name: Thallapuranam K. Suresh Kumar
name: Kuenzel, Wayne J.
Publisher: name: Taylor & Francis
Year: 2014
Subjects: Molecular Biology

description: The vasotocin receptor family is homologous to the mammalian vasopressin G-protein coupled receptor (GPCR) family. The vasotocin receptor 2 (VT2R) and 4 (VT4R) have recently been shown to play important role(s) in the neuroendocrine regulation of stress in birds. A homology-based structural model of VT4R of the domestic chicken, Gallus gallus, was built using the sophisticated SYBYL-X suite. The structure of VT4R built with and without extra- and intracellular unstructured loops showed a seven-helix transmembrane domain, which is a characteristic feature of GPCRs. Several agonists and antagonists were screened by molecular docking to map their potential binding sites on the structure of VT4R. Interestingly, the presence of the N-terminal, intracellular and extracellular loops and C-terminal amino acid sequences emerging from the transmembrane domains during molecular docking appeared to influence the binding interface of the peptide agonists and peptide/non-peptide antagonists on the VT4R. The presence of unstructured loops, however, did not affect the relative binding affinity ranking of the peptide antagonists to VT4R. In general, the natural ligand, arginine vasotocin and the peptide/non-peptide antagonists were observed to be more deeply buried in the receptor. Results of in vitro inhibition experiments, using cultured anterior pituitary cells, showed excellent agreement with the binding affinity of the antagonists predicted by molecular docking. The results of this study provide valuable clues for the rational design of novel pharmaceutical compounds capable of blocking or attenuating the stress response.
MPEC 2024-V48 : 2022 YE
Creators: name: Minor Planet Center Staff
Publisher: name: The Minor Planet Center
Year: 2024
Subjects: subject: Small Solar System bodies
valueUri: http://astrothesaurus.org/uat/1469

description: The Minor Planet Electronic Circulars contain information on unusual minor planets, routine data on comets and natural satellites, and occasional editorial announcements.  They are published on behalf of Division F of the International Astronomical Union by the Minor Planet Center, Smithsonian Astrophysical Observatory, Cambridge, MA 02138, U.S.A.
Good housekeeping: establishing an operationalisation baseline in the testing of transaction cognition entrepreneurship theory
Creators: name: Smith, J. Brock
name: Mitchell, Ronald K.
name: Pritchard, Mark
Publisher: name: Swinburne
Year: 2024

description: A transaction-cognition theory (TCT) has been proposed by (Mitchell 2003, 2001) as the potential foundation for a general theory of entrepreneurship. TCT focuses on the thought processes or cognitions that individuals need in order to create value and achieve superior results. Two central tenets of this theory are that: 1) three sets of knowledge structures, Planning, Promise, and Competition cognitions, are required to create a transaction and sustained transaction streams; and 2) three countervailing sets of knowledge structures, fatalism, refusal, and dependency cognitions limit the ability to complete transactions and achieve superior economic performance. The study explores preliminary measures of fatalism, refusal, and dependency cognitions and their impact on intention to venture. In doing so it provides the first empirical investigation of the TCT countervailing tenet, contributing to the development of the theory.
title: Darf ein Abkommen der EU mit Marokko auf das umstrittene Gebiet der Westsahara angewendet werden?: Update
Creators: name: Giegerich, Thomas
name: Küchler, Helen
Publisher: name: Fachinformationsdienst für internationale und interdisziplinäre Rechtsforschung
Year: 2016
Subjects: subject: 340

description: Saar Briefs
Zebra: a web server for bioinformatic analysis of diverse protein families
Creators: name: Suplatov, Dmitry
name: Kirilin, Evgeny
name: Vakil Takhaveev
name: Švedas, Vytas
Publisher: name: Taylor & Francis
Year: 2014
Subjects: Molecular Biology

description: During evolution of proteins from a common ancestor, one functional property can be preserved while others can vary leading to functional diversity. A systematic study of the corresponding adaptive mutations provides a key to one of the most challenging problems of modern structural biology – understanding the impact of amino acid substitutions on protein function. The subfamily-specific positions (SSPs) are conserved within functional subfamilies but are different between them and, therefore, seem to be responsible for functional diversity in protein superfamilies. Consequently, a corresponding method to perform the bioinformatic analysis of sequence and structural data has to be implemented in the common laboratory practice to study the structure–function relationship in proteins and develop novel protein engineering strategies. This paper describes Zebra web server – a powerful remote platform that implements a novel bioinformatic analysis algorithm to study diverse protein families. It is the first application that provides specificity determinants at different levels of functional classification, therefore addressing complex functional diversity of large superfamilies. Statistical analysis is implemented to automatically select a set of highly significant SSPs to be used as hotspots for directed evolution or rational design experiments and analyzed studying the structure–function relationship. Zebra results are provided in two ways – (1) as a single all-in-one parsable text file and (2) as PyMol sessions with structural representation of SSPs. Zebra web server is available at http://biokinet.belozersky.msu.ru/zebra.