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ORCIDKaterina J. Kechris
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- affiliation: University of Colorado, Colorado School of Public Health, Aurora, CO, USA
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Journal Articles
- 2023
[j20]Thao Vu, Elizabeth Litkowski
, Weixuan Liu, Katherine A. Pratte, Leslie Lange, Russell Bowler, Farnoush Banaei Kashani, Katerina J. Kechris:
NetSHy: network summarization via a hybrid approach leveraging topological properties. Bioinform. 39(1) (2023)- [j19]Patrick M. Carry, Tim Vigers, Lauren A. Vanderlinden, Carson Keeter, Fran Dong, Teresa Buckner, Elizabeth Litkowski, Ivana Yang, Jill M. Norris, Katherina J. Kechris:
Propensity scores as a novel method to guide sample allocation and minimize batch effects during the design of high throughput experiments. BMC Bioinform. 24(1): 86 (2023) - [j18]Charlie M. Carpenter, Lucas A. Gillenwater, Russell Bowler, Katerina J. Kechris, Debashis Ghosh:
TreeKernel: interpretable kernel machine tests for interactions between -omics and clinical predictors with applications to metabolomics and COPD phenotypes. BMC Bioinform. 24(1): 398 (2023) - [j17]Souvik Seal, Qunhua Li, Elle Butler Basner, Laura M. Saba, Katerina J. Kechris:
RCFGL: Rapid Condition adaptive Fused Graphical Lasso and application to modeling brain region co-expression networks. PLoS Comput. Biol. 19(1) (2023) - 2022
- [j16]Jonathan P. Dekermanjian, Elin Shaddox, Debmalya Nandy, Debashis Ghosh, Katerina J. Kechris:
Mechanism-aware imputation: a two-step approach in handling missing values in metabolomics. BMC Bioinform. 23(1): 179 (2022) - [j15]Mohamed Abdel-Hafiz, Mesbah Najafi, Shahab Helmi, Katherine A. Pratte, Yonghua Zhuang, Weixuan Liu, Katerina J. Kechris, Russell Bowler, Leslie Lange, Farnoush Banaei Kashani:
Significant Subgraph Detection in Multi-omics Networks for Disease Pathway Identification. Frontiers Big Data 5 (2022) - 2021
- [j14]Charlie M. Carpenter, Daniel N. Frank, Kayla Williamson, Jaron Arbet, Brandie D. Wagner, Katerina J. Kechris, Miranda Kroehl:
tidyMicro: a pipeline for microbiome data analysis and visualization using the tidyverse in R. BMC Bioinform. 22(1): 41 (2021) - [j13]Tusharkanti Ghosh, Daisy Philtron, Weiming Zhang, Katerina J. Kechris, Debashis Ghosh:
Reproducibility of mass spectrometry based metabolomics data. BMC Bioinform. 22(1): 423 (2021) - [j12]Charlie M. Carpenter, Weiming Zhang, Lucas A. Gillenwater, Cameron Severn, Tusharkanti Ghosh, Russell Bowler, Katerina J. Kechris, Debashis Ghosh:
PaIRKAT: A pathway integrated regression-based kernel association test with applications to metabolomics and COPD phenotypes. PLoS Comput. Biol. 17(10) (2021) - 2020
- [j11]Brian Vestal, Camille M. Moore, Elizabeth Wynn, Laura M. Saba, Tasha Fingerlin, Katerina J. Kechris:
MCMSeq: Bayesian hierarchical modeling of clustered and repeated measures RNA sequencing experiments. BMC Bioinform. 21(1): 375 (2020) - 2019
- [j10]W. Jenny Shi, Yonghua Zhuang, Pamela H. Russell, Brian Hobbs, Margaret M. Parker, Peter J. Castaldi, Pratyaydipta Rudra, Brian Vestal, Craig P. Hersh, Laura M. Saba, Katerina J. Kechris:
Unsupervised discovery of phenotype-specific multi-omics networks. Bioinform. 35(21): 4336-4343 (2019) - 2018
- [j9]Yafei Lyu, Lingzhou Xue, Feipeng Zhang, Hillary Koch, Laura M. Saba, Katerina J. Kechris, Qunhua Li:
Condition-adaptive fused graphical lasso (CFGL): An adaptive procedure for inferring condition-specific gene co-expression network. PLoS Comput. Biol. 14(9) (2018) - 2017
- [j8]Charlotte Siska, Russell Bowler, Katerina J. Kechris:
The discordant method: a novel approach for differential correlation. Bioinform. 33(1): 150 (2017) - [j7]Pratyaydipta Rudra, W. Jenny Shi, Brian Vestal, Pamela H. Russell, Aaron Odell, Robin D. Dowell, Richard Radcliffe, Laura M. Saba, Katerina J. Kechris:
Model based heritability scores for high-throughput sequencing data. BMC Bioinform. 18(1): 143:1-143:16 (2017) - 2016
- [j6]Charlotte Siska, Russell Bowler, Katerina J. Kechris:
The discordant method: a novel approach for differential correlation. Bioinform. 32(5): 690-696 (2016) - 2014
- [j5]Subhajyoti De, Brent S. Pedersen, Katerina J. Kechris:
The dilemma of choosing the ideal permutation strategy while estimating statistical significance of genome-wide enrichment. Briefings Bioinform. 15(6): 919-928 (2014) - [j4]Grant Hughes, Charmion Cruickshank-Quinn, Richard Reisdorph, Sharon Lutz, Irina Petrache, Nichole Reisdorph, Russell Bowler, Katerina J. Kechris:
MSPrep - Summarization, normalization and diagnostics for processing of mass spectrometry-based metabolomic data. Bioinform. 30(1): 133-134 (2014) - 2013
- [j3]Nichole Reisdorph, Robert Stearman, Katerina J. Kechris, Tzu Lip Phang, Richard Reisdorph, Jessica E. Prenni, David J. Erle, Christopher Coldren, Kevin L. Schey, Alexey I. Nesvizhskii, Marc Geraci:
Hands-on Workshops as An Effective Means of Learning Advanced Technologies Including Genomics, Proteomics and Bioinformatics. Genom. Proteom. Bioinform. 11(6): 368-377 (2013) - 2012
- [j2]Brent S. Pedersen, David A. Schwartz, Ivana V. Yang, Katerina J. Kechris:
Comb-p: software for combining, analyzing, grouping and correcting spatially correlated P-values. Bioinform. 28(22): 2986-2988 (2012) - 2008
- [j1]Katerina J. Kechris, Hao Li:
c-REDUCE: Incorporating sequence conservation to detect motifs that correlate with expression. BMC Bioinform. 9 (2008)
Conference and Workshop Papers
- 2022
- [c3]Sundous Hussein, Thao Vu, Leslie Lange, Russell Bowler, Katerina J. Kechris, Farnoush Banaei Kashani:
Effective Subject Representation based on Multi-omics Disease Networks using Graph Embedding. BIBM 2022: 1911-1918 - [c2]Andrew Hill, Russell Bowler, Katerina J. Kechris, Farnoush Banaei Kashani:
Semi-supervised Embedding for Scalable and Accurate Time Series Clustering. IEEE Big Data 2022: 942-951 - 2007
- [c1]Hyunmin Kim, Katherina J. Kechris, Lawrence Hunter:
Mining Discriminative Distance Context of Transcription Factor Binding Sites on ChIP Enriched Regions. ISBRA 2007: 338-349
Coauthor Index
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