From coordinator at rth.dk Thu Aug 3 11:04:01 2023 From: coordinator at rth.dk (Betina Wingreen Jensen) Date: Thu, 3 Aug 2023 11:04:01 +0200 Subject: [SocBiN] FReminder - Deadline Aug 4 for Symposium on Applied Deep Learning in Bioinformatics (UCPH, Panum) on Aug 11, 2023 References: <27a58da67f29489190ac1675936bad69@sund.ku.dk> Message-ID: <001e01d9c5e9$72413c30$56c3b490$@rth.dk> Dear Colleague, Just a quick reminder that tomorrow, Aug 4, 2023 is the deadline for signing up to the Symposium on Applied Deep Learning in Bioinformatics (Aug 11) from 10.30 to 17.15 at Panum, University of Copenhagen, Denmark – for more information, programme and to register, please go to: Symposium on Applied Deep Learning in Bioinformatics (conferencemanager.events) registration is Aug 4, 2023, Best wishes, Betina Betina Wingreen Jensen Specialkonsulent Københavns Universitet Institut for Veterinær- og Husdyrvidenskab PAS og EAM Grønnegårdsvej 7 og Thorvaldsensvej 57 1870 Frederiksberg C DIR 35 33 47 04 MOB 21 51 09 32 bwj at sund.ku.dk Sådan beskytter vi persondata -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: image002.png Type: image/png Size: 5612 bytes Desc: not available URL: From prash at bioclues.org Thu Aug 3 08:57:58 2023 From: prash at bioclues.org (Prash) Date: Thu, 3 Aug 2023 12:27:58 +0530 Subject: [SocBiN] APBJC 2024- Save the Date, 22 - 25 October 2024. Message-ID: APBJC 2024- Save the Date, 22 - 25 October 2024. Watch out this site for more update: https://buff.ly/3QjA833 [image: image.png] -- Prashanth N Suravajhala, Ph.D. Associate Professor/Principal Scientist, Systems Genomics Room # 301, Amrita School of Biotechnology Amrita University, Amritapuri, Kerala 690525, India. Group page: http://www.bioinformatics.org/wiki/Prash E mail: prashATamDOTamritaDOTedu Twitter: @prashbio "One rule is important in science- only courageous people win " ~ Max Planck -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: image.png Type: image/png Size: 1735564 bytes Desc: not available URL: From doncheva at rth.dk Mon Aug 7 16:06:15 2023 From: doncheva at rth.dk (Nadezhda Doncheva) Date: Mon, 7 Aug 2023 16:06:15 +0200 Subject: [SocBiN] 7th Danish Bioinformatics Conference is in Aarhus on 7-8th Sept 2023 Message-ID: Dear colleagues, Only a few days left to sign up for the upcoming 7th Annual Danish Bioinformatics Conference 2023 , which will take place on Sept 7-8 in the Moesgaard Museum in Aarhus, Denmark. Deadline is *10th August 2023*! The Danish ELIXIR node and 4 invited speakers will offer a nice mix of hands-on workshops at different levels together with exciting keynotes. Join the conference with your own contributions (abstract submission deadline 10th August). More infos can be found below and on this website: https://eventsignup.ku.dk/elixirdenmark-danishbioinformaticsconference/conference [image: DKBiC_Poster_2023.png] Looking forward to seeing you there, Nadya *Nadezhda T. Doncheva* Assistant professor *University of Copenhagen *Faculty of Health and Medical Sciences Novo Nordisk Foundation Center for Protein Research Cellular network biology (Jensen group) Blegdamsvej 3, Bygning 6 2200 Copenhagen N DENMARK -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: DKBiC_Poster_2023.png Type: image/png Size: 557754 bytes Desc: not available URL: From arne.elofsson at gmail.com Tue Aug 15 10:33:00 2023 From: arne.elofsson at gmail.com (Arne Elofsson) Date: Tue, 15 Aug 2023 17:33:00 +0900 Subject: [SocBiN] =?utf-8?q?Fwd=3A_Kindly_help_spread_the_word_for_open_po?= =?utf-8?q?sition=3A_Gruppchef_f=C3=B6r_SciLifeLab_Site_Support_CS_?= =?utf-8?q?=28deadline_18/8=29?= In-Reply-To: <887A6194-F6AC-4D04-8A61-528DE37D5B77@scilifelab.se> References: <887A6194-F6AC-4D04-8A61-528DE37D5B77@scilifelab.se> Message-ID: On Tue, 15 Aug 2023, 17:12 Sandra Falck, wrote: > Dear colleagues, > > As many of you know Tove Alm has decided to head for new career > opportunities and will leave SciLifeLab at the end of this month. She will > surely be missed for her great work for SciLifeLab and in leading the Site > Support team. > > A central role thus needs to be filled and I therefore ask for your help > in spreading the word regarding this important and interesting position! An > add for a Gruppchef position has been out since the beginning of summer > with a* deadline of August 18*. > > Thank you for helping spread the word in your channels, considering > relevant profiles in your networks and encourage people to apply. Or > perhaps applying yourself? > > The add on the SciLifeLab web: > https://www.scilifelab.se/career/gruppchef-for-scilifelab-site-support-campus-solna/ > The add on LinkedIn: > > [image: 1688400887082.jpeg] > > SciLifeLab på LinkedIn: Har du erfarenhet av att leda team i > supportorganisation, arbeta i… > > linkedin.com > > > > Best, Sandra > > > *Sandra Falck, PhD* > Vice Head of Operations > Head of Office SciLifeLab Admin KTH GVS > SciLifeLab > KTH Royal Institute of Technology > Box 1031, 171 21 Solna | Tomtebodavägen 23 > +46 (0) 73 712 1205 > sandra.falck at scilifelab.se | www.scilifelab.se > > > [image: image001.png] > > -- > This list has been created to share general news and updates about > SciLifeLab Campus Solna activities. > Everyone within the SciLifeLab Campus Solna community may sign up and use > this group list to communicate information that concerns SciLifeLab Campus > Solna operations or in other ways are of relevance to members of the > community. > Sign up or Unsubscribe on “My page”: https://staff.scilifelab.se > -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: 1688400887082.jpeg Type: image/jpeg Size: 45950 bytes Desc: not available URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: image001.png Type: image/png Size: 5720 bytes Desc: not available URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: image001.png Type: image/png Size: 5720 bytes Desc: not available URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: 1688400887082.jpeg Type: image/jpeg Size: 45950 bytes Desc: not available URL: From arne.elofsson at gmail.com Mon Aug 28 10:40:10 2023 From: arne.elofsson at gmail.com (Arne Elofsson) Date: Mon, 28 Aug 2023 10:40:10 +0200 Subject: [SocBiN] Fwd: [3d-bioinfo-steering-committee] Advertising and registering for the AGM In-Reply-To: References: Message-ID: Structural bioinformatics is undergoing a fast transformation with major breakthroughs from experimental methods such as cryo-electron microscopy to disruptive and transformative new approaches in computational prediction methods based on AI and machine learning. This meeting aims to bring together structural bioinformatics researchers from three international communities (3D-BioInfo, 3D-SIG and ELIXIR Czech Republic) for networking and to exchange ideas on the workflows and resources needed to exploit the transformative new developments in the data and methods. The ELIXIR 3D-BioInfo Structural Bioinformatics Community brings together European researchers working on protein structure annotation, protein complexes, protein ligand interaction, protein nucleic acid interactions, and protein engineering. The community devise strategies for integrating predicted data and benchmarking the prediction tools. The 3D-SIG ISCB (International Society for Computational Biology) Community in Structural Bioinformatics covers the same themes as 3D-BioInfo and is a Community of Scientific Interest (COSI) within the International Society for Computational Biology (ISCB). It hosts a track within the ISCB’s annual conference and organises webinars some of which are joint with 3D-BioInfo. The ELIXIR Czech Republic Community brings together researchers working in a range of bioinformatics and computational themes and is supporting infrastructure developments, tools and resources across the country. More information Conference website https://www.xray.cz/3D-bio-2023 3D-BioInfo Community | ELIXIR https://elixir-europe.org 3DSIG: Structural Bioinformatics and Computational Biophysics https://3dsig-cosi.github.io Registration Next page 3D-BioInfo -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: 3D Bio Flyer Prague FINAL AUG2023.pdf Type: application/pdf Size: 1057176 bytes Desc: not available URL: From janina.bocksch at senckenberg.de Tue Aug 29 09:56:47 2023 From: janina.bocksch at senckenberg.de (Janina Bocksch) Date: Tue, 29 Aug 2023 09:56:47 +0200 (CEST) Subject: [SocBiN] PostDoc Position in Comparative Genomics in Fruit Bats at Senckenberg Frankfurt ( Application deadline October 8th 2023) Message-ID: <1116392709.247647.1693295807284@office.mailbox.org> Job Announcement ref. #12-23005 Postdoc Position in Comparative Genomics in Fruit Bats The Hiller Lab at the LOEWE Center for Translational Biodiversity Genomics (TBG) in Frankfurt, Germany is looking for a Postdoc to investigate the genomic underpinnings of convergent dietary adaptations in bats. The Project While most bats feed on insects, several independent lineages adapted to fruit- or nectar-based diets that are rich in sugars. In contrast to humans, where a sugar rich diet is a major risk factor for metabolic diseases, these bats have metabolic and physiological adaptations to such highly-specialized diets. The postdoc will capitalize on more than 15 already-existing new bat genomes sequenced in the lab with HiFi and HiC, comprehensive comparative RNA-seq datasets and our powerful genomic methods repertoire (e.g. TOGA [1]) to comprehensively discover the genomic basis of adaptations to sugar-rich diets in bats (see [2] for a similar example in hummingbirds). The project aims at providing novel insights into fundamental questions concerning (i) the contribution of gene-sequence vs. gene expression changes and (ii) the importance of convergent vs. lineage-specific molecular changes for phenotypic convergence. Our lab The mission of our group is to understand how nature's fascinating phenotypic diversity has evolved and how it is encoded in the genome. Work in the lab includes sequencing and assembly of reference quality genomes, genome alignment and gene annotation, development and application of comparative genomic methods to discover differences in genes and gene expression, and the use of statistical approaches to link phenotypic to genomic changes [1-10]. Our lab is part of TBG (https://tbg.senckenberg.de/) and the Senckenberg Society for Nature Research (http://www.senckenberg.de), and is based near the city center of Frankfurt am Main, Germany. TBG provides access to cutting-edge computational (large HPC clusters, genome browser) and lab infrastructure to sequence genomes. English is the working language in our lab. Senckenberg and TBG provide flexible working hours, an annual special payment, a company pension scheme, the Senckenberg badge for free entry in museums, the zoo, botanical garden and Palmengarten, and a leave of 30 days per year. Frankfurt is a vibrant and highly-international city at the heart of Europe that combines a skyscraper skyline with ample park and green areas. The Economist 2022 index ranked Frankfurt among the top 10 most livable cities worldwide. Your profile - PhD degree in bioinformatics/computational biology, genomics or a related area - Solid programming skills in a Linux environment and experience with shell scripting and Unix tools are required - Previous experience in comparative genomics is an advantage Place of employment: Frankfurt am Main Working hours: full time (40 hours/week) / part-time options are available Type of contract: initially limited for 2 years, but funding is available for an extension Salary and benefits: according to the collective agreement of the State of Hesse (pay grade E13) The start date is flexible but should ideally be in the beginning of 2024. Senckenberg is committed to diversity. We benefit from the different expertise, perspectives and personalities of our staff and welcome every application from qualified candidates, irrespective of age, gender, ethnic or cultural origin, religion and ideology, sexual orientation and identity or disability. Applicants with disabilities (“Schwerbehinderung”) will be given preferential consideration in case of equal suitability. Senckenberg actively supports the compatibility of work and family and places great emphasis on an equal and inclusive work culture. How to apply Please send us your application documents containing - a CV with publication list and contact information for at least two references - a summary of previous research experience (max 1 page) - and copies of certificates, transcripts and grades) in electronic form (as a coherent PDF file) by October 8th 2023 to recruiting at senckenberg.de mailto:recruiting at senckenberg.de and Prof. Dr. Michael Hiller michael.hiller at senckenberg.de mailto:michael.hiller at senckenberg.de quoting the reference number #12-23005, or apply through the online application form on our homepage. Senckenberg Gesellschaft für Naturforschung Senckenberganlage 25 60325 Frankfurt a.M. E-Mail: recruiting at senckenberg.de mailto:recruiting at senckenberg.deFor more information please contact Prof. Dr. Michael Hiller, michael.hiller at senckenberg.de mailto:michael.hiller at senckenberg.de or visit the lab webpage https://tbg.senckenberg.de/hillerlab/. Recent publications [1] Kirilenko BM, et al. Integrating gene annotation with orthology inference at scale. Science, 380(6643), 2023 [2] Osipova E, et al. Loss of a gluconeogenic muscle enzyme contributed to adaptive metabolic traits in hummingbirds. Science, 379(6628), 185-190, 2023 [3] Blumer et al. Gene losses in the common vampire bat illuminate molecular adaptations to blood feeding. Science Advances, 8(12), 2022 [4] Roscito et al. Convergent and lineage-specific genomic differences in limb regulatory elements in limbless reptile lineages. Cell Reports, 38(3):110280, 2022 [5] Jebb et al. Six reference-quality genomes reveal evolution of bat adaptations. Nature, 583, 578–584, 2020 [6] Huelsmann et al. Genes lost during the transition from land to water in cetaceans highlight genomic changes associated with aquatic adaptations. Science Advances, 5(9), 2019 [7] Hecker et al. Convergent gene losses illuminate metabolic and physiological changes in herbivores and carnivores. PNAS, 116(8), 3036-3041, 2019 [8] Roscito et al. Phenotype loss is associated with widespread divergence of the gene regulatory landscape in evolution. Nature Communications, 9:4737, 2018 [9] Sharma et al. A genomics approach reveals insights into the importance of gene losses for mammalian adaptations. Nature Communications, 9(1), 1215, 2018 [10] Nowoshilow et al. The axolotl genome and the evolution of key tissue formation regulators. Nature, 554(7690), 50- 55, 2018 -------------- next part -------------- An HTML attachment was scrubbed... URL: