| ProteinBERT: a universal deep-learning model of protein sequence and function | 2 | 0.40 | 2022 |
| Functional Evolutionary Modeling Exposes Overlooked Protein-Coding Genes Involved in Cancer. | 0 | 0.34 | 2020 |
| BIRD: identifying cell doublets via biallelic expression from single cells. | 0 | 0.34 | 2020 |
| PWAS - Proteome-Wide Association Study. | 0 | 0.34 | 2020 |
| ASAP: a machine learning framework for local protein properties. | 0 | 0.34 | 2016 |
| ProFET: Feature engineering captures high-level protein functions. | 1 | 0.35 | 2015 |
| Message from the ISCB: ISCB Ebola award for important future research on the computational biology of Ebola virus. | 0 | 0.34 | 2015 |
| ISCB Ebola Award for Important Future Research on the Computational Biology of Ebola Virus. | 0 | 0.34 | 2015 |
| NeuroPID: a predictor for identifying neuropeptide precursors from metazoan proteomes. | 5 | 0.50 | 2014 |
| Speed controls in translating secretory proteins in eukaryotes--an evolutionary perspective. | 1 | 0.45 | 2014 |
| Entropy-driven partitioning of the hierarchical protein space. | 1 | 0.36 | 2014 |
| The automated function prediction SIG looks back at 2013 and prepares for 2014. | 3 | 0.42 | 2014 |
| Translation Efficiency of Synaptic Proteins and Its Coding Sequence Determinants. | 0 | 0.34 | 2013 |
| miRror2.0: a platform for assessing the joint action of microRNAs in cell regulation. | 0 | 0.34 | 2013 |
| Functional inference by ProtoNet family tree: the uncharacterized proteome of Daphnia pulex. | 6 | 0.36 | 2013 |
| ISCB/SPRINGER series in computational biology. | 0 | 0.34 | 2013 |
| Susceptibility of the human pathways graphs to fragmentation by small sets of microRNAs. | 1 | 0.35 | 2012 |
| Viral proteins acquired from a host converge to simplified domain architectures. | 1 | 0.35 | 2012 |
| ProtoNet 6.0: organizing 10 million protein sequences in a compact hierarchical family tree. | 5 | 0.46 | 2012 |
| Paving the future: finding suitable ISMB venues. | 1 | 0.43 | 2012 |
| Generative probabilistic models for protein-protein interaction networks--the biclique perspective. | 9 | 0.53 | 2011 |
| ARISTO: ontological classification of small molecules by electron ionization-mass spectrometry. | 3 | 0.50 | 2011 |
| Recovering key biological constituents through sparse representation of gene expression. | 2 | 0.40 | 2011 |
| Geometric interpretation of gene expression by sparse reconstruction of transcript profiles | 0 | 0.34 | 2011 |
| A predictor for toxin-like proteins exposes cell modulator candidates within viral genomes. | 1 | 0.36 | 2010 |
| PANDORA: analysis of protein and peptide sets through the hierarchical integration of annotations. | 6 | 0.47 | 2010 |
| SPRINT: side-chain prediction inference toolbox for multistate protein design. | 4 | 0.52 | 2010 |
| Exposing the co-adaptive potential of protein-protein interfaces through computational sequence design. | 2 | 0.40 | 2010 |
| MiRror: a combinatorial analysis web tool for ensembles of microRNAs and their targets. | 10 | 0.54 | 2010 |
| UFFizi: a generic platform for ranking informative features. | 9 | 0.35 | 2010 |
| ClanTox: a classifier of short animal toxins. | 5 | 0.53 | 2009 |
| ISMB 2008 Toronto. | 0 | 0.34 | 2008 |
| Bioinformatics Research and Development: Second International Conference, BIRD 2008 Vienna, Austria, July 7-9, 2008 Proceedings | 49 | 3.75 | 2008 |
| Connect the dots: exposing hidden protein family connections from the entire sequence tree. | 2 | 0.45 | 2008 |
| Efficient algorithms for accurate hierarchical clustering of huge datasets: tackling the entire protein space. | 21 | 1.19 | 2008 |
| When less is more: improving classification of protein families with a minimal set of global features | 3 | 0.40 | 2007 |
| EVEREST: a collection of evolutionary conserved protein domains. | 7 | 0.58 | 2007 |
| Clustering algorithms optimizer: a framework for large datasets | 2 | 0.38 | 2007 |
| Unsupervised feature selection under perturbations: meeting the challenges of biological data. | 3 | 0.38 | 2007 |
| The secrets of a functional synapse--from a computational and experimental viewpoint. | 21 | 0.37 | 2006 |
| Novel unsupervised feature filtering of biological data. | 70 | 3.84 | 2006 |
| EVEREST: automatic identification and classification of protein domains in all protein sequences. | 33 | 0.65 | 2006 |
| ProTarget: automatic prediction of protein structure novelty. | 0 | 0.34 | 2005 |
| Families of membranous proteins can be characterized by the amino acid composition of their transmembrane domains. | 2 | 0.40 | 2005 |
| ProtoNet 4.0: a hierarchical classification of one million protein sequences. | 27 | 1.74 | 2005 |
| Predicting fold novelty based on ProtoNet hierarchical classification. | 4 | 0.52 | 2005 |
| COMPACT: a comparative package for clustering assessment | 7 | 1.00 | 2005 |
| ProTeus: identifying signatures in protein termini. | 2 | 0.38 | 2005 |
| Automatic detection of false annotations via binary property clustering. | 2 | 0.42 | 2005 |
| A functional hierarchical organization of the protein sequence space. | 23 | 1.25 | 2004 |
