| HT | HT-02 | Ludwig Geistlinger
From Sets To Graphs: Towards a Realistic Enrichment Analysis of Transcriptomic Systems |
| HT-15 | Florian Rasche, Ales Svatos, Ravi Kumar Maddula, Christoph Böttcher and Sebastian Böcker
Fragmentation trees from mass spectra: a step towards metabolite identification |
| HT-18 | Sergio Grimbs, Anne Arnold, Aneta Koseska, Jürgen Kurths, Joachim Selbig and Zoran Nikoloski
Spatiotemporal dynamics of the Calvin cycle: Multistationarity and symmetry breaking instabilities |
| HT-21 | Caroline C. Friedel, Lars Dölken and Ralf Zimmer
High resolution profiling of RNA synthesis and decay |
| HT-22 | Jan Krumsiek, Karsten Suhre, Thomas Illig, Jerzy Adamski and Fabian J. Theis
Gaussian graphical modeling reconstructs pathway reactions from high-throughput metabolomics data |
| HT-28 | Christian Schudoma, Abdelhalim Larhlimi and Dirk Walther
The influence of the local sequence environment on RNA loop structures |
| HT-35 | Fernando Meyer, Stefan Kurtz, Rolf Backofen, Sebastian Will and Michael Beckstette
Structator: fast index-based search for RNA sequence-structure patterns |
| HT-46 | Sebastian Klie
Metabolomic and transcriptomic stress response of Escherichia coli |
| HT-58 | Jens Keilwagen, Jan Grau, Ivan A. Paponov, Stefan Posch, Marc Strickert and Ivo Grosse
De-Novo Discovery of Differentially Abundant DNA Binding Sites Including Their Positional Preference |
| HT-66 | Matthias Heinig, Enrico Petretto, Chris Wallace, Anja Bauerfeind, Stefan Blankenberg, Martin Vingron, Norbert Hubner and Stuart Cook
A conserved trans-acting regulatory locus underlies an inflammatory gene network and susceptibility to autoimmune type 1 diabetes |
| JT | JT-10 | J. Patrick Pett, Daniel H. Mehnert, Jonas Ibn-Salem, Ole Eigenbrod, Raik Otto, Stephan Knorr, Stina-Stephanie M. Richter and Roland Krause
Identification of shared components of protein complexes |
| JT-20 | Huy Dinh, Ortrun Mittelsten Scheid and Arndt Von Haeseler
MethColor: a computational approach to uncover DNA methylation heterogeneity |
| JT-27 | Haroon Naeem, Ralf Zimmer and Robert Küffner
Rigorous assessment of gene set enrichment tests |
| JT-38 | Sabine Hug, Daniel Schmidl, Wei Bo Li, Matthias Greiter and Fabian J. Theis
Bayesian Model Selection for Zirconium Processing in the Human Body after Ingestion |
| JT-40 | Eva Vennmann, Nadine Schneider and Matthias Rarey
Discrimination of permanent and transient heterodimers: The real challenge in the classification of protein-protein interactions |
| JT-41 | Sebastian Dümcke, Martin Seizl, Nicole Pirkl, Steffanie Etzold, Dietmar Martin and Achim Tresch
One Hand Clapping: Detection of condition-specic Transcription Factor Interactions from genome-wide gene activity Data |
| JT-43 | Michael Schwarzfischer, Carsten Marr, Jan Krumsiek, Philipp S. Hoppe, Adam Filipczyk, Timm Schroeder and Fabian J. Theis
Automated cell quantication allows inference of protein half-life from single cell time-lapse microscopy |
| JT-48 | Matthias Böck, Constanze Schmitt and Stefan Kramer
A Study of Dynamic Time Warping for the Inference of Gene Regulatory Relationships |
| JT-49 | Florian Erhard and Ralf Zimmer
Detecting outlier peptides in quantitative High-Troughput mass spectrometry |
| JT-50 | Robert Pesch and Ralf Zimmer
To transfer or not to transfer - Complementing the eukaryotic protein-protein interactome |
| JT-54 | Lukas Windhager, Jonas Zierer and Ralf Zimmer
Module Extraction from Ensembles of Networks |
| JT-56 | Martin Preusse, Andreas Kowarsch, Carsten Marr and Fabian J. Theis
miTALOS: Analyzing the tissue-specific regulation of signaling pathways by human and mouse microRNAs |
| JT-59 | Andre Dau and Johannes Krugel
tt-analyze and tt-generate: Tools to Analyze and Generate Sequences with Trained Statistical Properties |
| JT-64 | Alena Mysickova and Martin Vingron
Detection of interacting transcription factors in human tissues using predicted DNA binding affinity |
| JT-65 | Thomas Hoffmann and Iris Antes
Modeling the variable regions of T-Cell Receptors |
| JT-68 | Manuel Andreas Glaser and Iris Antes
Docking Peptides into MHC Class II Complexes |
| PT | PT-4 | Tim Schäfer, Patrick May and Ina Koch
Extension of protein topologies by ligand interactions: computation and visualization |
| PT-14 | Achim Brunner, Eva Keidel, Josef Kellermann and Friedrich Lottspeich
ICPLQuant - a directed proteomics tool for isotope labelling proteomics |
| PT-17 | Tobias Petri, Evi Berchtold, Ralf Zimmer and Caroline C. Friedel
Detection and correction of probe-level measurement artefacts on microarrays |
| PT-25 | Ivan Kondofersky
Estimating hidden components in kinetic systems using functional data analysis |
| PT-33 | Rainer Von Den Berken and Markus Gumbel
OODB4Genomics: An object-oriented database approach for biomedical data in clinical bioinformatics |
| PT-36 | Hendrik Schäfer and Ina Koch
A pipeline to explore alternative splicing events |
| PT-45 | Ferdinand Stückler, Jan Krumsiek, Gabriele Kastenmüller, Susanne Krug, Manuela Rist, Thomas Skurk, Karsten Suhre, Hans Hauner, Hannelore Daniel and Fabian J. Theis
Analysis of metabolic profiles using model-driven metabolite ratios |
| PT-51 | Björn Schwalb, Mai Sun, Daniel Schulz, Nicole Pirkl, Laurent Lariviere, Kerstin Maier, Achim Tresch and Patrick Cramer
Comparative Dynamic Transcriptome Analysis (cDTA) reveals mutual feedback between mRNA synthesis and degradation |
| PT-67 | Alexander Leow
IntronBase: A new resource for mining gene structure of orthologous genes from nine metazoa. |
| PT-73 | Baiba Vilne, Monika Kröger, Rouzanna Istvanffy, Christina Eckl, Franziska Bock, Matthias Schiemann, Christian Peschel, Volker Stümpflen, Hans-Werner Mewes and Robert A.J. Oostendorp
Regulatory networks of hematopoietic stem cells and their micro-environment |
| PT-74 | Manuela Hische, Abdelhalim Larhlimi, Franziska Schwarz, Antje Fischer-Rosinsky, Thomas Bobbert, Anke Assmann, Gareth Catchpole, Andreas Pfeiffer, Lothar Willmitzer, Joachim Selbig and Joachim Spranger
A distinct metabolic signature predicts development of fasting plasma glucose |
| PT-75 | Tina Meyer, Natascha Hill, Ralph Tiedemann and Stefanie Hartmann
Computational Analysis of Mobile Elements in Intron-Sequences of Invertebrates |
| PT-77 | Nadine Albrecht, Hans-Werner Mewes and Thorsten Schmidt
Regulatory action of lincRNAs on alternative transcript events |
| PT-78 | Martin Kötzing, Christoph Kaleta, Martin Bartl and Stefan Schuster
Dynamic Optimization of Nitrogen Assimilation in Chlamydomonas reinhardtii |
| PT-79 | Palani Kannan Kandavel, Markus Goeker and Hans-Peter Klenk
Inferring functional genome classifications from their annotated proteins |
| PT-80 | Andreas Ströhlein, Hon Q. Tran, Antje Krause and Paul M. Selzer
Bacterial Pathogens and their Pan-Proteome - From Next-Generation Sequencing to Target Identification |
| PT-81 | Christine Gläßer, Georg Haberer and Klaus F. X. Mayer
Retrograde Signaling in Plants: its nature and contributing pathways |
| PT-82 | Susann Vorberg, Christian Buning and Ina Koch
Sodium Dependent Glucose Transporter (SGLT) 1 / 2 - Elucidating Inhibitor SAR and Selectivity using Homology Modelling and 3D QSAR Studies |
| PT-83 | Hendrik B. Tiedemann, Elida Schneltzer, Bastian Hoesel, Johannes Beckers, Gerhard K. H. Przemeck and Martin Hrabé De Angelis
From Dynamic Expression Patterns to Boundary Formation in the Presomitic Mesoderm |
| PT-84 | Christoph J. Thieme, Lydia Gramzow and Günter Theißen
SplamiR - Predicting a new class of plant microRNAs |
| PT-85 | Daniel Ellwanger, Florian Büttner, Hans-Werner Mewes and Volker Stümpflen
The sufficient minimal set of miRNA seed types |
| PT-86 | Kai Christian Bader and Harald Meier
Interactive primer- and probe-design with CaSSiS |
| PT-87 | Regina Augustin, Stefan F. Lichtenthaler, Kristina Endres, Sven Reinhardt, Peer-Hendrik Kuhn, Michael Greeff, Daniela Vogt-Weisenhorn, Jens Hansen, Wolfgang Wurst and Dietrich Trümbach
Bioinformatics approach: Regulation of Alzheimer's disease-related genes by modules of TFBSs and microRNAs |
| PT-88 | Christoph Kaleta, Luis Filipe De Figueiredo, Sarah Werner, Reinhard Guthke, Michael Ristow and Stefan Schuster
In Silico Evidence for Gluconeogenesis From Fatty Acids in Humans |
| PT-89 | Florian Heinke, Anne Tuukkanen and Dirk Labudde
Analysis of membrane protein stability in nephrogenic diabetes insipidus by multiple energy profile alignment approach, MEPAL |
| PT-90 | Günter Jäger, Florian Battke and Kay Nieselt
TIALA - Visual Time Series Alignment Analysis |
| PT-91 | Thomas Ulas and Dietmar Schomburg
Genome-scale reconstruction and analysis of the metabolic network in the hyperthermophilic Archaeon Sulfolobus solfataricus |
| PT-92 | Susanne Quester and Dietmar Schomburg
Enzyme Detector - integrated genomic enzyme function prediction |
| PT-93 | Simon Domke, Suparna Mitra, Nico Weber, Stephan Schuster, Thomas Rattei and Daniel Huson
MEGAN-DB - The MEtaGenome ANalyzer DataBase |
| PT-94 | Thomas Bonfert, Gergely Csaba, Ralf Zimmer and Caroline C. Friedel
Maximizing the number of aligned reads from RNA-Seq data |
| PT-95 | Holger Maier, Christoph Lengger, Ralph Steinkamp, Anja Berger, Helmut Fuchs, Valérie Gailus-Durner and Martin Hrabé De Angelis
MausDB: the phenotype- and mouse management system of the German Mouse Clinic |
| PT-96 | Daniela Keller and Joerg Schultz
Language dynamics revealed by morpheme networks |
| PT-97 | Michaela Matthes, Julia Schechter, Martin Preusse, Sebastian Götz, Bernd Lentes, Daniela Mayer, Fabian J. Theis, Wolfgang Wurst, Nilima Prakash and Dietrich Trümbach
IDGenes: A reference database for dynamic modelling of genetic interactions in the developing mouse brain |
| PT-98 | Joachim Nöthen, Jörg Ackermann, Enrico Schleiff and Ina Koch
Reduction techniques for validation of metabolic networks in Arabidopsis thaliana |
| PT-99 | Christian Ried, Jan Kirrbach and Dieter Langosch
Mapping the human single-span membrane proteome for self-interacting transmembrane domains |
| PT-100 | Philipp Gormanns, Stefan Reckow, Joseph C. Poczatek, Chris W. Turck and Claude Lechene
Semi-automated image segmentation of Multi Isotope Imaging Mass Spectrometry data in the ImageJ plugin "OpenMIMS" |
| PT-101 | Rocio Rebollido-Rios and Daniel Hoffmann
The role of calcium ions for the stability of Sonic Hedgehog protein |
| PT-102 | Stefan Dietrich, Natascha Hill, Christoph Bleidorn and Stefanie Hartmann
Survey & evolutionary analysis of snoRNAs in annelid introns. |
| PT-103 | Marius Byl, Thomas Bukur, Jelle Scholtalbers, Ludmila Schemarow, Martin Löwer, John Castle and Ugur Sahin
TEA - TRON Expression Atlas: A Web-based Tool for Visualizing and Interpreting Next Generation Sequencing Expression Data |
| PT-104 | Alexander Schmitz, Jörg Ackermann, Claudia Döring, Martin-Leo Hansmann and Ina Koch
Image analysis of cancerous cells |
| PT-105 | Mohammad Aminisharifabad, Verena Wolf and David Spieler
Efficient Steady State Solution of Stochastic Systems Chemical Reactions |
| PT-106 | Katrin Illner
Bayesian blind source separation of microarray data using graph-delayed correlation |
| PT-107 | Moritz Aschoff, Agnes Hotz-Wagenblatt, Karl-Heinz Glatting, Matthias Fischer, Roland Eils and Rainer König
Computational Analysis of Alternative Splicing in Cancer using RNA-Seq |
| PT-108 | Nils Hoffmann, Mathias Wilhelm, Kai Stadermann and Jens Stoye
Maui and Maltcms - A Graphical User Interface and Application Framework for High-Throughput Metabolomics |
| PT-109 | Malte Mader, Ronald Simon, Sascha Steinbiss and Stefan Kurtz
FISH Oracle: a web server for flexible visualization of DNA copy number data in a genomic context |
| PT-110 | Tim Kacprowski, Nadezhda T. Doncheva, David Buezas and Mario Albrecht
Disease gene prioritization by combining network information and functional knowledge |
| PT-111 | Harald Marx, Thomas Rattei, Simone Lemeer and Bernhard Kuster
MScDB: A mass spectrometry centric protein sequence database |
| PT-112 | Alexander Cecil, Santosh Nilla, Benjamin Schaefer, Christoph Sotriffer and Thomas Dandekar
DrugPoint - a retrieval software and databank to connect proteins, drugs and targets. |
| PT-113 | Timo Lühr, Maurice Scheer, Melanie Busch, Michael Rother, Ida Schomburg and Dietmar Schomburg
BRIME: A tool for visualization of metabolic models |
| PT-114 | René Rex and Dietmar Schomburg
Xeledon: Efficient enumeration of all steady state cycles in metabolic networks |
| PT-115 | Maurice Scheer, Antje Chang, Ida Schomburg, Andreas Grote, Michael Rother, Cornelia Munaretto, Carola Söhngen, Sandra Placzek and Dietmar Schomburg
The BRENDA enzyme information resource in 2011 |
| PT-116 | Martin Macguill, Tobias Petri and Ralf Zimmer
On Risk Stratification Strategies in Intensive Care Medicine |
| PT-117 | Sergii Novotarskyi, Iurii Sushko, Robert Körner and Igor Tetko
Using docking-derived protein-ligand atom pair descriptors to increase performance of QSAR models for human CYP450 inhibition |
| PT-118 | Iurii Sushko, Sergii Novotarskyi, Robert Körner and Igor Tetko
Online chemical modeling environment (OCHEM): web platform for data storage, model development and publishing of physicochemical and biological activities of small molecules |
| PT-119 | Bernhard Renard, Martin Löwer, Jos De Graaf, Mustafa Diken, Özlem Türeci, Cedrik Britten, Sebastian Kreiter, Michael Koslowski, John Castle and Ugur Sahin
Framework for confidence-based somatic mutation detection |
| PT-120 | Mahmut Kara and Martin Zacharias
Comparison of the fine structure and dynamics of damaged and intact DNA |
| PT-121 | Franziska Zickmann and Bernhard Renard
Influence of Target and Decoy Database Size on Peptide Identification Confidence |
| PT-122 | Philipp Koch, Bryan Downie, Andreas Petzold, Niels Jahn, Marco Groth, Stefan Taudien, Kathrin Reichwald and Matthias Platzer
KILAPE: A novel pipeline for the assembly of complex genomes from next-generation sequencing data. |
| PT-123 | Martin S. Lindner and Bernhard Y. Renard
Risks for Specificity and Sensitivity in Metagenomic Classification Experiments |
| PT-124 | Vipul Patel, Geo Velikkakam James, Ales Pecinka and Korbinian Schneeberger
Genotyping-by-sequencing of thousands of individuals |
| PT-125 | Piotr Wojtek Dabrowski, Michael Goltz and Andreas Nitsche
An alignment editing tool for the design of nucleotide sequence-based assays |
| PT-126 | Anton Thomma, Stefanie Widder and Thomas Rattei
Age Classification of Genomic DNA from Metagenomes |
| PT-127 | Xavier Lucas, Björn Andreas Grüning, Christian Senger and Stefan Günther
Compound Library Preparation in Galaxy: Application to HT Docking |
| PT-128 | Tihamer Geyer
Using Dynamic Graphs to Quantitatively Visualize Agglomeration in Spatial Simulations |
| PT-129 | Thomas Weinmaier, Dmitrij Turaev, Yuliang Jin, Hernan Makse and Thomas Rattei
Protein interaction networks - now and then |
| PT-130 | Dmitrij Turaev, Michael Sommer and Thomas Rattei
Evaluation And Comparison Of Different Taxonomic Classification Approaches Of Metagenomic Sequences |
| PT-131 | Jörg Bartel, Melanie Kahle, Jörn Leonhardt, Susanne Neschen and Volker Stümpflen
A systems-biological perspective of non-alcoholic fatty liver disease in mice |
| PT-132 | Dirk Willrodt, Bernhard Haubold and Stefan Kurtz
Memory efficient calculation of phylogenetic distances for whole genome sequences |
| PT-133 | Dmitry Ivankov, Stefano Bonissoni, Pavel Pevzner and Dmitrij Frishman
Analysis of cleaved N-terminal sequences coming from MS/MS proteomics for E.coli and S.cerevisiae |
| PT-134 | Stephan Flemming, Björn Andreas Grüning, Thomas Häupl and Stefan Günther
A framework for analysis of DNA methylation data |
| PT-135 | Jan Budczies, Frederick Klauschen, Wolfgang D Schmitt and Carsten Denkert
CutoffFinder - Cutoff optimization for diagnostic variables and correlation with clinical outcome and survival data |
| PT-136 | Stefan Brandmaier, Ullrika Sahlin, Tomas Öberg and Igor Tetko
Stepwise D-Optimal design based on latent variables |
| PT-137 | Haroon Naeem, Ralf Zimmer and Robert Küffner
Rigorous assessment of gene set enrichment tests |
| PT-138 | Stefan Altmann, Ralf Zimmer and Robert Küffner
Network Inference in Eukaryotes |
| PT-140 | Pegah Tavakkolkhah, Ralf Zimmer and Robert Küffner
Time-sensitive inference of gene regulatory networks |
| PT-141 | Arli A. Parikesit, Peter F. Stadler and Sonja J. Prohaska
Evolution of domain co-occurrences: some striking results |
| PT-142 | Ahmed Abdelaziz, Iurii Sushko, Wolfram Teetz, Robert Körner, Sergii Novotarskyi and Igor Tetko
QSAR modeling for In vitro assays: linking ToxCast database to the integrated modeling framework OCHEM |
| PT-143 | Stefka Tyanova, Jürgen Cox, Dmitrij Frishman and Matthias Mann
Effect of Phosphorylation on Ionization Efficiency during Mass-spectrometry Experiments |
| PT-144 | Ulrike Haase, Marc Bonin, Stephan Flemming, Frank Buttgereit, Till Sörensen and Thomas Häupl
A clinical database for networking in multicenter studies |
| PT-145 | Till Sörensen, Ursula Schulte-Wrede, Andreas Grützkau and Thomas Häupl
Automated and Standardized Clustering of Flow Cytometry Data |
| PT-146 | Konrad Grützmann, Sebastian Böcker and Stefan Schuster
Combinatorics of aliphatic amino acids |
| RT | RT-19 | Martin Macguill, Tobias Petri and Ralf Zimmer
On Risk Stratification Strategies in Intensive Care Medicine |
| RT-31 | Jiabin Huang and Björn Voß
RNAHeliCes - Folding space analysis based on position aware structure abstraction |
| RT-34 | Ralf Eggeling, Jens Keilwagen and Ivo Grosse
Recognition of splice sites and transcription factor binding sites using generalized maximum entropy models |
| RT-44 | Orland Gonzalez, Georg Malterer, Ralf Zimmer and Jürgen Haas
Guilt by Association in Human RNAi Screens |
| RT-47 | Mathias Möhl, Christina Schmiedl and Shay Zakov
Sparsification in Algebraic Dynamic Programming |
| RT-55 | Anna Katharina Dehof, Hans-Peter Lenhof and Andreas Hildebrandt
Predicting Protein NMR Chemical Shifts in the Presence of Ligands and Ions using Force Field-based Features |
| RT-61 | Marco Mernberger and Eyke Huellermeier
Prediction of Protein Localization for Specialized Compartments using Time Series Kernels |
| RT-62 | Andreas S. Richter and Rolf Backofen
Accessibility and conservation in bacterial small RNA-mRNA interactions and implications for genome-wide target predictions |