This way users can get a fully annotated report on candidate disordered interaction sites, highlighting their relationships with Pfam domains, for any protein of interest. Mai, findet der Hochschulinformationstag (HIT) der Universität Jena erstmals digital statt. 6Qᠨ�Y(%�B7�R �ܣ:2�&�L0�fcOR�����L���Z�/X��m�i�s��+�7��4�x��T�~� ���z^���� Die Seite wird regelmäßig aktualisiert und erweitert. information on gene functions from Gene Ontology, Support for facets and keyword searches for exploring results, Explore up to 1,000 top hits (compared to 100 in BLAST), Integration with Rfam to annotate structured RNA elements. The information provided is for research only and we cannot guarantee the correctness of the data. The ELM resource offers a collection of short linear motifs that mediate interactions crucial in both native cell regulation and pathogenic interference. CoV-GLUE is an online web application for the interpretation and analysis of SARS-CoV-2 virus genome sequences, with a focus on amino acid sequence variation. Repurpose drugs. Public life had largely come to a standstill. Explore the virus-host interactome. Sites that undergo positive selection can give you insights in the evolutionary history of your sequences, for example showing you important mutation hot spots, accumulated as results of virus-host arms races during evolution. It will determine � �]{s�F��ۮ�w���Yr�|ʒE�ϖ��[��=)��Km��� ��3R��~���A"H�q��� ������|�7ή���̵�>q��;���j����3�w�k6�pay��9�˥J�;��^��bԆ��4�:貏!_�;��5�uW�T�ݸ�٭���5�R1=���m�E'��S$�LY���/�4eS*~�VK!m�IY)�BW���n�΄�eY!��� F���y�`H���ã�r �-!u�h�m0���b]s�p�kNݮ�����N�)�������|���xw>>��T�vɇ�/���vO��RL�ո#�cW���O�ݩ.��`e��*}�~�.� �sen��M�$W\���O���5�=΄��=[��(�8Z�)�wG�P���hKu��/��B���{�|ڳY�2���wKt�=�ܻ����T|�1��>��w\��]Z Vigor4 uses the VIGOR_DB project which currently has databases for the following viruses: Influenza (A & B for human, avian, and swine, and C for human), West Nile Virus, Zika Virus, Chikungunya Virus, Eastern Equine Encephalitis Virus, Respiratory Syncytial Virus, Rotavirus, Enterovirus, Lassa Mammarenavirus. ������4�v K�W\-�z0�d�]��� ��ӌ{u�Ē�J��a �b�;%�F*���­��Ql��(�E������6ٹ����%�0:�w���ѐK!��Ժ�xi atm�5A�=5�YƝ�=M���};�J��qgMĤ\�����+������8�����.�,~|�0�;����*uh���v}�i �R��ƛ��m�ʽ���&�KD��6�,�+�3/n�P��%Bi�d�۾Go��Z�������q6���N�ŧx����Uc8��ۯ���Hf�h��_���F/Rs:Ѹ��_·��p_�6B:�g"a P-HIPSTer employs structural information to predict pan viral-human PPIs. 5Institute for Medical Microbiology, University Hospital Jena, Am Klinikum 1, 07747 Jena. The opening page has been updated to give references to an overview of motif hijacking in viruses in general, and an application to detecting SARS-CoV-2 motif usage in host cell attachment and modulation. This includes genetic sequence and related clinical and epidemiological data to help researchers understand how viruses evolve and spread during epidemics and pandemics. Photonics course are held, e.g. It collects and provides up-to-date information on computational predictions, in vitro, as well as in vivo study data. ViralZone project is handled by the virus program of SwissProt group. When I called him to say thank you, he calmly said: “Ah, that’s the radiation. ��%����SIG�{ ��jx���A���l���-���8%�ES�kk`�,�-�$�B�Tm{����L̃��xS�SEV��*e�.�Jlۄ����ֶ�"R\��V�2����1�Z�L��V�I��d��Z�Lʲ]Ȕض�i�9����) Due to the corona virus, Graduate Academy has to reduce some of its offers. Dezember 2020 . The P-HIPSTer database, comprised of ∼282,000 PPIs, represents a comprehensive catalog of virus-human PPIs that spans the Baltimore classification system and is a major expansion on previously available or reported pathogen-host interactions. Medizin-Studierende oder Personen mit medizinischer Vorbildung, die sich engagieren möchten, können sich an Karsten Krohn vom Universitätsklinikum Jena Krohn@med.uni-jena.de wenden. Welcome to the Chair of International Relations at Friedrich Schiller University Jena! And our most important services will continue: We are processing all incoming applications including your mail. CoVPipe is a highly optimized and fully automated workflow for the reference-based reconstruction of SARS-CoV-2 genomes based on next generation amplicon sequencing data using CleanPlex SARS-CoV-2 Panel (Paragon Genomics, Hayward, CA, USA) from swab samples. the reliable analysis of sequencing data. coronapp is a web application to annotate and monitor SARS-CoV-2 mutations, both worldwide and in user-selected countries. Indeed, this tree has never borne so much fruit, and so superb. I will strive to reduce this impact and to ensure the high quality of teaching you can expect from the University of Jena. Encountering Covid-19: Jamais vu or Déjà vu? The viral sequences are regularly extracted from the NCBI BLAST database and the metadata is retrieved from the associated INSDC entries. While the search uses the same sequences as NCBI BLAST, there are several important differences: The search is produced and maintained by the RNAcentral team, repurposing the infrastructure of the RNAcentral sequence similarity search to query betacoronavirus sequences instead of non-coding RNAs. Service hours of the hotline: daily 10:00 - 14:00. PoSeiDon is a pipeline to detect significant positively selected sites and possible recombination events in an alignment of multiple coding sequences. Corona News. Find putative drug targets. International organizations take action in order to prevent a further spread of the virus—with the World Health Organization (WHO) leading the … A research team from the Chair of Economic Geography at the University of Jena has been examining the severity of the consequences. Er koordiniert die Einsätze dieser Freiwilligen mit medizinischer Ausbildung. The latest release (March 2020) is dedicated to helping researchers to fight against the COVID-19 pandemic and is registered as a COVID-19 fair share resource. Despite the fact that first facilities are re-opening under strict conditionshis, we ask you to learn and to work from home whenever possible and, in your personal behaviour, take into account that great efforts are still needed to contain the corona virus. DisGeNET is a discovery platform containing one of the largest publicly available collections of genes and variants associated with human diseases. 07743 Jena Telefon: Telefax: E-Mail: 0 36 41 9-431 70 0 36 41 9-431 72 studiendekanat-wiwi@uni-jena.de Jena, March 18, 2020 To the students and lecturers at the Faculty of Economics and Business Administration Information and Regulations Concerning the Corona Pandemic (last updated 18/03/2020) Dear Sir or Madam, We cover workflows and tools for. Thuringia’s economy has been hit hard by the corona pandemic, plunging the state into a deep recession. E-Mail: Please write an email to LehreLernen@uni-jena.de. Powered by WordPress. CoVex is a unique online network and systems medicine platform for data analysis that integrates virus-human interactions for SARS-CoV-2 and SARS-CoV-1. International Organizations and Crisis Management - IOCM in short - is the masters degree in political science of the Chair for International Relations at the Friedrich-Schiller-University Jena. It can be used as a method of reconstructing phylogenies but is also a framework for testing evolutionary hypotheses without conditioning on a single tree topology. The European COVID-19 Data Portal was launched by EMBL-EBI in conjunction with the European Commission, the European Open Science Cloud and ELIXIR, as part of the wider European COVID-19 Data Platform. The European COVID-19 Data Portal was launched by EMBL-EBI in conjunction with the European Commission, the European Open Science Cloud and ELIXIR, as part of the wider European COVID-19 Data Platform. GISAID data Submitters and Curators ensure real-time data sharing of hCoV-19 remains reliable, to enable rapid progress in the understanding of the new COVID-19 disease and in the research and development of candidate medical countermeasures. CORDITE (CORona Drug InTEractions database) collects and aggregates data from PubMed, MedRxiv, BioRxiv, and ChemRxiv for SARS-CoV-2. V-Pipe has released a new version specifically adapted to analyze high-throughput sequencing data of SARS-CoV-2. Users may also analyse their own SARS-CoV-2 sequences by submitting them to the web application to receive an interactive report containing visualisations of phylogenetic classification and highlighting genomic variation of potentially high impact, for example, linked to primer mismatches. ... “The corona crisis is the epitome of a transboundary crisis” ���n1�P�G�,�t\5t����W Qe�.f�R��L�)��#��!sߐQbs�k�+�f���Hj�"z�c��?��NT���I�O ִ� Tools by EVBC members are marked ★. At the same time, the DNA barcodes between primer pairs should be different to allow us to distinguish between species to improve resolution. Our team is mostly working online. The goal is to aid epidemiological understanding and improve outbreak response. The corona pandemic is fundamentally changing the everyday life of many people – this naturally also affects students. Person working on a computer Image: Glenn Carstens-Peters Despite the official case numbers of Covid-19 in Jena and Thuringia being very low (as of 23.06.2020), the coming winter semester will nevertheless take place online. For a detailed description of the tools, check our review preprint: We are curious to know which tools you have developed to advance the field. Its main focus is set on drug interactions either addressing viral proteins or human proteins that could be used to treat COVID. However, we are still available for you via email. ��K���އ�������% The Data Portal brings together and continuously updates the relevant COVID-19 datasets and tools. The political actors therefore don’t stop at their borders on the search for solutions. The Coronavirus typing tool is designed to use Blast and phylogenetic methods in order to identify the Coronavirus types and genotypes of a nucleotide sequence. Sequence data are essential to design and evaluate diagnostic tests, to track and trace the ongoing outbreak, and to identify potential intervention options. r�F�32� 9W Handlungsempfehlungen an Lehrende und Prüfungsämter kommuniziert, auf die sich Studierende berufen können. Please also have a look at our general list of virus bioinformatics tools. The COVID-19 portal enables community crowdsourcing of publications via the “Add a publication” feature within any entry. Corona virus: Availability and Restrictions at Graduate Academy. The ViPR database integrates various types of data for multiple virus families. PriSeT has been applied to 19 SARS-CoV-2 genomes and computed 114 new primer pairs with the additional constraint that the sequences have no co-occurrences in other taxa. In this model, SARS-CoV-2 infects a single cell, or a solution of virions is administered to the extracellular space. Volle Transparenz. DisGeNET COVID-19 data collection shows the results of applying text mining tools to the LitCovid dataset, to identify mentions of diseases, signs and symptoms. With sadness, we regret to inform you that we have to cancel our 7 th pairfam international interdisciplinary conference on "Personality and relationships across the life span in Jena", July 2-3 2020, due to the evolving corona virus situation. Barrierefreiheit. ,)�t*�;ʖVq����w���p6ʯQ73�c��8k9O>X3̪? On 20 March, the Friedrich Schiller University Jena went into emergency operation. SARS-CoV-2 will naturally accumulate nucleotide mutations in its RNA genome as the pandemic progresses. Coronavirus COVID-19 Global Cases by the Center for Systems Science and Engineering (CSSE) at Johns Hopkins University (JHU) The Pfam protein families database is widely used in the field of molecular biology for large-scale functional annotation of proteins. Covidex is an alignment-free machine learning subtyping tool for viral species, based on a random forest model trained over a kmer database. We are happy to answer your enquiries via our contact form. E-mail: stefanie.deinhardt-emmer@med.uni-jena.de The latest release of Pfam, version 33.1, contains an updated set of models that comprehensively cover the proteins encoded by SARS-CoV-2. The latest 2020 release of ELM includes updated motif definitions and new instances covering nearly 300 motif classes based on over 3,400 publications. the discovery of potential drug targets and development of therapeutic strategies. Step-by-step guide. Dazu wurden verschiedene Regelungen getroffen bzw. VADR (Viral Annotation DefineR) validates and annotates viral sequences in GenBank submissions. It is capable of processing large libraries and is robust against mislabeled or low quality references. We are curating a list of bioinformatics tools designed explicitly for SARS-CoV-2 and coronaviruses. The virus is uncoated to explose viral RNA, which synthesizes viral proteins that are assembled into a virion. With great discipline we have all contributed to keep the number of sick people in Jena low. There may be longer waiting times. Since the start of the COVID-19 outbreak and the identification of the pandemic virus, laboratories around the world are generating viral genome sequence data with unprecedented speed, enabling real-time progress in the understanding of the new disease and in the research and development of candidate medical countermeasures. In the extracellular space, virions adhere to ACE2 receptors and get internalized through endocytosis. If you wish to start a PhD at the University of Jena you have to register in the portal with your personal data. Visit the SARS-CoV-2 data portal in ViPR. This applies initially until the start of the summer semester lecture period on 4 … The GISAID Initiative promotes the rapid sharing of data from the coronavirus causing COVID-19. The nationwide survey "Studying in Germany in Corona Times" aims to examine the effects of the crisis on students at German universities and to shed light on the special features, challenges and opportunities of the largely digital summer semester 2020. The ELM server includes an online tool for the identification of motifs in user input sequences, using context filters (based on structural information, localization, sequence complexity and conservation) to refine results. The Welcome and Service Desk for Doctoral Candidates and Postdocs will be closed for face-to-face contacts until further notice. ��$�i��D`��ATV��@������ZWʲ]��ض First Act. PriSeT finds a primer set P balancing both: high taxonomic coverage and high resolution. ELM and IUPred2A mutually include each other’s predictions, and both methods utilize the newest data from UniProt and Pfam. They provide a continually-updated view of publicly available data alongside powerful analytic and visualization tools for use by the community. 07743 Jena. Physik): Course takes place: Yes: Multimedia support: PDF (lecture slides), Video for the PDF (explanations of slides) Interaction: video conference, Discussion and feedback via discussion boards in Moodle (every week) Through a review of the most relevant scientific literature, and considering different levels of experimental evidence, over 150 compounds have been identified that are potentially active against COVID-19. Nextstrain is an open-source project to harness the scientific and public health potential of pathogen genome data. In response to the SARS-CoV-2 outbreak, Rfam produced a special release 14.2 that includes 10 new and 4 revised families that can be used to annotate the SARS-CoV-2 and other Coronavirus genomes with RNA families. �:M�l��Μق��D�;];��#�%2�T�t��z$ ��M�l�H�h���F]��*Vwb�C�GܲCE�V�q���e�!����� SD}��ٌ[:/�*F�Л��q�֙Xp�;��p�l�2�����Q/>~j؃�ܒcGIDP�?��u���B.S Internalized ACE2 receptors release their virus cargo and are recycled back to the surface. Ъn�������K����o���h��E{ׁ�rθ3��燏"`G�A] ���G�p>�vw�}��O Please contact Marco Cacciabue, Pangolin assigns a global lineage to query SARS-CoV-2 genomes by estimating the most likely placement within a phylogenetic tree of representative sequences from all currently defined global SARS-CoV-2 lineages based on the lineage nomenclature proposed by. ViralZone is a web-resource from the Swiss Institute of Bioinformatics for all viral genus and families, providing general molecular and epidemiological information, along with virion and genome figures. For example, it is possible to search for a fragment of a SARS-CoV-2 genome, select similar sequences identified in COVID-19 patients, and browse sequence variants from different countries. Schools and daycare centres in Thuringia closed from 17 March. Corona macht erfinderisch! Nextstrain is incorporating SARS-CoV-2 genomes as soon as they are shared and provides analyses and situation reports. the tracking of the COVID-19 pandemic and evaluation of containment measures. The pipeline is designed for reproducibility and scalability in order to ensure reliable and fast data analysis of SARS-CoV2 data. Currently, it supports FMDV and SARS-Cov-2 viral sequences. Die Browser-basierte Lösun Please also use the e-mail address corona@jena.de. The new search uses nhmmer and enables the users to explore the results using facets powered by the EBI Search. Among them is the ACP auditorium, where main lectures in the M.Sc. Assembled virions are exported to the environment, where they can diffuse and infect other cells. Im Krankheitsfall/wenn Symptome auftreten: wenn Sie in Jena wohnen, müssen Sie die Corona-Hotline +49 3641 492222 und das Fiebertelefon +49 3641 493333 informieren (alternativ: corona@jena.de). Please note: Due to the Corona crisis DFN-web conferencing tools are currently frequently used. COPASI supports models in the SBML standard and can simulate their behavior using ODEs or Gillespie’s stochastic simulation algorithm; arbitrary discrete events can be included in such simulations. On average the observed changes would be expected to have no or minimal consequence on virus biology. [�{�I�)�$ ʚ3;tA!paTB�>XZL���z��P� ]� ��T�ˀ�Š{���� �6ׂcPYp�C �ǘ���Ys4*8��d�¦��B�֚S�1ơĴ��3`���TCDy�U^@�:�Y�x�ЁZ�����h�ᅌ0�yf���I��v�l���7��t�O��ȌJ�����W��q�i\� "�ʈ_'��DQ�@C�D��sbC���|��Sj�W`ƀC�Z*�E��w̚r�� "Bc‹�.��K��'�(hF�Eޔ���Fk��5����AGg�ӷ!Fiz��ʺ�Ԇ{�k���i�8 �oSS|\�@� �A�i�\�C�nh�D��Ê�\�I=���= 2m|��P������u�ɍ����mp+25�yR*�$?%T�gX�;ɲ>Snʖ&�k�V��o:yY�I�m��l��i+k wo�k���ך@M��5��Si� 0׬n���t��.u��xԥP�szi dr+���e��o2SV�$�&5b�0��b�[��*�^C�3~���h`R��/��� �;�D>��_���+��Y7�C=���;��� �u�mXr���ң�*��h�\�&�$�LݰҶf�c�˱k+譱l��|?�~�dS� The Friedrich Schiller University Jena has equipped several lecture halls to provide live streaming of lectures and seminars. [8r�vJ�b���������/9����b_�R�ͅkcz���׃�/��0M�o}yi���R�ɚ �I6{\�l�H�śčaQ�+M(�ޥ���hR��>q�gu�s�MT( �_��F���jU� We are happy to answer your enquiries via our contact form. Informieren Sie bitte auch das Internationale Büro der Universität Jena: international@uni-jena.de 3TrophoSYS GmbH, Botzstrasse 5, 07743 Jena. It implements different network-based approaches for the identification of new drug targets and new repurposable drugs. Last update: June 2, 2020 Due to the Corona pandemic, the courses in the current summer term 2020 and also in the upcoming winter term 2020/2021 will be online courses. BEAST 2 includes a graphical user-interface for setting up standard analyses and a suit of programs for analysing the results. Henceforth, it is possible to proceed the studies or to start the studies without being physically in Jena. The Data Portal brings together and continuously updates the relevant COVID-19 datasets and tools. Präsidium und Senat der Friedrich-Schiller-Universität Jena haben sich zum Ziel gesetzt, alle Nachteile, die Studierenden durch Corona entstehen, auszugleichen. uni-assist has already taken comprehensive protective measures for the staff in its Berlin office. Both ELM and IUPred2A identify functional regions that are disordered and generally less conserved due to rapid evolvability, and hence their outputs complement the well conserved functional regions identified by Pfam. It is based on the GLUE data-centric bioinformatics environment and provides a browsable database of amino acid replacements and coding region indels that have been observed in sequences from the pandemic. Beautiful, sweet-smelling, delicious apples.