Multi-label multi-instance transfer learning for simultaneous reconstruction and cross-talk modeling of multiple human signaling pathways

Mutations in POGLUT1, Encoding Protein O-Glucosyltransferase 1, Cause Autosomal-Dominant Dowling-Degos Disease

(2014) F. Buket Basmanav et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Incorporating the type and direction information in predicting novel regulatory interactions between HIV-1 and human proteins using a biclustering approach

(2014) Anirban Mukhopadhyay et al.   BMC BIOINFORMATICS

Transducin β-like 1 X-linked receptor 1 suppresses cisplatin sensitivity in Nasopharyngeal Carcinoma via activation of NF-κB pathway

(2014) Shu-Peng Chen et al.   Molecular Cancer

A Method for Predicting Protein-Protein Interaction Types

(2014) Yael Silberberg et al.   PLoS One

AdaBoost Based Multi-Instance Transfer Learning for Predicting Proteome-Wide Interactions between Salmonella and Human Proteins

(2014) Suyu Mei et al.   PLoS One

Identifying proteins controlling key disease signaling pathways

(2013) Anthony Gitter et al.   BIOINFORMATICS

SignaLink 2 – a signaling pathway resource with multi-layered regulatory networks

(2013) Dávid Fazekas et al.   BMC Systems Biology

Investigations of TGF-β Signaling in Preantral Follicles of Female Mice Reveal Differential Roles for Bone Morphogenetic Protein 15

(2013) Mark A. Fenwick et al.   ENDOCRINOLOGY

Simultaneous Reconstruction of Multiple Signaling Pathways via the Prize-Collecting Steiner Forest Problem

(2013) Nurcan Tuncbag et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

SVM ensemble based transfer learning for large-scale membrane proteins discrimination

(2013) Suyu Mei   JOURNAL OF THEORETICAL BIOLOGY

Integrating protein-protein interaction networks with phenotypes reveals signs of interactions

(2013) Arunachalam Vinayagam et al.   NATURE METHODS

Probability Weighted Ensemble Transfer Learning for Predicting Interactions between HIV-1 and Human Proteins

(2013) Suyu Mei   PLoS One

Prediction of Oncogenic Interactions and Cancer-Related Signaling Networks Based on Network Topology

(2013) Marcio Luis Acencio et al.   PLoS One

Tumor necrosis factor α-induced proteins: Natural brakes on inflammation

(2012) Peggy Jacques et al.   ARTHRITIS AND RHEUMATISM

Multi-Label Multi-Kernel Transfer Learning for Human Protein Subcellular Localization

(2012) Suyu Mei   PLoS One

MED12 mutations link intellectual disability syndromes with dysregulated GLI3-dependent Sonic Hedgehog signaling

(2012) H. Zhou et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Modular modelling of signalling pathways and their cross-talk

(2012) Robin Donaldson et al.   THEORETICAL COMPUTER SCIENCE

Chapter 4: Protein Interactions and Disease

(2012) Mileidy W. Gonzalez et al.   PLoS Computational Biology

LIBSVM

(2012) Chih-Chung Chang et al.   ACM Transactions on Intelligent Systems and Technology

Gene ontology based transfer learning for protein subcellular localization

(2011) Suyu Mei et al.   BMC BIOINFORMATICS

Not4 enhances JAK/STAT pathway-dependent gene expression in Drosophila and in human cells

(2011) Juha Grönholm et al.   FASEB JOURNAL

Translocation dynamics of sorting nexin 27 in activated T cells

(2011) E. Rincon et al.   JOURNAL OF CELL SCIENCE

Signalogs: Orthology-Based Identification of Novel Signaling Pathway Components in Three Metazoans

(2011) Tamás Korcsmáros et al.   PLoS One

Semi-supervised multi-task learning for predicting interactions between HIV-1 and human proteins

(2010) Y. Qi et al.   BIOINFORMATICS

Discovering pathways by orienting edges in protein interaction networks

(2010) Anthony Gitter et al.   NUCLEIC ACIDS RESEARCH

NetPath: a public resource of curated signal transduction pathways

(2010) Kumaran Kandasamy et al.   GENOME BIOLOGY

Predicting homologous signaling pathways using machine learning

(2009) B. Bostan et al.   BIOINFORMATICS

The crosstalk between EGF, IGF, and Insulin cell signaling pathways - computational and experimental analysis

(2009) Rafal Zielinski et al.   BMC Systems Biology

A Survey on Transfer Learning

(2009) Sinno Jialin Pan et al.   IEEE TRANSACTIONS ON KNOWLEDGE AND DATA ENGINEERING

Interaction between Hhex and SOX13 Modulates Wnt/TCF Activity

(2009) Vanessa Marfil et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Simultaneous Transforming Growth Factor β-Tumor Necrosis Factor Activation and Cross-talk Cause Aberrant Remodeling Response and Myocardial Fibrosis inTimp3-deficient Heart

(2009) Zamaneh Kassiri et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Maintenance of Undifferentiated State and Self-Renewal of Embryonic Neural Stem Cells by Polycomb Protein Ring1B

(2009) Mónica Román-Trufero et al.   STEM CELLS

Computational modeling of mammalian signaling networks

(2009) Jacob J. Hughey et al.   Wiley Interdisciplinary Reviews-Systems Biology and Medicine

Predicting pathway membership via domain signatures

(2008) Holger Fröhlich et al.   BIOINFORMATICS

The GOA database in 2009--an integrated Gene Ontology Annotation resource

(2008) D. Barrell et al.   NUCLEIC ACIDS RESEARCH

Human Protein Reference Database--2009 update

(2008) T. S. Keshava Prasad et al.   NUCLEIC ACIDS RESEARCH