Daniel Ziemek

According to our database, Daniel Ziemek authored at least 12 papers between 2011 and 2020.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2020

Standard machine learning approaches outperform deep representation learning on phenotype prediction from transcriptomics data.

Aaron M. Smith, Jonathan R. Walsh, John Long, Craig B. Davis, Peter Henstock, Martin R. Hodge, Mateusz Maciejewski, Xinmeng Jasmine Mu, Stephen Ra, Shanrong Zhao, Daniel Ziemek, Charles K. Fisher

BMC Bioinform., 2020

2019

SUBSTRA: Supervised Bayesian Patient Stratification.

Sahand Khakabimamaghani, Yogeshwar D. Kelkar, Bruno M. Grande, Ryan D. Morin, Martin Ester, Daniel Ziemek

Bioinform., 2019

2017

A biological network-based regularized artificial neural network model for robust phenotype prediction from gene expression data.

Tianyu Kang, Wei Ding, Luoyan Zhang, Daniel Ziemek, Kourosh Zarringhalam

BMC Bioinform., 2017

2016

Interpreting transcriptional changes using causal graphs: new methods and their practical utility on public networks.

Carl Tony Fakhry, Parul Choudhary, Alex Gutteridge, Ben Sidders, Ping Chen, Daniel Ziemek, Kourosh Zarringhalam

BMC Bioinform., 2016

2014

Robust clinical outcome prediction based on Bayesian analysis of transcriptional profiles and prior causal networks.

Kourosh Zarringhalam, Ahmed Enayetallah, Padmalatha Reddy, Daniel Ziemek

Bioinform., 2014

2013

GeneTopics - interpretation of gene sets via literature-driven topic models.

Vicky Wang, Li Xi, Ahmed Enayetallah, Eric Fauman, Daniel Ziemek

BMC Syst. Biol., 2013

Molecular causes of transcriptional response: a Bayesian prior knowledge approach.

Kourosh Zarringhalam, Ahmed Enayetallah, Alex Gutteridge, Ben Sidders, Daniel Ziemek

Bioinform., 2013

2012

Correlation set analysis: detecting active regulators in disease populations using prior causal knowledge.

Chia-Ling Huang, John Lamb, Leonid Chindelevitch, Jarek Kostrowicki, Justin Guinney, Charles DeLisi, Daniel Ziemek

BMC Bioinform., 2012

Assessing statistical significance in causal graphs.

Leonid Chindelevitch, Po-Ru Loh, Ahmed Enayetallah, Bonnie Berger, Daniel Ziemek

BMC Bioinform., 2012

Causal reasoning on biological networks: interpreting transcriptional changes.

Leonid Chindelevitch, Daniel Ziemek, Ahmed Enayetallah, Ranjit Randhawa, Ben Sidders, Christoph Brockel, Enoch S. Huang

Bioinform., 2012

2011

Causal Reasoning on Biological Networks: Interpreting Transcriptional Changes - (Extended Abstract).

Leonid Chindelevitch, Daniel Ziemek, Ahmed Enayetallah, Ranjit Randhawa, Ben Sidders, Christoph Brockel, Enoch S. Huang

Proceedings of the Research in Computational Molecular Biology, 2011

Network-Driven Analysis Methods and their Application to Drug Discovery.

Daniel Ziemek, Christoph Brockel

Proceedings of the Handbook of Research on Computational and Systems Biology, 2011