Sequence Assembly Validation by Multiple Restriction Digest Fragment Coverage Analysis. - Eric C. Rouchka; David J. States (ISMB, 1998)

Identity by Descent Genome Segmentation Based on Single Nucleotide Polymorphism Distributions. - Thomas W. Blackwell; Eric C. Rouchka; David J. States (ISMB, 1999)

UTR Reconstruction and Analysis Using Genomically Aligned EST Sequences. - Zhengyan Kan; Warren Gish; Eric C. Rouchka; Jarret Glasscock; David J. States (ISMB, 2000)

Gibbs Recursive Sampler: finding transcription factor binding sites. - William A. Thompson; Eric C. Rouchka; Charles E. Lawrence (Nucleic Acids Res., 2003)

Comparison of Current BLAST Software on Nucleotide Sequences. - I. Elizabeth Cha; Eric C. Rouchka (IPDPS, 2005)

DNA motif detection using particle swarm optimization and expectation-maximization. - C. Timothy Hardin; Eric C. Rouchka (SIS, 2005)

MPrime: efficient large scale multiple primer and oligonucleotide design for customized gene microarrays. - Eric C. Rouchka; Abdelnaby Khalyfa; Nigel G. F. Cooper (BMC Bioinform., 2005)

Aligning DNA sequences using dynamic programming. - Eric C. Rouchka (ACM Crossroads, 2006)

Biological Sequence Mining Using Plausible Neural Network and its Application to Exon/intron Boundaries Prediction. - Kuo-Chen Li; Dar-Jen Chang; Eric C. Rouchka; Yuan Yan Chen (CIBCB, 2007)

rMotifGen: random motif generator for DNA and protein sequences. - Eric C. Rouchka; C. Timothy Hardin (BMC Bioinform., 2007)

Model Based Unsupervised Learning Guided by Abundant Background Samples. - Rami N. Mahdi; Eric C. Rouchka (ICMLA, 2008)

Random number generation for DNA-based security circuitry. - Christy M. Bogard; Eric C. Rouchka; Benjamin Arazi (BMC Bioinform., 2008)

Buffered codons in human transcriptional units. - Rami N. Mahdi; Eric C. Rouchka (BMC Bioinform., 2008)

Techniques for the analysis of trichome Pelagonium xhortorum expressed sequence tags. - Joseph Morris; Eric C. Rouchka; David Schultz (BMC Bioinform., 2008)

Proceedings of the Seventh Annual UT-ORNL-KBRIN Bioinformatics Summit 2008. - Eric C. Rouchka; Julia Krushkal; Daniel Goldowitz (BMC Bioinform., 2008)

Computational Prediction of Genes Translationally Regulated by Cytoplasmic Polyadenylation Elements. - Eric C. Rouchka; Xiangping Wang; James H. Graham; Nigel G. F. Cooper (BICoB, 2009)

Feature Selection in Cancer Classification from mRNA Data Based on Localized Dimension Reduction. - Rami N. Mahdi; Eric C. Rouchka (ICMLA, 2009)

Compute Pairwise Manhattan Distance and Pearson Correlation Coefficient of Data Points with GPU. - Dar-Jen Chang; Ahmed H. Desoky; Ming Ouyang; Eric C. Rouchka (SNPD, 2009)

Proceedings of the Eighth Annual UT-ORNL-KBRIN Bioinformatics Summit 2009. - Eric C. Rouchka; Julia Krushkal (BMC Bioinform., 2009)

Phylogenomic Analysis Using Bayesian Congruence Measuring. - Dazhuo Li; Eric C. Rouchka; Patrick Shafto (BICoB, 2010)

A Bayesian Nonparametric Model for Joint Relation Integration and Domain Clustering. - Dazhuo Li; Fahim Mohammad; Eric C. Rouchka (ICMLA, 2010)

DNA-based random number generation in security circuitry. - Christy M. Gearheart; Benjamin Arazi; Eric C. Rouchka (Biosyst., 2010)

Design of a DNA-based shift register. - Christy M. Gearheart; Eric C. Rouchka; Benjamin Arazi (BMC Bioinform., 2010)

Proceedings of the ninth annual UT-ORNL-KBRIN Bioinformatics Summit 2010. - Eric C. Rouchka; Robert M. Flight; Claire Rinehart (BMC Bioinform., 2010)

Assessment of genetic variation for the LINE-1 retrotransposon from next generation sequence data. - Eric C. Rouchka; Diego E. Montoya-Durango; Vilius Stribinskis; Kenneth S. Ramos; Ted Kalbfleisch (BMC Bioinform., 2010)

Statistical analysis of multiple significance test methods for differential proteomics. - Bing Wang 004; Fahim Mohammad; Jun Zhang 011; Xinmin Yin; Eric C. Rouchka; Xiang Zhang 003 (BMC Bioinform., 2010)

A Heuristic Algorithm for Detecting Intercellular Interactions. - Fahim Mohammad; Robert M. Flight; Benjamin J. Harrison; Jeffrey C. Petruska; Eric C. Rouchka (BIBE, 2011)

Interval Trees for Detection of Overlapping Genetic Entities. - Fahim Mohammad; Robert M. Flight; Benjamin J. Harrison; Jeffrey C. Petruska; Eric C. Rouchka (BIBE, 2011)

categoryCompare: high-throughput data meta-analysis using gene annotations. - Robert M. Flight; Jeffrey C. Petruska; Benjamin J. Harrison; Eric C. Rouchka (BMC Bioinform., 2011)

Meta-analysis of gene expression changes in response to radiation exposure. - John Kirtley; Eric C. Rouchka; Robert M. Flight; Palaniappan Sethu; John W. Eaton; Robert S. Keynton (BMC Bioinform., 2011)

Integrative biclustering of heterogeneous datasets using a Bayesian nonparametric model with application to chemogenomics. - Dazhuo Li; Eric C. Rouchka (BMC Bioinform., 2011)

Proceedings of the Tenth Annual UT-ORNL-KBRIN Bioinformatics Summit 2011. - Eric C. Rouchka; Robert M. Flight; Ramin Homayouni (BMC Bioinform., 2011)

Reduced HyperBF Networks: Regularization by Explicit Complexity Reduction and Scaled Rprop-Based Training. - Rami N. Mahdi; Eric C. Rouchka (IEEE Trans. Neural Networks, 2011)

Poster: Image registration and visualization tool for in-situ gene expression images. - Ernur Saka; Eric C. Rouchka (ICCABS, 2012)

Finding Data in DNA: Computer Forensic Investigations of Living Organisms. - Marc Beck; Eric C. Rouchka; Roman V. Yampolskiy (ICDF2C, 2012)

RNASeq profiling of UTR expression during neuronal plasticity. - Benjamin J. Harrison; Robert M. Flight; Abdallah Eteleeb; Eric C. Rouchka; Jeffrey C. Petruska (BMC Bioinform., 2012)

AbsIDconvert: An absolute approach for converting genetic identifiers at different granularities. - Fahim Mohammad; Robert M. Flight; Benjamin J. Harrison; Jeffrey C. Petruska; Eric C. Rouchka (BMC Bioinform., 2012)

Regulation of cell proliferation and apoptosis by growth hormone during zebrafish auditory hair cell regeneration. - Gopinath Rajadinakaran; Huifang Sun; Claire Rinehart; Eric C. Rouchka; Michael E. Smith 001 (BMC Bioinform., 2012)

Proceedings of the Eleventh Annual UT-ORNL-KBRIN Bioinformatics Summit 2012. - Eric C. Rouchka; Robert M. Flight; Hunter N. B. Moseley (BMC Bioinform., 2012)

An Island-Based Approach for Differential Expression Analysis. - Abdallah Eteleeb; Robert M. Flight; Benjamin J. Harrison; Jeffrey C. Petruska; Eric C. Rouchka (BCB, 2013)

Proceedings of the Twelfth Annual UT-ORNL-KBRIN Bioinformatics Summit 2013. - Eric C. Rouchka; Robert M. Flight (BMC Bioinform., 2013)

A comparison of combined p-value methods for gene differential expression using RNA-seq data. - Abdallah M. Eteleeb; Hunter N. B. Moseley; Eric C. Rouchka (BCB, 2014)

UTR extension and alternate polyadenylation in neuroplasticity: an emerging paradigm? - Benjamin J. Harrison; Robert M. Flight; Abdallah M. Eteleeb; Eric C. Rouchka; Jeffrey C. Petruska (BMC Bioinform., 2014)

Proceedings of the Thirteenth Annual UT- KBRIN Bioinformatics Summit 2014. - Eric C. Rouchka; Julia H. Chariker (BMC Bioinform., 2014)

Transcriptomic characterization of short duration endoplasmic reticulum stress on cultured human proximal tubule cells. - Yan Zhang; Michelle Barati; Ignacio Munoz; Ming Li; Danny Wilkey; Eric C. Rouchka; Michael Merchant (BMC Bioinform., 2014)

A less biased analysis of metalloproteins' coordination geometries. - Sen Yao; Robert M. Flight; Eric C. Rouchka; Hunter N. B. Moseley (BCB, 2015)

Proceedings of the Fourteenth Annual UT- KBRIN Bioinformatics Summit 2015. - Eric C. Rouchka; Julia H. Chariker; Benjamin J. Harrison (BMC Bioinform., 2015)

Region-based custom chip description formats for reanalysis of publicly available affymetrix® genechip® data sets. - Ernur Saka; Benjamin J. Harrison; Kirk West; Jeffrey C. Petruska; Eric C. Rouchka (ICCABS, 2016)

rMAPS: RNA map analysis and plotting server for alternative exon regulation. - Juw Won Park; Sungbo Jung; Eric C. Rouchka; Yu-Ting Tseng; Yi Xing (Nucleic Acids Res., 2016)

Proceedings of the 15th Annual UT-KBRIN Bioinformatics Summit 2016: Cadiz, KY, USA. 8-10 April 2016. - Eric C. Rouchka; Julia H. Chariker; Benjamin J. Harrison; Juw Won Park; Xueyuan Cao; Stanley Pounds; Susana C. Raimondi; James R. Downing; Raul C. Ribeiro; Jeffrey Rubnitz; Jatinder Lamba; Bernie J. Daigle Jr.; et al. (BMC Bioinform., 2016)

Circular RNA Detection from High-throughput Sequencing. - Mohamed Chaabane; Eric C. Rouchka; Juw Won Park (RACS, 2017)

Correction to: Proceedings of the 16th Annual UT-KBRIN Bioinformatics Summit 2017: bioinformatics. - Eric C. Rouchka; Julia Chariker; David Tieri; Juw Won Park (BMC Bioinform., 2017)

Identification of successful mentoring communities using network-based analysis of mentor-mentee relationships across Nobel laureates. - Julia H. Chariker; Yihang Zhang 003; John R. Pani; Eric C. Rouchka (Scientometrics, 2017)

Proceedings of the 16th Annual UT-KBRIN Bioinformatics Summit 2016: bioinformatics: Burns, TN, USA. April 21-23, 2017. - Eric C. Rouchka; Julia H. Chariker; David Tieri; Juw Won Park; Shreedharkumar D. Rajurkar; Vikas Singh; Nishchal K. Verma; Yan Cui 001; Mark L. Farman; Bradford Condon; Neil Moore; Jerzy W. Jaromczyk; et al. (BMC Bioinform., 2017)

DRETools: A tool-suite for differential RNA editing detection. - Tyler Weirick; Patrick J. Trainor; Eric C. Rouchka; Andrew P. DeFilippis; Shizuka Uchida (F1000Research, 2018)

rMAPS2: an update of the RNA map analysis and plotting server for alternative splicing regulation. - Jae Yeon Hwang; Sungbo Jung; Tae Lim Kook; Eric C. Rouchka; Jinwoong Bok; Juw Won Park (Nucleic Acids Res., 2020)