Daniel Ziemek

Publication Activity (10 Years)

Years Active: 2011-2020
Publications (10 Years): 4

Top Topics

Causal Networks

Gene Expression

Neural Network Model

Top Venues

BMC Syst. Biol.

Publications

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
Standard machine learning approaches outperform deep representation learning on phenotype prediction from transcriptomics data. BMC Bioinform. 21 (1) (2020)
Sahand Khakabimamaghani, Yogeshwar D. Kelkar, Bruno M. Grande, Ryan D. Morin, Martin Ester, Daniel Ziemek
SUBSTRA: Supervised Bayesian Patient Stratification. Bioinform. 35 (18) (2019)
Tianyu Kang, Wei Ding, Luoyan Zhang, Daniel Ziemek, Kourosh Zarringhalam
A biological network-based regularized artificial neural network model for robust phenotype prediction from gene expression data. BMC Bioinform. 18 (1) (2017)
Carl Tony Fakhry, Parul Choudhary, Alex Gutteridge, Ben Sidders, Ping Chen, Daniel Ziemek, Kourosh Zarringhalam
Interpreting transcriptional changes using causal graphs: new methods and their practical utility on public networks. BMC Bioinform. 17 (2016)
Kourosh Zarringhalam, Ahmed Enayetallah, Padmalatha Reddy, Daniel Ziemek
Robust clinical outcome prediction based on Bayesian analysis of transcriptional profiles and prior causal networks. Bioinform. 30 (12) (2014)
Vicky Wang, Li Xi, Ahmed Enayetallah, Eric Fauman, Daniel Ziemek
GeneTopics - interpretation of gene sets via literature-driven topic models. BMC Syst. Biol. 7 (S-5) (2013)
Kourosh Zarringhalam, Ahmed Enayetallah, Alex Gutteridge, Ben Sidders, Daniel Ziemek
Molecular causes of transcriptional response: a Bayesian prior knowledge approach. Bioinform. 29 (24) (2013)
Chia-Ling Huang, John Lamb, Leonid Chindelevitch, Jarek Kostrowicki, Justin Guinney, Charles DeLisi, Daniel Ziemek
Correlation set analysis: detecting active regulators in disease populations using prior causal knowledge. BMC Bioinform. 13 (2012)
Leonid Chindelevitch, Po-Ru Loh, Ahmed Enayetallah, Bonnie Berger, Daniel Ziemek
Assessing statistical significance in causal graphs. BMC Bioinform. 13 (2012)
Leonid Chindelevitch, Daniel Ziemek, Ahmed Enayetallah, Ranjit Randhawa, Ben Sidders, Christoph Brockel, Enoch S. Huang
Causal reasoning on biological networks: interpreting transcriptional changes. Bioinform. 28 (8) (2012)
Leonid Chindelevitch, Daniel Ziemek, Ahmed Enayetallah, Ranjit Randhawa, Ben Sidders, Christoph Brockel, Enoch S. Huang
Causal Reasoning on Biological Networks: Interpreting Transcriptional Changes - (Extended Abstract). RECOMB (2011)