From Erik.Bongcam at slu.se Mon Jan 4 11:40:49 2021 From: Erik.Bongcam at slu.se (Erik Bongcam Rudloff) Date: Mon, 4 Jan 2021 10:40:49 +0000 Subject: [SocBiN] Job position within Big Data and genetics Message-ID: <8E41713A-BC67-4DF0-9F12-AF95C31A39FD@slu.se> Dear colleagues, Please distribute this job announcement among your students if there is interest. Thanks and regards Erik ----------------------------------- Dr. Erik Bongcam-Rudloff Professor of Bioinformatics Head of SLU Bioinformatics Infrastructure (SLUBI) Head of SGBC SLU-Uppsala +46-(0)72-535 55 87 +46 (0)18-67 21 21 —————————————————————————————————————————————————————— Job position within Big Data and genetics The breeding organisation Växa Sverige is looking for someone with an academic degree in bioinformatics, IT and informatics, data techniques or similar. Växa Sverige has a comprehensive database with registrations and information about Swedish cattle. The position will cover a combination of new method development and new data usage, as well as some regular job assignments of a more routine nature, such as preparing data before the monthly breeding evaluations and calculating genomic values. Our new colleague will also be a key figure in a larger project aimed at updating the IT infrastructure regarding breeding services. In addition to the tasks mentioned above, there will be opportunities in the future for data processing and development in some of our other knowledge areas, such as animal health, epidemiology or feeding. Last day for application is 2021-01-22. More information:https://ledigajobb.se/jobb/868a88/v%C3%A4xa-sverige-s%C3%B6ker-ny-kollega-med-intresse-f%C3%B6r-genetik-och-big-data --- När du skickar e-post till SLU så innebär detta att SLU behandlar dina personuppgifter. För att läsa mer om hur detta går till, klicka här E-mailing SLU will result in SLU processing your personal data. For more information on how this is done, click here -------------- next part -------------- An HTML attachment was scrubbed... URL: From j.a.dahl at medisin.uio.no Fri Jan 8 16:41:19 2021 From: j.a.dahl at medisin.uio.no (John Arne Dahl) Date: Fri, 8 Jan 2021 15:41:19 +0000 Subject: [SocBiN] =?windows-1252?q?Open=3A_Postdoc_in_Bioinformatics_=96_m?= =?windows-1252?q?echanisms_of_aging_and_rejuvenation?= Message-ID: <1610120479711.28030@medisin.uio.no> Postdoc in Bioinformatics – aging and rejuvenation >From the Dahl Lab, Oslo University Hospital: We are seeking a Bioinformatician/post-doctoral fellow to study the mechanisms of aging and rejuvenation in a systematic manner. The successful candidate will develop new algorithms and perform data analysis on large datasets from whole tissues and purified cells from young and old individuals (e.g. DNA methylation, microChIP-seq, RNA-seq, ATAC-seq, proteomics), with a particular focus on stem cell aging, rejuvenation after hematopoietic stem cell transplantation in healthy humans and cancer. Primary responsibilities are to design and conduct analysis and to develop pipelines and algorithms for large datasets and several information layers. We offer the opportunity to lead and collaborate on different research projects including clinical research and collaborate with other labs at Oslo University Hospital and internationally. Situated at the Oslo University Hospital, Scandinavia’s largest hospital, the Dahl Laboratory is well positioned for conducting both basic and translational research using mouse and patient material. Applications must be submitted through the official Oslo University Hospital recruitment website WebCruiter. https://2411.webcruiter.no/Main2/Recruit/Public/4325719113?language=nb&link_source_id=0 Postdoc in Bioinformatics – aging and rejuvenation: Enter Webcruiter ID in the search field: 4325719113 Application deadline: January 15th (You can contact me if this deadline is too soon for you. My email is listed below). Startup date: 01.03.2021/As soon as possible, but we are flexible. We are also flexible regarding working from a distance. The location We are located at the Oslo University Hospital, campus Rikshospitalet adjacent to an idyllic forest. Oslo is ranked as one of the best cities in the world to live in. We can offer * An ambitious and stimulating scientific environment with excellent opportunities for academic development * Full-time three-year position * Top modern and excellent lab facilities with a wide range of core facilities * Attractive salary according to the guidelines from the Oslo University Hospital * Favorable pension arrangements * Attractive welfare arrangements, with affordable high-quality childcare available Any questions regarding the position can be directed to: Principal Investigator Dr. John Arne Dahl. Email: j.a.dahl at medisin.uio.no Feel free to share :) Best regards, John Arne Dahl -------------- next part -------------- An HTML attachment was scrubbed... URL: From daniel.fischer at luke.fi Tue Jan 12 10:39:16 2021 From: daniel.fischer at luke.fi (Fischer Daniel (Luke)) Date: Tue, 12 Jan 2021 09:39:16 +0000 Subject: [SocBiN] Senior Specialist or Research Scientist position, Bioinformatics Message-ID: <785e64c6955b4a748fa803169a9641ba@C119S212VM039.msvyvi.vaha.local> Hello, There is a permanent position at the Natural Resources Institute Finland (Luke) / Luonnonvarakeskus for a Senior Specialist or Research Scientist in Bioinformatics open! If you would like to work with us, have a look at it here: https://www.valtiolle.fi/en-US/vacancy?id=30-46-2021 Short description of the position: The person works in Natural Resources Institute Finland (Luke) as a Bioinformatician (Senior Specialist, Bioinformatics or Research Scientist, Bioinformatics). Tasks include participation in planning new research projects and participation in execution of research projects as a researcher specialized in bioinformatics. The person can also lead projects and apply for project funding. The position requires the person to be involved in scientific writing and publishing as an author. The person is expected to actively participate in developing field of bioinformatics in Luke. The person should preferably work in Helsinki, Jokioinen, Oulu, Joensuu or Turku. For more details, please follow the link given above. Best wishes from Finland, Daniel From Ola.Spjuth at farmbio.uu.se Mon Jan 11 16:56:07 2021 From: Ola.Spjuth at farmbio.uu.se (Ola Spjuth) Date: Mon, 11 Jan 2021 15:56:07 +0000 Subject: [SocBiN] 3 open positions at Uppsala University Message-ID: <15C6EECC-7CFD-42F0-B774-DD0CB876FB1B@farmbio.uu.se> I have 3 open positions (2 PhD and 1 Postdoc) in my research group (www.pharmb.io) at Uppsala University to expand our robotized lab towards autonomous phenomics with applications in precision cancer medicine. If you are interested in a combination of AI, lab automation and cell profiling with high-content microscopy imaging to develop efficient drug combination therapies, then have a look at these positions: - Position 1: PhD Student in Pharmaceutical Science with a focus on automated phenotypic drug profiling - Position 2: PhD student in pharmaceutical bioinformatics with a focus on analysis of high-content imaging with AI - Position 3: Postdoc with a focus on analysis of high-content imaging with AI Read more at: https://pharmb.io/blog/open-positions-precision-cancer-medicine-2021/ Ola -- Ola Spjuth, Professor Department of Pharmaceutical Biosciences Director of Studies, Pharmaceutical Bioinformatics Box 591, Uppsala University, Uppsala, Sweden Email: ola.spjuth at farmbio.uu.se Ph: +46 (0)70 425 06 28 Web: https://pharmb.io N?r du har kontakt med oss p? Uppsala universitet med e-post s? inneb?r det att vi behandlar dina personuppgifter. F?r att l?sa mer om hur vi g?r det kan du l?sa h?r: http://www.uu.se/om-uu/dataskydd-personuppgifter/ E-mailing Uppsala University means that we will process your personal data. For more information on how this is performed, please read here: http://www.uu.se/en/about-uu/data-protection-policy -------------- next part -------------- An HTML attachment was scrubbed... URL: From lukas.kall at scilifelab.se Tue Jan 12 12:50:48 2021 From: lukas.kall at scilifelab.se (=?UTF-8?Q?Lukas_K=C3=A4ll?=) Date: Tue, 12 Jan 2021 12:50:48 +0100 Subject: [SocBiN] Fwd: ML/Bioinformatics Researcher Positions Available at NEC Labs America - Princeton Message-ID: ---------- Forwarded message --------- From: Martin Renqiang Min Date: Mon, Jan 11, 2021 at 10:07 AM Subject: ML/Bioinformatics Researcher Positions Available at NEC Labs America - Princeton The Machine Learning Group of NEC Labs America - Princeton has several ML/Bioinformatics researcher positions available. Could you please forward the following job ad to relevant graduate students? Thank you very much. TITLE Researcher LOCATION Princeton, NJ DEPARTMENT Machine Learning DESCRIPTION The Machine Learning Department in Princeton, NJ, has openings for researchers with a passion for developing the next generation of machine intelligence. Expertise in machine learning with a proven track record of original research as well as a keen sense for developing practical applications are prerequisites for this position. The Machine Learning Department has been at the forefront of research in such areas as deep learning, support vector machines, and semantic analysis for almost two decades. Many technologies developed in our group have been released as innovative products and services of NEC, such as systems for recruiting, surveillance, inspection of manufactured goods, and digital pathology. In addition to contributing to NEC’s business, our research is published in premier venues. Among the challenges we are tackling now are, how to move machine learning to more abstract reasoning, and how this can enable new applications in smart manufacturing, safe cities, and personalized heath care. http://www.nec-labs.com/research-departments/machine-learning/machine-learning-home POSITION REQUIREMENTS • PhD in computer science, electrical engineering, bioinformatics, statistics, or equivalent • Research experience in machine learning with strong publication record • Strong algorithm and numeric computation background • Programming experience in Python, C++, or other languages • Experience with deep learning libraries and platforms a plus, e.g. PyTorch, TensorFlow, or Caffe Application Link: https://www.appone.com/MainInfoReq.asp?R_ID=3206183 Best regards, Martin Renqiang Min Machine Learning Group NEC Laboratories America http://www.cs.toronto.edu/~cuty -------------- next part -------------- An HTML attachment was scrubbed... URL: From Ola.Spjuth at farmbio.uu.se Tue Jan 12 14:26:21 2021 From: Ola.Spjuth at farmbio.uu.se (Ola Spjuth) Date: Tue, 12 Jan 2021 13:26:21 +0000 Subject: [SocBiN] 3 open positions at Uppsala University Message-ID: I have 3 open positions (2 PhD and 1 Postdoc) in my research group (www.pharmb.io) at Uppsala University to expand our robotized lab towards autonomous phenomics with applications in precision cancer medicine. If you are interested in a combination of AI, lab automation and cell profiling with high-content microscopy imaging to develop efficient drug combination therapies, then have a look at these positions: - Position 1: PhD Student in Pharmaceutical Science with a focus on automated phenotypic drug profiling - Position 2: PhD student in pharmaceutical bioinformatics with a focus on analysis of high-content imaging with AI - Position 3: Postdoc with a focus on analysis of high-content imaging with AI Read more at: https://pharmb.io/blog/open-positions-precision-cancer-medicine-2021/ -- Ola Spjuth, Professor Department of Pharmaceutical Biosciences Director of Studies, Pharmaceutical Bioinformatics Box 591, Uppsala University, Uppsala, Sweden Email: ola.spjuth at farmbio.uu.se Ph: +46 (0)70 425 06 28 Web: https://pharmb.io N?r du har kontakt med oss p? Uppsala universitet med e-post s? inneb?r det att vi behandlar dina personuppgifter. F?r att l?sa mer om hur vi g?r det kan du l?sa h?r: http://www.uu.se/om-uu/dataskydd-personuppgifter/ E-mailing Uppsala University means that we will process your personal data. For more information on how this is performed, please read here: http://www.uu.se/en/about-uu/data-protection-policy -------------- next part -------------- An HTML attachment was scrubbed... URL: From Victor.Renault at curie.fr Tue Jan 19 17:03:05 2021 From: Victor.Renault at curie.fr (Renault Victor) Date: Tue, 19 Jan 2021 16:03:05 +0000 Subject: [SocBiN] Bioinformatics Engineer (6 months) in Clinical Bioinformatics, Curie Institute, Paris, France In-Reply-To: <027bcc0d31c548b5a725b5f5d428f0e1@curie.fr> References: <361726eb762b45db8f69af168dab34c6@curie.fr>, <027bcc0d31c548b5a725b5f5d428f0e1@curie.fr> Message-ID: Hello, the following position is available at Curie Institute in Paris from April 2021. Thank you in advance, best regards, Victor Renault Bioinformatics Engineer (6 months) in Clinical Bioinformatics, Curie Institute, Paris, France Mission: In prevision of a maternity leave, a fixed-term contract of 6 months is available from April 2021 within the Clinical Bioinformatics Group included inside the Diagnostic and Theranostic Medecine Division of Curie Institute in Paris, France. Main activities: * Implementation of analysis pipelines * Developpement of custom tools for clinical diagnostic * Calibration and validation of analysis pipelines * Help to functionally interpret results using various databases * Contribute to the evolution and maintenance of diagnostic pipelines: updates, bug reporting, validations * Contribute to research projects associated with clinical trials * Regular progress meetings with biologists * Technological watch Required skills: * Proficient with Unix/Linux environment * Proficient in at least of the following programming languages (ideally with experience with several of them): python, java, R or any other object-oriented programming language * Good knowledge of standard bioinformatics tools for analyzing and interpreting Next Generation Sequencing data (DNA and RNAseq) * Have an interest for interactions with biologists * Rigorous, dynamic, autonomous * Excellent team work Desired skills: * Good knowledge in algorithmics * Code versioning using git * Proficient in English (oral and written) * Some skills in one or several of the following is highly advantageous: usage of calculation cluster (SGE / SLURM / LSF / MOAB, etc.), experience with distributed programming, usage of GPU, experience in machine learning / deep learning * Some knowledge in oncology is advantageous Diploma: * A PhD or MSc in Bioinformatics * A first experience Next Generation data analysis is preferred In order to apply, please send an email with your resume and a cover letter to bioinfo-clinique[AT]curie.fr -------------- next part -------------- An HTML attachment was scrubbed... URL: From clu at intomics.com Tue Jan 19 17:13:24 2021 From: clu at intomics.com (Claus Lundegaard) Date: Tue, 19 Jan 2021 17:13:24 +0100 Subject: [SocBiN] Bioinformatics specialist Message-ID: <5DE72DFB-BCC5-4C43-9F89-FB793CB274E5@intomics.com> -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: Bioinformatician_2021_01.pdf Type: application/pdf Size: 105962 bytes Desc: not available URL: -------------- next part -------------- An HTML attachment was scrubbed... URL: From vicente.pelechano.garcia at ki.se Tue Jan 19 19:40:24 2021 From: vicente.pelechano.garcia at ki.se (Vicente Pelechano Garcia) Date: Tue, 19 Jan 2021 18:40:24 +0000 Subject: [SocBiN] Proteomics-Genomics Bioinformatician position in Berlin In-Reply-To: <1B396D69-DFFC-4857-A857-D231444891EC@scilifelab.se> References: <2F14E2CD-BD89-448F-8EEC-F08658922D8E@mdc-berlin.de> <1B396D69-DFFC-4857-A857-D231444891EC@scilifelab.se> Message-ID: <5CB19BAC-3938-42B5-AE4C-6290C7954E64@ki.se> Dear colleagues, We are looking for a data scientist / bioinformatician interested to work at the interface of proteomics and genomics. The position is shared between the Piazza laboratory (https://www.mdc-berlin.de/piazza) and the proteomics platform led by Philipp Mertins at the MDC. The job is funded directly from the Helmholtz association and it has long-term prospectives ( = possibility of a permanent contract) . Basically…. One of those very rare positions in academia. The advertisement is open. Apply here: https://jobrxiv.org/job/mdc-berlin-27778-staff-scientist-phd-post-doctoral-position-in-bioinformatics-100-proteomics-and-genomics/ For further details contact: ilaria.piazza at mdc-berlin.de Thank you very much Dr. Ilaria Piazza Max Delbrück Center for Molecular Medicine (MDC) in der Helmholtz-Gemeinschaft Building 31.1. 3rd Floor, Room 3001. Robert-Rössle-Straße 10 Tel: +49 30 9406 3772 13125 Berlin, Germany. ilaria.piazza at mdc-berlin.de IPlab.mdc at gmail.com www.thewittysquare.eu Twitter: @theWittySquare - * - *- * - *- * - *- * - *- * - *- - * - *- * - *- * - *- * - *- * - *- När du skickar e-post till Karolinska Institutet (KI) innebär detta att KI kommer att behandla dina personuppgifter. Här finns information om hur KI behandlar personuppgifter. Sending email to Karolinska Institutet (KI) will result in KI processing your personal data. You can read more about KI’s processing of personal data here. -------------- next part -------------- An HTML attachment was scrubbed... URL: From shilpa.garg2k7 at gmail.com Thu Jan 21 15:44:21 2021 From: shilpa.garg2k7 at gmail.com (shilpa) Date: Thu, 21 Jan 2021 15:44:21 +0100 Subject: [SocBiN] Bioinformatics/CS postdoc job position In-Reply-To: References: Message-ID: Hello, I am Shilpa Garg, an assistant professor at University of Copenhagen. My lab is looking for a postdoc who is interested in novel sophisticated bioinformatics/computer science models to integrate complex biological datasets and their applications to diseases and evolution. Interested candidates are encouraged to apply here: https://employment.ku.dk/faculty/?show=153363. *The deadline is Feb 14.* Thank you. -- Regards, Shilpa -- Regards, Shilpa -------------- next part -------------- An HTML attachment was scrubbed... URL: From shilpa.garg2k7 at gmail.com Thu Jan 21 15:44:21 2021 From: shilpa.garg2k7 at gmail.com (shilpa) Date: Thu, 21 Jan 2021 15:44:21 +0100 Subject: [SocBiN] Bioinformatics/CS postdoc job position In-Reply-To: References: Message-ID: Hello, I am Shilpa Garg, an assistant professor at University of Copenhagen. My lab is looking for a postdoc who is interested in novel sophisticated bioinformatics/computer science models to integrate complex biological datasets and their applications to diseases and evolution. Interested candidates are encouraged to apply here: https://employment.ku.dk/faculty/?show=153363. *The deadline is Feb 14.* Thank you. -- Regards, Shilpa -- Regards, Shilpa -------------- next part -------------- An HTML attachment was scrubbed... URL: From Tatiana.Starikovskaya at ens.fr Thu Jan 21 21:06:41 2021 From: Tatiana.Starikovskaya at ens.fr (Tatiana Starikovskaya) Date: Thu, 21 Jan 2021 21:06:41 +0100 Subject: [SocBiN] Final CFP: 32nd Annual Symposium on Combinatorial Pattern Matching (CPM 2021) Message-ID: <4D1E0A29-DFFC-462E-B14C-8F8F05BB7F35@di.ens.fr> (Apologies for multiple copies) The Annual Symposium on Combinatorial Pattern Matching (CPM) has by now over 30 years of tradition and is considered to be the leading conference for the community working on Stringology. The objective of the annual CPM meetings is to provide an international forum for research in combinatorial pattern matching and related applications such as computational biology, data compression and data mining, coding, information retrieval, natural language processing, and pattern recognition. 
 The 32nd Annual Symposium on Combinatorial Pattern Matching (CPM 2021) will be held in Wroclaw, Poland, July 5-7, 2021 in a hybrid mode (with reduced fees for remote participants). WEBSITE OF THE CONFERENCE: http://cpm2021.ii.uni.wroc.pl/ DEADLINE: Friday, January 29, 2021, anywhere on Earth. By multiple requests related to COVID-19 pandemic, re-submission of papers uploaded before the deadline will be allowed until Friday, February 5, 2021. 
 ================================
 CALL FOR PAPERS Papers on original research unpublished elsewhere in all areas related to combinatorial pattern matching and its applications are welcome. The proceedings will be published by LIPIcs (of Dagstuhl). TOPICS OF INTEREST Papers are solicited on, but not limited to, the following topics: Bioinformatics and computational biology Coding and data compression Combinatorics on words Data mining Information retrieval Natural language processing Pattern discovery String algorithms String processing in databases Symbolic computing Text searching and indexing KEYNOTE SPEAKERS Hideo Bannai (Tokyo Medical and Dental University, Japan) Michal Koucký (Charles University, Czech Republic) Nadia Pisanti (University of Pisa, Italy & Erable Team INRIA, France) 
 HIGHLIGHT SPEAKERS Panagiotis Charalampopoulos (Interdisciplinary Center Herzliya)
 Travis Gagie (Dalhousie University)
 STUDENT SUMMER SCHOOL Martin Farach-Colton (Rutgers University) Jakub Radoszewski (University of Warsaw) SUBMISSION Submission is through the EasyChair conference system: https://easychair.org/conferences/?conf=cpm2021 SUBMISSION FORMAT The authors should submit an extended abstract not exceeding 15 pages, including figures, title, authors, affiliations, e-mail addresses, and a short abstract. The authors are required to use the LaTeX style file supplied by Dagstuhl (LIPIcs) with the original settings (including the font size and the margins). References will not be counted in the page limit. At least one author of an accepted paper is expected to present the paper at the conference as a registered participant. Papers must be submitted as a single file in PDF format. Additional material intended for the referee but not for publication in the final version—for example details of proofs—may be placed in a clearly marked appendix that is not included in the page limit. Papers submitted for review should represent original, previously unpublished work. At the time the extended abstract is submitted to CPM, and for the entire review period, the paper (or essentially the same paper) should not be under review by any other conference with published proceedings or by a scientific journal. COVID-19 We are carefully watching the situation with the Covid-19 pandemic. We hope to conduct a physical event, but we will certainly offer the possibility of remote participation (with a lower registration fee) for those who are unable to come due to travel restrictions or other circumstances. In the worst case, we will move the event online but are not planning to postpone it. PROGRAM COMMITTEE MEMBERS Golnaz Badkobeh (Goldsmiths University of London, UK) Frédérique Bassino (University Paris 13, France) Christina Boucher (University of Florida, USA) Laurent Bulteau (CNRS and Université Paris-Est Marne-la-Vallée, France) Raphaël Clifford (University of Bristol, UK) Fabio Cunial (MPI-CBG, Germany) Funda Ergun (Indiana University, USA) Paweł Gawrychowski (University of Wrocław, Poland), Co-Chair Inge Li Gørtz (Technical University of Denmark) Stepan Holub (Charles University in Prague, Czech Republic) Tomohiro I (Kyushu Institute of Technology, Japan) Shunsuke Inenaga (Kyushu University, Japan) Tomasz Kociumaka (University of California, Berkeley, USA) Christian Komusiewicz (Philipps-Universität Marburg, Germany) Dmitry Kosolobov (Ural Federal University, Russia) Gad M. Landau (University of Haifa, Israel) Florin Manea (University of Göttingen, Germany) Pierre Peterlongo (INRIA, France) Cinzia Pizzi (University of Padova, Italy) Leena Salmela (University of Helsinki, Finland) Srinivasa Rao Satti (Seoul National University, South Korea) Marinella Sciortino (University of Palermo, Italy) Braha-Riva Shalom (Shenkar College of Engineering and Design, Israel) Tatiana Starikovskaya (École normale supérieure, France), Co-Chair Yasuo Tabei (RIKEN, Japan) Tomasz Waleń (University of Warsaw, Poland) -------------- next part -------------- An HTML attachment was scrubbed... URL: From vignesh.bioinfo at gmail.com Fri Jan 22 12:27:33 2021 From: vignesh.bioinfo at gmail.com (vigneshwari subramanian) Date: Fri, 22 Jan 2021 12:27:33 +0100 Subject: [SocBiN] Fwd: Postdoc in Machine Learning for Single-cell Genomics in Cancer In-Reply-To: References: Message-ID: Deal all, Please find below a great opportunity for those interested in Machine Learning and Single Cell Genomics. Best regards, Vigneshwari Subramanian ---------- Forwarded message --------- From: Julio Saez Rodriguez Date: Mon, Jan 18, 2021 at 4:52 PM Subject: Postdoc in Machine Learning for Single-cell Genomics in Cancer To: Julio Saez Rodriguez Dear Colleagues, We are looking for a postdoc to develop deep learning methods for single-cell genomics in cancer. The position is part of a collaboration with the groups of Oliver Stegle and Karsten Rippe (DFKZ), Fabian Theis (Helmholtz Center Munich) and Marc Raab (Heidelberg University Hospital). The main methodological focus will be to include biological knowledge on machine learning methods developed closely with the Theis and Stegle groups. There is no strict deadline, but priority will be given to applications by February 1st. Starting date is aimed for March 2021or soon thereafter. Candidates should email their CV (including names of three references) and a letter of interest to jobs.saez {at} bioquant.uni-heidelberg.de. More information here: https://jobrxiv.org/job/heidelberg-university-hospital-27778-postdoc-in-machine-learning-for-single-cell-genomics-in-cancer/ I would be very grateful if you could forward this message to people that might be interested and post it within your institutions. Many thanks in advance. Best wishes, Julio Saez-Rodriguez -------------- next part -------------- An HTML attachment was scrubbed... URL: From esa.pitkanen at cs.helsinki.fi Sun Jan 24 15:39:48 2021 From: esa.pitkanen at cs.helsinki.fi (=?UTF-8?Q?Esa_Pitk=c3=a4nen?=) Date: Sun, 24 Jan 2021 16:39:48 +0200 Subject: [SocBiN] Postdoc position in hematological single-cell genomics Message-ID: <26130252-7370-abdb-b13f-d830bf9a66ca@cs.helsinki.fi> Dear colleagues, we have an open position in Helsinki for a postdoc in hematological single-cell genomics and machine learning. Students with the PhD degree close to completion are encouraged to apply. Please apply at latest Feb 19. More info at https://www.helsinki.fi/en/open-positions/postdoctoral-fellow-in-hematological-single-cell-genomics - feel free to contact me if you have questions, and please forward this info to suitable candidates. Kind regards, Esa -- Esa Pitkänen, PhD, FIMM-EMBL Group Leader Institute for Molecular Medicine Finland (FIMM) Nordic EMBL Partnership for Molecular Medicine Biomedicum Helsinki 2U P.O. Box 20 (Tukholmankatu 8) FI-00014 University of Helsinki Finland -------------- next part -------------- An HTML attachment was scrubbed... URL: From prash at bioclues.org Mon Jan 25 09:57:47 2021 From: prash at bioclues.org (Prash) Date: Mon, 25 Jan 2021 14:27:47 +0530 Subject: [SocBiN] Postdoc in Machine Learning for Single-cell Genomics in Cancer In-Reply-To: References: Message-ID: Courtesy of socbin > Dearl all, > Please find below a great opportunity for those interested in Machine > Learning and Single Cell Genomics. > > Best regards, > Vigneshwari Subramanian > > ---------- Forwarded message --------- > From: Julio Saez Rodriguez > Date: Mon, Jan 18, 2021 at 4:52 PM > Subject: Postdoc in Machine Learning for Single-cell Genomics in Cancer > To: Julio Saez Rodriguez > > > Dear Colleagues, > > We are looking for a postdoc to develop deep learning methods for > single-cell genomics in cancer. The position is part of a collaboration > with the groups of Oliver Stegle and Karsten Rippe (DFKZ), Fabian Theis > (Helmholtz Center Munich) and Marc Raab (Heidelberg University Hospital). > The main methodological focus will be to include biological knowledge on > machine learning methods developed closely with the Theis and Stegle groups. > > There is no strict deadline, but priority will be given to applications by > February 1st. Starting date is aimed for March 2021or soon thereafter. Candidates > should email their CV (including names of three references) and a letter of > interest to jobs.saez {at} bioquant.uni-heidelberg.de. > > More information here: > https://jobrxiv.org/job/heidelberg-university-hospital-27778-postdoc-in-machine-learning-for-single-cell-genomics-in-cancer/ > > I would be very grateful if you could forward this message to people that might be interested > and post it within your institutions. > > Many thanks in advance. > > Best wishes, > > Julio Saez-Rodriguez > > -- Prashanth N Suravajhala, Ph.D. Senior Scientist, Systems Biology Department of Biotechnology and Bioinformatics Birla Institute of Scientific Research Statue Circle, Jaipur 302001 RJ, India Telephone: (work) +91-141-2385094. Extension 308 E mail: prash[AT]bisr[DOT]res[DOT]in Home page: http://www.bioinformatics.org/wiki/Prash Twitter: @prashbio "Each problem that I solved became a rule, which served afterwards to solve other problems." ~ Rene Descartes -------------- next part -------------- An HTML attachment was scrubbed... URL: From michael.hiller at senckenberg.de Thu Jan 28 13:55:13 2021 From: michael.hiller at senckenberg.de (Michael Hiller) Date: Thu, 28 Jan 2021 13:55:13 +0100 Subject: [SocBiN] Postdoc Position in Comparative Genomics at Senckenberg Frankfurt Message-ID: <5EC64CE9-44F6-4A4C-8573-78F3CE24BE69@senckenberg.de> The Hiller Lab at the LOEWE Center for Translational Biodiversity Genomics (TBG) in Frankfurt, Germany is looking for an ambitious Postdoc to investigate the genomic basis of phenotypic differences between vertebrates. Project The project aims at linking phenotypic adaptations to genomic differences, which is a central goal in the genomics era. The postdoc is expected to capitalize on a powerful repertoire of Forward Genomic and other methods as well as genome alignments and comparative data for several hundred mammals and birds that the lab has generated. A large list of interesting adaptations including metabolic, physiological and morphological traits in bats, dolphins, other mammals and vertebrates is available to be studied, and choices can be influenced by the preference of the postdoc. 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 genome sequencing and assembly, genome alignment and annotation, development and application of comparative genomic methods to discover differences in genes and cis-regulatory elements, and the use of statistical approaches to link phenotypic to genomic changes [1-8]. Our lab is part of TBG (https://tbg.senckenberg.de/ ) and Senckenberg Research Society, and is based near the city center of Frankfurt am Main, Germany. The TBG provides access to cutting-edge computational infrastructure (HPC, genome browser) and lab facilities to sequence genomes of diverse creatures. English is the working language in our lab. Frankfurt is a vibrant and highly-international city at the heart of Europe that combines a skyscraper skyline with ample park and green areas. Requirements Applicants should have a degree in bioinformatics/computational biology, genomics or a related area, and a strong publication record. Solid programming skills in a Linux environment and experience with shell scripting and Unix tools are required. Previous experience in large-scale comparative genomic data analysis is an advantage. How to apply If interested, please email (i) your CV including publication list and contact information for at least two references and (ii) a summary of previous research experience (max 1 page) to Michael Hiller (Michael.Hiller at sen­­­­ckenberg.de). Further information: https://tbg.senckenberg.de/personen/hiller/ The position is fully-funded. Salary and benefits are according to TV-H E13 100%. The position will be initially for 2 years, but funding is available to extend it further. The employer is the Senckenberg Society for Nature Research in Frankfurt am Main. Senckenberg supports equal opportunity of men and women and therefore strongly invites women to apply. Equally qualified handicapped applicants will be given preference. Application deadline is February 26th 2021. The position is available immediately and the search continues until the position has been filled. Recent publications [1] Jebb et al. Six reference-quality genomes reveal evolution of bat adaptations. Nature, 583, 578–584, 2020 [2] Huelsmann et al. Genes lost during the transition from land to water in cetaceans highlight genomic changes associated with aquatic adaptations. Science Adv, 5(9), eaaw6671, 2019 [3] Hecker et al. Convergent gene losses illuminate metabolic and physiological changes in herbivores and carnivores. PNAS, 116(8), 3036-3041, 2019 [4] Roscito et al. Phenotype loss is associated with widespread divergence of the gene regulatory landscape in evolution. Nature Communications, 9:4737, 2018 [5] Langer et al. REforge associates transcription factor binding site divergence in regulatory elements with phenotypic differences between species. MBE, 35(12), 3027–3040, 2018 [6] Lee et al. Molecular parallelism in fast-twitch muscle proteins in echolocating mammals. Science Adv, 4(9), eaat9660, 2018 [7] Sharma et al. A genomics approach reveals insights into the importance of gene losses for mammalian adaptations. Nature Communications, 9(1), 1215, 2018 [8] Nowoshilow et al. The axolotl genome and the evolution of key tissue formation regulators. Nature, 554(7690), 50-55, 2018 -- Michael Hiller, PhD Professor of Comparative Genomics LOEWE Centre for Translational Biodiversity Genomics, Senckenberg Society for Nature Research & Goethe University, Frankfurt am Main, Germany -------------- next part -------------- An HTML attachment was scrubbed... URL: