12 results on '"Lange, Nikola"'
Search Results
2. Residue depletion of toltrazuril and its metabolites in egg after an authorised application in hens
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Dendougui-Tadjine, Ferial, Pröhl, Rüdiger, Spies, Diana, Hamann, Frank, Schulz, Franziska, Terhalle, Werner, Lange, Nikola, Scheid, Stefan, and Polzer, Joachim
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- 2023
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3. Development of the bioinformatics pipeline DREMflow for the identification of cell-type and time point specific transcriptional regulators
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de Lange, Nikola Maria and de Lange, Nikola Maria
- Abstract
A detailed understanding of the mechanism that drive cell differentiation of stem cells into a desired cell type provides opportunities to study diseases and disease progression in patient derived cells and enable the development of new therapy approaches. The main challenge in this directed differentiation is the identification of the essential transcriptional regulators involved that are specific to a cell type or lineage and the inference of the underlying gene regulatory network. Transcription factor activity during cell differentiation can be measured through gene expression and chromatin accessibility, ideally jointly over time. Integrated time course regulatory analysis yields more detailed gene regulatory networks than expression data alone. Due to the large number of parameters and tools employed in such analysis, computational workflows help to manage the inherent complexity of such analyses. This thesis describes Dynamics Regulatory Events Miner Snakemake workflow (DREMflow) which combines temporally-resolved RNA-seq and ATAC-seq data to identify cell type and time point specific gene regulatory networks. DREMflow builds on the Differentially Regulatory Events Miner (DREM), the workflow management system Snakemake and the package manager Mamba. It includes the processing starting from sequencing reads, quality control reports and parameters as well as additional downstream analyses for the inference of key transcription factors during differentiation. DREMflow is applied to multiple data sets obtained during the differentiation of midbrain dopaminergic neurons as well as blood cells and compared to TimeReg, a pipeline with similar aims. The expansion to accommodate for single-cell data is explored. Results from other studies were reproduced and extended, identifying additional key transcriptional regulators. LBX1 was found as key regulator in differentiation of midbrain dopaminergic neurons while exploring different settings of the pipeline. Members of th
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- 2023
4. Author Reply to Peer Reviews of Multi-omics analysis identifies LBX1 and NHLH1 as central regulators of human midbrain dopaminergic neuron differentiation
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Gomez Ramos, Borja, primary, Ohnmacht, Jochen, additional, de Lange, Nikola, additional, Ginolhac, Aurélien, additional, Valceschini, Elena, additional, Rakovic, Aleksandar, additional, Halder, Rashi, additional, Massart, Francois, additional, Klein, Christine, additional, Krause, Roland, additional, Schulz, Marcel, additional, Sauter, Thomas, additional, Krueger, Rejko, additional, and Sinkkonen, Lasse, additional
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- 2023
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5. Multi-omics analysis identifies LBX1 and NHLH1 as central regulators of human midbrain dopaminergic neuron differentiation
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Ramos, Borja Gomez, primary, Ohnmacht, Jochen, additional, de Lange, Nikola, additional, Ginolhac, Aurélien, additional, Valceschini, Elena, additional, Rakovic, Aleksandar, additional, Halder, Rashi, additional, Massart, François, additional, Klein, Christine, additional, Krause, Roland, additional, Schulz, Marcel H., additional, Sauter, Thomas, additional, Krüger, Rejko, additional, and Sinkkonen, Lasse, additional
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- 2023
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6. Regulatory toxicology in the twenty-first century: challenges, perspectives and possible solutions
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Tralau, Tewes, Oelgeschläger, Michael, Gürtler, Rainer, Heinemeyer, Gerhard, Herzler, Matthias, Höfer, Thomas, Itter, Heike, Kuhl, Thomas, Lange, Nikola, Lorenz, Nicole, Müller-Graf, Christine, Pabel, Ulrike, Pirow, Ralph, Ritz, Vera, Schafft, Helmut, Schneider, Heiko, Schulz, Thomas, Schumacher, David, Zellmer, Sebastian, Fleur-Böl, Gaby, Greiner, Matthias, Lahrssen-Wiederholt, Monika, Lampen, Alfonso, Luch, Andreas, Schönfelder, Gilbert, Solecki, Roland, Wittkowski, Reiner, and Hensel, Andreas
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- 2015
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7. Behavioural and pharmacological examinations in a transgenic mouse model of early-onset torsion dystonia
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Lange, Nikola, Hamann, Melanie, Shashidharan, Pullani, and Richter, Angelika
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- 2011
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8. Comparative effectiveness of antiepileptic drugs in juvenile myoclonic epilepsy
- Author
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Silvennoinen, Katri, de Lange, Nikola Maria, Zagaglia, Sara, Balestrini, Simona, Androsova, Ganna, Wassenaar, Merel, Auce, Pauls, Avbersek, Andreja, Becker, Felicitas, Berghuis, Bianca, Campbell, Ellen, Coppola, Antonietta, Francis, Ben, Wolking, Stefan, Cavalleri, Gianpiero L., Craig, John, Delanty, Norman, Johnson, Michael R., Koeleman, Bobby P. C., Kunz, Wolfram S., Lerche, Holger, Marson, Anthony G., O’Brien, Terence J., Sander, Josemir W., Sills, Graeme J., Striano, Pasquale, Zara, Federico, van der Palen, Job, Krause, Roland, Depondt, Chantal, Sisodiya, Sanjay M., Consortium, The Epipgx, Silvennoinen, Katri, de Lange, Nikola Maria, Zagaglia, Sara, Balestrini, Simona, Androsova, Ganna, Wassenaar, Merel, Auce, Pauls, Avbersek, Andreja, Becker, Felicitas, Berghuis, Bianca, Campbell, Ellen, Coppola, Antonietta, Francis, Ben, Wolking, Stefan, Cavalleri, Gianpiero L., Craig, John, Delanty, Norman, Johnson, Michael R., Koeleman, Bobby P. C., Kunz, Wolfram S., Lerche, Holger, Marson, Anthony G., O’Brien, Terence J., Sander, Josemir W., Sills, Graeme J., Striano, Pasquale, Zara, Federico, van der Palen, Job, Krause, Roland, Depondt, Chantal, Sisodiya, Sanjay M., and Consortium, The Epipgx
- Abstract
Objective To study the effectiveness and tolerability of antiepileptic drugs (AEDs) commonly used in juvenile myoclonic epilepsy (JME). Methods People with JME were identified from a large database of individuals with epilepsy, which includes detailed retrospective information on AED use. We assessed secular changes in AED use and calculated rates of response (12-month seizure freedom) and adverse drug reactions (ADRs) for the five most common AEDs. Retention was modeled with a Cox proportional hazards model. We compared valproate use between males and females. Results We included 305 people with 688 AED trials of valproate, lamotrigine, levetiracetam, carbamazepine, and topiramate. Valproate and carbamazepine were most often prescribed as the first AED. The response rate to valproate was highest among the five AEDs (42.7\%), and significantly higher than response rates for lamotrigine, carbamazepine, and topiramate; the difference to the response rate to levetiracetam (37.1\%) was not significant. The rates of ADRs were highest for topiramate (45.5\%) and valproate (37.5\%). Commonest ADRs included weight change, lethargy, and tremor. In the Cox proportional hazards model, later start year (1.10 [1.08-1.13], P < 0.001) and female sex (1.41 [1.07-1.85], P = 0.02) were associated with shorter trial duration. Valproate was associated with the longest treatment duration; trials with carbamazepine and topiramate were significantly shorter (HR [CI]: 3.29 [2.15-5.02], P < 0.001 and 1.93 [1.31-2.86], P < 0.001). The relative frequency of valproate trials shows a decreasing trend since 2003 while there is an increasing trend for levetiracetam. Fewer females than males received valproate (76.2 vs 92.6\%, P = 0.001). Significance In people with JME, valproate is an effective AED; levetiracetam emerged as an alternative. Valproate is now contraindicated in women of childbearing potential without special precautions. With appropriate selection and safeguards in place
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- 2019
9. Verhaltensanalytische und pharmakologische Untersuchungen in einem transgenen Mausmodell für die Early-onset-Torsionsdystonie
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Lange, Nikola
- Subjects
ganglia ,mice ,basal ganglia (MesH) ,animal behaviour ,dystonia (MesH) ,Dystonic Disorders/genetics (MesH) ,dopamine ,transgenic (MesH) ,animal models - Abstract
Dystonien gehören zu den häufigsten Bewegungsstörungen des Menschen und sind charakterisiert durch unwillkürliche Muskelkokontraktionen, die repetitive drehende Bewegungen verursachen. Die Early-onset-Torsionsdystonie ist gekennzeichnet durch eine Mutation des DYT1-Gens und stellt die häufigste genetische Form der Dystonie dar (Schmidt et al., 2008). Die Erkrankung beginnt zwischen dem 5. und 28. Lebensjahr, weist eine Penetranz von nur 30-40% unter den Genträgern auf und hat meist einen progressiven Verlauf (Bandmann und Müler, 2002; Bressman, 2006). Verschiedene Mausmodelle, in die dieser Gendefekt eingebracht wurde, sind als Modell für die Early-onset- Torsionsdystonie vorgeschlagen worden (Grundmann et al., 2007; Sharma et al., 2005; Shashidharan et al., 2005). Allerdings beruhte die Charakterisierung der einzelnen DYT1-Mauslinien bisher auf wenigen Untersuchungen. Die sog. „face validity“ (Vergleichbarkeit der Symptome beim Modell und beim Patienten) stellt ein wichtiges Kriterium zur Eignung eines Modells für präklinische Arzneimitteluntersuchungen dar. Erste Beschreibungen von Shashidharan und Mitarbeitern (2005) ließen vermuten, dass die von ihnen generierten transgenen Mäuse eine dystone Symptomatik aufweisen. Daher wurde dieses Mausmodell in der vorliegenden Arbeit weiter charakterisiert. Zunächst wurden unbehandelte DYT1-Mäuse mittels verschiedener Tests zur Beurteilung der Motorik und des Angstverhaltens untersucht. Diese Tests wurden in verschiedenen Altersstufen durchgeführt, um eine mögliche Progression der Erkrankung erkennen und so eine bessere Aussage in Hinblick auf die „face validity“ treffen zu können. Entgegen der initialen Beschreibung von Shashidharan und Mitarbeitern (2005) machten die Ergebnisse dieser Untersuchungen jedoch deutlich, dass dieses Mausmodell keine eindeutige dystone Symptomatik aufweist. Sowohl Befunde bei DYT1-Patienten als auch Ergebnisse vorangehender Untersuchungen und die Kenntnisse über die Funktion des Proteins TorsinA deuteten darauf hin, dass dem dopaminergen System eine kritische Rolle für die Manifestation von DYT1-Dystonien zukommt (Shashidharan et al., 2005; Wichmann, 2008). Einer möglichen funktionellen Relevanz dopaminerger Fehlfunktionen sollte in der vorliegenden Arbeit zunächst durch die akute intraperitoneale (i.p.) Applikation verschiedener dopaminerger Substanzen nachgegangen werden. Dabei sollten vor allem auf eine eventuelle Verschlimmerung bzw. Verbesserung der von Shashidharan et al. (2005) beschriebenen „Dystonie-ähnlichen“ Bewegungen geachtet werden. Zunächst wurde daher mit Hilfe des Dopamin-Vorläufers L DOPA in einer Dosierung von 100 mg/kg in Kombination mit dem Decarboxylasehemmer Carbidopa in einer Dosierung von 10 mg/kg sowie des Dopamin- Wiederaufnahmehemmers GBR12935 in einer Dosierung von 15 mg/kg untersucht, ob es altersabhängige Unterschiede im Ansprechen auf diese Substanzen bzw. im Auftreten der „Dystonie-ähnlichen“ Bewegungen gibt. Hierfür wurden verschiedene Verhaltenstests durchgeführt und zusätzlich ein Score-System zur Beurteilung der „Dystonie-ähnlichen“ Bewegungen etabliert, um diese besser quantifizieren zu können. Nachdem in diesen Untersuchungen keine altersabhängigen Effekte auftraten, wurden die Effekte nach Applikation von 25 mg/kg L DOPA, 45 mg/kg GBR 12935, 5 und 10 mg/kg Amphetamin (zur Erhöhung des Dopaminumsatzes), 1 und 2 mg/kg des selektiven D1-Agonisten A 68930, 0,3 und 0,6 mg/kg des selektiven D1-Antagonisten SCH 39166, 1 und 5 mg/kg des selektiven D2-Agonisten Quinpirol sowie 0,5 und 3 mg/kg des selektiven D2-Antagonisten Racloprid nur noch im Alter von 6 Monaten mit Hilfe des Score- Systems beurteilt. Da diese akuten Applikationen keine abweichenden Effekte bei DYT1-Mäusen im Vergleich zu Kontrolltieren zeigten, die auf dopaminerge Fehlfunktionen hätten hinweisen können, wurde untersucht, ob eine längerfristige Manipulation des dopaminergen Systems zu Veränderungen der „Dystonie-ähnlichen“ Bewegungen führt. Hierzu wurde L DOPA in einer Dosierung von 25 mg/kg in Kombination mit 10 mg/kg Carbidopa chronisch über einen Zeitraum von 20 Tagen täglich i.p. appliziert. Im Gegensatz zur akuten Applikation erhärten die festgestellten Befunde die Hinweise auf Fehlfunktionen des dopaminergen Systems in diesem Mausmodell und damit auf einen kausalen Zusammenhang zur DYT1-Mutation. So zeigte sich eine Zunahme der „Dystonie-ähnlichen“ Bewegungen bei transgenen Mäusen, hingegen nicht bei den Kontrolltieren. Aufgrund der vorliegenden Ergebnisse einer fehlenden „face validity“ ist das in dieser Arbeit untersuchte DYT1-Mausmodell als nicht geeignet für die präklinische Arzneimittelforschung zu beurteilen. Trotzdem kann dieses Mausmodell eventuell nützliche Hinweise auf die Pathophysiologie der Erkrankung geben und dazu beitragen, auslösende Mechanismen für die Manifestation der Erkrankung aufzudecken., Dystonia, one of the most common movement disorders, is characterized by involuntary muscle cocontractions, causing repetitive twisting movements. The early-onset torsion dystonia can be identified by a mutation of the DYT1 gene and represents the most common hereditary type of dystonia (Schmidt et al., 2008). This type of dystonia usually occurs between the 5th and the 28th year of age, has a penetrance of only 30-40% in gene carriers and tends to generalize (Bandmann und Müler, 2002; Bressman, 2006). After the detection of the mutation, different mouse lines which carry the human gene defect are recommended as models for the early-onset torsion dystonia (Grundmann et al., 2007; Sharma et al., 2005; Shashidharan et al., 2005). However, characterization of these models is based on only few analyses so far. The “face validity” (comparable symptoms in model and patient) is an important criterion for the use of a model in the preclinical drug research. Initial descriptions by Shashidharan et al. (2005) led to the assumption that their transgenic mouse model shows “dystonic-like” postures. Therefore, we chose this mouse model for further characterization in this study. For this purpose, we firstly investigated untreated DYT1 mice with different tests for the evaluation of the motor activity and fear behavior. These investigations were done at different ages to recognize a possible progression of the disease and for a better prediction of the “face validity”. Contrary to the initial descriptions by Shashidharan et al. (2005) the results of these studies revealed that this mouse model does not exhibit a clear dystonic phenotype. The results from DYT1 patients as well as the findings from previous studies in DYT1 mice and knowledge about the function of the protein TorsinA indicate that the dopaminergic system plays a critical role for the occurrence of DYT1 dystonia (Shashidharan et al., 2005; Wichmann, 2008). In order to determine the possible functional role of dopaminergic dysfunctions in DYT1 mice, different dopaminergic drugs were acutely applicated intraperitoneally. Thereby, attention was paid to an exacerbation respectively an improvement of the “dystonic-like” postures initially described by Shashidharan et al. (2005). By the application of the dopamine-precursor L-DOPA at a dosage of 100 mg/kg in combination with the decarboxylase inhibitor carbidopa (10 mg/kg) and of the dopamine reuptake inhibitor GBR 12935 at a dosage of 15 mg/kg at different ages, it was investigated if age-dependent differences in the side effects of these compounds respectively in the “dystonic-like” postures occur. For this purpose, we used several behavioral tests and additionally we established a score-system for the evaluation of “dystonic-like” postures to firstly quantify these postures and movements. Since age-related differences could not be observed in these investigations, the effects of 25 mg/kg L DOPA, of 45 mg/kg GBR 12935, of 5 and 10 mg/kg amphetamine (to increase the dopamine turnover), of 1 and 2 mg/kg of the selective D1-agonist A 68930, of 0.3 and 0.6 mg/kg of the selective D1-antagonist SCH 39166, of 1 and 5 mg/kg of the selective D2-agonist quinpirole as well as 0.5 and 3 mg/kg of the selective D2-antagonist raclopride were only evaluated at an age of 6 month by using a score-system. These acute applications of different dopaminergic substances did not reveal abnormal reactions in DYT1 mice in comparison to control mice and thus, did not indicate a functional relevance of a dopaminergic dysfunction in DYT1 mice. Therefore, it was determined if possible changes of the “dystonic-like” movements and postures could be provoked by chronic manipulations of the dopaminergic system. Consequently, L-DOPA was given at a dose of 25 mg/kg in combination with 10 mg/kg carbidopa i.p. once a day over a period of 20 days. In contrast to the acute application, L-DOPA enhanced the severity of "dystonic-like" movements in transgenic mice but not in L-DOPA treated control animals. This finding indicates that malfunction of the dopaminergic system is involved in this mouse model. As shown by the results, the here examined DYT1 mouse model shows no „face validity”. Therefore this transgenic line is not suitable for the preclinical drug research. Nevertheless, this mouse model could probably give useful insights into the pathophysiology of the disease. This model can be helpful to identify trigger mechanisms for the manifestation of the disease.
- Published
- 2009
10. Identification of antiepilepitic drug-target interactions in public databases
- Author
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Zizovic, Milena, Krause, Roland [superviser], de Lange, Nikola Maria [superviser], Schymanski, Emma [member of the jury], and Ginolhac, Aurélien [member of the jury]
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Multidisciplinaire, généralités & autres [F99] [Sciences du vivant] ,Epilepsy ,drug-target ,Antiepileptic drugs ,Multidisciplinary, general & others [F99] [Life sciences] - Abstract
Epilepsy is affecting people of all age and gender. The disease is traditionally treated with application of antiepileptic drugs. The therapy choice mostly relies on the differential diagnosis which is not always easy to be deducted. The treatment guidelines and antiepileptics are diverged according to major epilepsy types – generalized and focal epilepsy. However, prospective studies of antiepileptic drug effectiveness on the European cohort have shown that pharmacoresponse is patient dependent. In this thesis the antiepileptic drug prescription trend in this cohort in generalized and focal epilepsy patients was investigated. Moreover, the use of antiepileptics in the clinics from the EpiPGX database was compared to the findings of their use in general practices in the UK. To explain the difference in patient response to therapy AED-target interactions were investigated on the level of databases. In addition, with the discovery of new genes implicated in epilepsy and success of drugs of other groups such as quinidine and fampridine in treating the symptoms, the drug-repurposing found its application in epilepsy. In this thesis, quinidine-KCNT1 and fampridine-KCNA2 interactions were investigated in order to estimate the feasibility of using public databases to select drug-target interactions for clinical application. The investigation relied mainly on the ChEMBL database. However, these genes were not found among antiepileptic drug targets in the database. Quinidine and fampridine were assay associated with other AED targets. The results suggest that the therapy choice for treatment of rare forms of epilepsy underlined by channelopathies could be significantly expanded, but that database approach requires high level of drug-target selection criteria and text mining.
- Published
- 2020
11. Comparative effectiveness of antiepileptic drugs in juvenile myoclonic epilepsy.
- Author
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Silvennoinen K, de Lange N, Zagaglia S, Balestrini S, Androsova G, Wassenaar M, Auce P, Avbersek A, Becker F, Berghuis B, Campbell E, Coppola A, Francis B, Wolking S, Cavalleri GL, Craig J, Delanty N, Johnson MR, Koeleman BPC, Kunz WS, Lerche H, Marson AG, O'Brien TJ, Sander JW, Sills GJ, Striano P, Zara F, van der Palen J, Krause R, Depondt C, and Sisodiya SM
- Abstract
Objective: To study the effectiveness and tolerability of antiepileptic drugs (AEDs) commonly used in juvenile myoclonic epilepsy (JME)., Methods: People with JME were identified from a large database of individuals with epilepsy, which includes detailed retrospective information on AED use. We assessed secular changes in AED use and calculated rates of response (12-month seizure freedom) and adverse drug reactions (ADRs) for the five most common AEDs. Retention was modeled with a Cox proportional hazards model. We compared valproate use between males and females., Results: We included 305 people with 688 AED trials of valproate, lamotrigine, levetiracetam, carbamazepine, and topiramate. Valproate and carbamazepine were most often prescribed as the first AED. The response rate to valproate was highest among the five AEDs (42.7%), and significantly higher than response rates for lamotrigine, carbamazepine, and topiramate; the difference to the response rate to levetiracetam (37.1%) was not significant. The rates of ADRs were highest for topiramate (45.5%) and valproate (37.5%). Commonest ADRs included weight change, lethargy, and tremor. In the Cox proportional hazards model, later start year (1.10 [1.08-1.13], P < 0.001) and female sex (1.41 [1.07-1.85], P = 0.02) were associated with shorter trial duration. Valproate was associated with the longest treatment duration; trials with carbamazepine and topiramate were significantly shorter (HR [CI]: 3.29 [2.15-5.02], P < 0.001 and 1.93 [1.31-2.86], P < 0.001). The relative frequency of valproate trials shows a decreasing trend since 2003 while there is an increasing trend for levetiracetam. Fewer females than males received valproate (76.2% vs 92.6%, P = 0.001)., Significance: In people with JME, valproate is an effective AED; levetiracetam emerged as an alternative. Valproate is now contraindicated in women of childbearing potential without special precautions. With appropriate selection and safeguards in place, valproate should remain available as a therapy, including as an alternative for women of childbearing potential whose seizures are resistant to other treatments., Competing Interests: AA is employed by UCB Pharma, Belgium as Associate Director. AC reports grants from Eisai outside the submitted work. JC reports personal fees from UCB Pharma, personal fees from Sanofi‐Synthelabo, personal fees from Glaxo Smith Kline, personal fees from Janssen‐Cilag, personal fees from Pfizer and personal fees from Eisai to undertake lectures, participate in advisory boards and to undertake research. HL has received honoraria for consulting or speaking or travel support from Bial, BioMarine, Desitin, Eisai, and UCB, and research support from Bial, all outside the submitted work. JWS has received research funding from Eisai, and UCB, personal fees from Eisai, Bial, Janssen and UCB outside the submitted work. In the past 36 months, GJS has received personal fees for consulting and/or speaking from UCB Pharma and Eisai, all outside the submitted work. CD has received honoraria and grant funding from UCB, unrelated to the current study. SMS reports representing the Association of British Neurologists and The Royal College of Physicians (London) at the MHRA Valproate Stakeholders Network, is a member of the scientific advisory board of Dravet Syndrome UK, patron of AHC UK. SMS has received honoraria or grant funding from UCB, Eisai, Vitaflo and Nutricia, all outside the submitted work. The remaining authors have no conflicts of interests. We confirm that we have read the Journal's position on issues involved in ethical publication and affirm that this report is consistent with those guidelines.
- Published
- 2019
- Full Text
- View/download PDF
12. Non-invasive genotyping of transgenic mice: comparison of different commercial kits and required amounts.
- Author
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Hamann M, Lange N, Kuschka J, and Richter A
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- Animals, Mice, Mice, Transgenic, DNA chemistry, Feces chemistry, Genotype, Reagent Kits, Diagnostic
- Abstract
The usefulness of genetically modified mice is discussed critically. Nevertheless, their number has increased dramatically over the past years. A principle for the use these mice is the isolation of DNA to determine whether an individual carries the genetic modification or not. This "genotyping" is usually done by invasive tissue sampling, e.g. tail biopsies, which likely causes discomfort and pain to the animals and is therefore discussed in animal welfare regulations. Although non-invasive tissue sampling by stool samples was already described over 10 years ago, it is not commonly used so far. In the present study we therefore tested the practicality of this method by the use of three commercial kits for genotyping and compared the results to those attained using tail biopsies. Our data shows that DNA isolation from stool samples is practical, sensitive and effective. In addition, the possibility of repeated sampling represents a clear advantage to invasive genotyping. Therefore, this method represents a useful tool in the 3R concept, since replacement of invasive tissue sampling refines the use of transgenic mice.
- Published
- 2010
- Full Text
- View/download PDF
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