Daniel Ziemek

12 papers B 1Journal 10
YearRankTypeTitle / Venue / Authors
2020 J jnl
Standard machine learning approaches outperform deep representation learning on phenotype prediction from transcriptomics data.
BMC Bioinform.
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
2019 J jnl
SUBSTRA: Supervised Bayesian Patient Stratification.
Bioinform.
Sahand Khakabimamaghani, Yogeshwar D. Kelkar, Bruno M. Grande, Ryan D. Morin, Martin Ester, Daniel Ziemek
2017 J jnl
A biological network-based regularized artificial neural network model for robust phenotype prediction from gene expression data.
BMC Bioinform.
Tianyu Kang, Wei Ding, Luoyan Zhang, Daniel Ziemek, Kourosh Zarringhalam
2016 J jnl
Interpreting transcriptional changes using causal graphs: new methods and their practical utility on public networks.
BMC Bioinform.
Carl Tony Fakhry, Parul Choudhary, Alex Gutteridge, Ben Sidders, Ping Chen, Daniel Ziemek, Kourosh Zarringhalam
2014 J jnl
Robust clinical outcome prediction based on Bayesian analysis of transcriptional profiles and prior causal networks.
Bioinform.
Kourosh Zarringhalam, Ahmed Enayetallah, Padmalatha Reddy, Daniel Ziemek
2013 J jnl
GeneTopics - interpretation of gene sets via literature-driven topic models.
BMC Syst. Biol.
Vicky Wang, Li Xi, Ahmed Enayetallah, Eric Fauman, Daniel Ziemek
2013 J jnl
Molecular causes of transcriptional response: a Bayesian prior knowledge approach.
Bioinform.
Kourosh Zarringhalam, Ahmed Enayetallah, Alex Gutteridge, Ben Sidders, Daniel Ziemek
2012 J jnl
Assessing statistical significance in causal graphs.
BMC Bioinform.
Leonid Chindelevitch, Po-Ru Loh, Ahmed Enayetallah, Bonnie Berger, Daniel Ziemek
2012 J jnl
Causal reasoning on biological networks: interpreting transcriptional changes.
Bioinform.
Leonid Chindelevitch, Daniel Ziemek, Ahmed Enayetallah, Ranjit Randhawa, Ben Sidders, Christoph Brockel, Enoch S. Huang
2012 J jnl
Correlation set analysis: detecting active regulators in disease populations using prior causal knowledge.
BMC Bioinform.
Chia-Ling Huang, John Lamb, Leonid Chindelevitch, Jarek Kostrowicki, Justin Guinney, Charles DeLisi, Daniel Ziemek
2011 B conf
Causal Reasoning on Biological Networks: Interpreting Transcriptional Changes - (Extended Abstract).
RECOMB
Leonid Chindelevitch, Daniel Ziemek, Ahmed Enayetallah, Ranjit Randhawa, Ben Sidders, Christoph Brockel, Enoch S. Huang
2011 — ch.
Network-Driven Analysis Methods and their Application to Drug Discovery.
Handbook of Research on Computational and Systems Biology
Daniel Ziemek, Christoph Brockel