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Research Output 2010 2018

  • 235 Citations
  • 14 Article
  • 1 Conference contribution
  • 1 Review article
2018
25 Citations (Scopus)

A microfluidics platform for combinatorial drug screening on cancer biopsies

Eduati, F., Utharala, R., Madhavan, D., Neumann, U. P., Longerich, T., Cramer, T., Saez-Rodriguez, J. & Merten, C. A., 22 Jun 2018, In : Nature Communications. 9, 1, 13 p., 2434

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
File
Preclinical Drug Evaluations
Microfluidics
Biopsy
Drug Combinations
Tumors
10 Citations (Scopus)

Multi-omics profiling of the tumor microenvironment: Paving the way to precision immuno-oncology

Finotello, F. & Eduati, F., 5 Oct 2018, In : Frontiers in Oncology. 8, OCT, 9 p., 430

Research output: Contribution to journalReview articleAcademicpeer-review

Open Access
File
Tumor Microenvironment
Neoplasms
Ecosystem
Immunity
Therapeutics
2017
26 Citations (Scopus)

Drug resistance mechanisms in colorectal cancer dissected with cell type-specific dynamic logic models

Eduati, F., Doldàn-Martelli, V., Klinger, B., Cokelaer, T., Sieber, A., Kogera, F., Dorel, M., Garnett, M. J., Blüthgen, N. & Saez-Rodriguez, J., 15 Jun 2017, In : Cancer Research. 77, 12, p. 3364-3375 12 p.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Drug Resistance
Colorectal Neoplasms
Pharmaceutical Preparations
Phosphotransferases
Biomarkers
5 Citations (Scopus)

Logic modeling in quantitative systems pharmacology

Traynard, P., Tobalina, L., Eduati, F., Calzone, L. & Saez-Rodriguez, J., 1 Aug 2017, In : CPT: Pharmacometrics & Systems Pharmacology. 6, 8, p. 499-511 13 p.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
File
Pharmacology
Logic
Workflow
Modeling
Experimental Data
2016
5 Citations (Scopus)

A rule-based model of insulin signalling pathway

Di Camillo, B., Carlon, A., Eduati, F. & Toffolo, G. M., 1 Jun 2016, In : BMC Systems Biology. 10, 1, 13 p., 38

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
File
Insulin
Signaling Pathways
Proteins
Dynamic Behavior
Pathway

Rapid identification of optimal drug combinations for personalized cancer therapy using microfluidics

Eduati, F., Utharala, R., Madhavan, D., Neumann, U. P., Cramer, T., Saez-Rodriguez, J. & Merten, C. A., 14 Dec 2016, In : bioRxiv. 34 p.

Research output: Contribution to journalArticleAcademic

Open Access
File
Microfluidics
Drug Combinations
Neoplasms
Precision Medicine
Workflow
2015
4 Citations (Scopus)

DREAMTools: a Python package for scoring collaborative challenges

Cokelaer, T., Bansal, M., Bare, C., Bilal, E., Bot, B. M., Chaibub Neto, E., Eduati, F., de la Fuente, A., Gönen, M., Hill, S. M., Hoff, B., Karr, J. R., Küffner, R., Menden, M. P., Meyer, P., Norel, R., Pratap, A., Prill, R. J., Weirauch, M. T., Costello, J. C. & 2 othersStolovitzky, G. & Saez-Rodriguez, J., 2015, In : F1000Research. 4, 28 p., 1030

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
File
Boidae
Computational methods
Metadata
Medicine
Learning systems
11 Citations (Scopus)

Learning Boolean logic models of signaling networks with ASP

Videla, S., Guziolowski, C., Eduati, F., Thiele, S., Gebser, M., Nicolas, J., Saez-Rodriguez, J., Schaub, T. & Siegel, A., 27 Sep 2015, In : Theoretical Computer Science. 599, September, p. 79-101 23 p., 10393

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
File
Phosphorylation
Answer Set Programming
Mathematical programming
Multiobjective optimization
Genetic algorithms
50 Citations (Scopus)

Prediction of human population responses to toxic compounds by a collaborative competition

Eduati, F., Mangravite, L. M., Wang, T., Tang, H., Bare, J. C., Huang, R., Norman, T., Kellen, M., Menden, M. P., Yang, J., Zhan, X., Zhong, R., Xiao, G., Xia, M., Abdo, N., Kosyk, O., Friend, S., Dearry, A., Simeonov, A., Tice, R. R. & 6 othersRusyn, I., Wright, F. A., Stolovitzky, G., Xie, Y., Saez-Rodriguez, J. & NIEHS-NCATS-UNC DREAM Toxicogenetics Collaboration, 10 Sep 2015, In : Nature Biotechnology. 33, 9, p. 933-940 8 p.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
File
Poisons
Cytotoxicity
Chemical Safety
Metagenomics
Health
2014
10 Citations (Scopus)

Leucine modulates dynamic phosphorylation events in insulin signaling pathway and enhances insulin-dependent glycogen synthesis in human skeletal muscle cells

Di Camillo, B., Eduati, F., Nair, S. K., Avogaro, A. & Toffolo, G. M., 20 Mar 2014, In : BMC Cell BIology. 15, 9 p., 9

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
File
Glycogen
Leucine
Muscle Cells
Skeletal Muscle
Phosphorylation
2013
37 Citations (Scopus)

Exhaustively characterizing feasible logic models of a signaling network using Answer Set Programming

Guziolowski, C., Videla, S., Eduati, F., Thiele, S., Cokelaer, T., Siegel, A. & Saez-Rodriguez, J., 15 Sep 2013, In : Bioinformatics. 29, 18, p. 2320-6 7 p.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
File
Network Programming
Answer Set Programming
Logic
Signal Transduction
Boidae
2012
3 Citations (Scopus)

Dynamic modeling of miRNA-mediated feed-forward loops

Eduati, F., Di Camillo, B., Karbiener, M., Scheideler, M., Corà, D., Caselle, M. & Toffolo, G. M., Feb 2012, In : Journal of Computational Biology. 19, 2, p. 188-199 12 p.

Research output: Contribution to journalArticleAcademicpeer-review

MicroRNA
Dynamic Modeling
Feedforward
MicroRNAs
Genes
24 Citations (Scopus)

Integrating literature-constrained and data-driven inference of signalling networks

Eduati, F., De Las Rivas, J., Di Camillo, B., Toffolo, G. & Saez-Rodriguez, J., 15 Sep 2012, In : Bioinformatics. 28, 18, p. 2311-2317 7 p.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
File
Data-driven
Signal transduction
Information use
Bioinformatics
Liver
11 Citations (Scopus)

Revisiting the training of logic models of protein signaling networks with ASP

Videla, S., Guziolowski, C., Eduati, F., Thiele, S., Grabe, N., Saez-Rodriguez, J. & Siegel, A., 2012, Computational Methods in Systems Biology - 10th International Conference, CMSB 2012, Proceedings. Vol. 7605 LNBI, p. 342-361 20 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 7605)

Research output: Chapter in Book/Report/Conference proceedingConference contributionAcademicpeer-review

Answer Set Programming
Logic
Proteins
Protein
Global Optimality
2011

Adaptation as a genome-wide autoregulatory principle in the stress response of yeast

De Palo, G., Eduati, F., Zampieri, M., Di Camillo, B., Toffolo, G. & Altafini, C., Jul 2011, In : IET Systems Biology. 5, 4, p. 269-79 11 p.

Research output: Contribution to journalArticleAcademicpeer-review

Yeast
Genome
Genes
Yeasts
Gene
2010
14 Citations (Scopus)

A Boolean approach to linear prediction for signaling network modeling

Eduati, F., Corradin, A., Di Camillo, B. & Toffolo, G., 16 Sep 2010, In : PLoS ONE. 5, 9

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
prediction
Reverse engineering
Proteins
Ligands
methodology