Currents in Bioinformatics

  • Seminarleiter: Purva Kulkarni
  • Termin: Di 16-18, SR 3423 EAP

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

Termin Thema Vortragender Backup
21.10.  Organisatorisches, Besprechen der Themen
28.10.
04.11. Wang Y, Kora G, Bowen BP, Pan C
MIDAS: A Database-Searching Algorithm for Metabolite Identification in Metabolomics
Anal Chem, 86(19), 9496-503, 2014
Kai
11.11. Gupta N, Bandeira N, Keich U, Pevzner PA
Target-decoy approach and false discovery rate: when things may go wrong
J Am Soc Mass Spectrom, 22(7), 1111-20, 2011
Kerstin
18.11.  Labarre A, Verwer S
Merging Partially Labelled Trees: Hardness and a Declarative Programming Solution
Computational Biology and Bioinformatics, IEEE/ACM Transactions, 11(2), 389-97, 2014
 Tim
25.11. Ma Y, Kind T, Yang D, Leon C, Fiehn O
MS2Analyzer: A Software for Small Molecule Substructure Annotations from Accurate Tandem Mass Spectra
Anal Chem, 2014
Marcus
02.12. Pietro Franceschi and Ron Wehrens
Self-organizing maps: A versatile tool for the automatic analysis of untargeted imaging datasets
Proteomics, Volume 14, Issue 7-8, pages 853–861, April 2014
 Purva
09.12.  (No journal club held)
16.12.  (No journal club held)
23.12. Weihnachtspause
30.12. Weihnachtspause
06.01. Barry JA1, Robichaud G, Muddiman DC
Mass recalibration of FT-ICR mass spectrometry imaging data using the average frequency shift of ambient ions.
J Am Soc Mass Spectrom. 2013 Jul;24(7):1137-45. doi: 10.1007/s13361-013-0659-0.
 Purva
13.01. Kind T, Liu KH, Lee do Y, DeFelice B, Meissen JK, Fiehn O
LipidBlast in silico tandem mass spectrometry database for lipid identification
Nat Methods, 10(8), 755-8, 2013
Franzi
20.01.  Yu T, Jones DP
Improving peak detection in high-resolution LC/MS metabolomics data using preexisting knowledge and machine learning approach
Bioinformatics, 30(20), 2941-8, 2014
Marvin
27.01.  Ling et. al.
A new antibiotic kills pathogens without detectable resistance
Nature (2015) doi:10.1038/nature14098
 Sebastian
03.02.  Christian Bischof and Martin Buecker
Computing Derivatives of Computer Programs
Modern Methods and Algorithms of Quantum Chemistry, Proceedings, Second Edition, J. Grotendorst (Ed.), NIC Series, Vol. 3, ISBN 3-00-005834-6, pp. 315-327, 2000
Martin
10.02.  Master’s student Defense

Further paper:

Dörr D, Stoye J, Böcker S, Jahn K
Identifying Gene Clusters by Discovering Common Intervals in Indeterminate Strings
BMC Genomics, 15(Suppl 6):S2, 2014

Dittwald P, Nghia VT, Harris GA, Caprioli RM, Plase RV, Laukens K, Gambin A, Valkenborg D
Towards automated discrimination of lipids versus peptides from full scan mass spectra
EuPA Open Proteomics, 4, 87-100, 2014

Holton TA, Wilkinson M, Pisani D
The shape of modern tree reconstruction methods
Syst Biol, 63(3), 436-41, 2014

Kotera M, Tabei Y, Yamanishi Y, Muto A, Moriya Y, Tokimatsu T, Goto S
Metabolome-scale prediction of intermediate compounds in multistep metabolic pathways with a recursive supervised approach
Bioinformatics, 30(12), i165-74, 2014