Currents on Bioinformatics

  • Seminarleiter: Thomas Köhler
  • Termin: Di 16-18h, SR 3423 EAP
  • Beginn: 10.04.2018

Im Journal Club wird wöchentlich ein aktueller Artikel aus der bioinformatischen Forschung vorgestellt und diskutiert.
Details werden in der ersten Veranstaltung besprochen.

Vorläufiger Ablaufplan

Date Paper Presenter and Backup
10.04. Organisatorisches, Besprechen der Themen Martin
17.04. How to read a scientific paper? Sebastian
24.04. Bayesian selection of misspecified models is overconfident and may cause spurious posterior probabilities for phylogenetic trees Marcus
01.05 1. Mai Feiertag
08.05 Outlier detection in BLAST hit volunteer 1
15.05 Dark matter in host-microbiome metabolomics: Tackling the unknowns–A review volunteer 2
22.05 Mordred: a molecular descriptor calculator thomas
Integrating bioinformatics approaches for a comprehensive interpretation of metabolomics datasets. volunteer 3
Molecular graph convolutions: moving beyond fingerprints volunteer 4

List of papers:

        1. Nidhi Shah, Stephen F. Altschul and Mihai Pop
          Outlier detection in BLAST hit
        2. Sahely Bhadra, Peter Blomberg, Sandra Castillo, Juho Rousu
          Principal Metabolic Flux Mode Analysis
        3. Anna Cichonska, Balaguru Ravikumar, Elina Parri, Sanna Timonen, Tapio Pahikkala, Antti Airola, Krister Wennerberg, Juho Rousu, Tero Aittokallio
          Computational-experimental approach to drug-target interaction mapping: A case study on kinase inhibitors
        4. Andreas Kuehne, Urs Mayr, Daniel C. Sévin, Manfred Claassen, Nicola Zamboni
          Metabolic network segmentation: A probabilistic graphical modeling approach to identify the sites and sequential order of metabolic regulation from non-targeted metabolomics data
        5. L Peisl, EL Schymanski, P Wilmes
          Dark matter in host-microbiome metabolomics: Tackling the unknowns–A review
        6. Alexander A. Aksenov, Ricardo da Silva, Rob Knight, Norberto P. Lopes & Pieter C. Dorrestein
          Global chemical analysis of biology by mass spectrometry
        7. Hirotomo Moriwaki,Yu-Shi Tian, Norihito Kawashita and Tatsuya Takagi
          Mordred: a molecular descriptor calculator
        8. Steven Kearnes, Kevin McCloskey, Marc Berndl, Vijay Pande, Patrick Riley
          Molecular graph convolutions: moving beyond fingerprints
        9. Feng Qiu, Zhentian Lei, Lloyd W. Sumner
          MetExpert: An expert system to enhance gas chromatography‒mass spectrometry-based metabolite identifications
        10. DK Barupal, S Fan, O Fiehn
          Integrating bioinformatics approaches for a comprehensive interpretation of metabolomics datasets.
        11. Ziheng Yang and Tianqi Zhu
          Bayesian selection of misspecified models is overconfident and may cause spurious posterior probabilities for phylogenetic trees
        12. Saer Samanipour, Malcolm J. Reid, Kine Bæk and Kevin V. Thomas
          Combining a Deconvolution and a Universal Library Search Algorithm for the Nontarget Analysis of Data-Independent Acquisition Mode Liquid Chromatography−High-Resolution Mass Spectrometry Results
        13. Ricardo R. da Silva, Mingxun Wang, Louis-Félix Nothias, Justin J. J. van der Hooft, Andrés Mauricio Caraballo-Rodríguez, Evan Fox, Marcy J. Balunas, Jonathan L. Klassen, Norberto Peporine Lopes, Pieter C. Dorrestein
          Propagating annotations of molecular networks using in silico fragmentation
        14. Louis J. Cohen et al.
          Commensal bacteria make GPCR ligands that mimic human signalling molecules