Cushion MT*, Smulian AG*, Slaven BE*, Sesterhenn T, Arnold J, Staben C, Porollo A, Adamczak R, Meller J, Transcriptome of Pneumocystis carinii during fulminate infection: carbohydrate metabolism and the concept of a comparible parasite. PLOS One 2007 May 9;2(5)e423. >PDF

*Investigators shared equally in this work.

Slaven BE, Porollo A, Sesterhenn T, Smulian AG, Cushion MT, Meller J, Large Scale Analysis of Introns and Splice Site Elements in the Pneumocystis carinii genome. J Eukaryot Microbio. 2006; 53 >PDF.

Slaven BE, Meller J, Porollo A, Sesterhenn T, Smulian AG, Cushion MT, Draft Assembly of the Pneumocystis carinii genome. J Eukaryot Microbio. 2006; 53 >PDF

Sesterhenn TM, Slaven BE, Smulian AG, Cushion MT. Generation of sequencing libraries for the Pneumocystis Genome project. J Eukaryot Microbiol. 2003;50 Suppl:663-5.

Cushion MT, Slaven BE and Smulian AG, Pneumocystis Genome Project. In Pneumocystis pneumonia, Walzer PD and Cushion MT, eds. third, 2005.

Cushion MT, Smuliang AG, Slaven BE, Sesterhenn T, Arnold A, Weise M, Staben C, Porollo A, Adamczyk R, Meller J, Transcriptome of Pneumocystis carinii and the concept of a compatible parasite, American Throacis Society 2007 International Conference, San Francisco, CA. May 18-23, 2007. >PDF

Slaven BE, Meller J, Porollo A, Sesterhenn T, Smulian AG, Cushion MT, Draft Assembly and Annotation of the Pneumocystis carinii genome. 9th International Workshop on Opportunistic Pathogens 8th, Lisbon, Portugal, June 20-24, 2006. >PDF

Slaven BE, Porollo A, Sesterhenn T, Smulian AG, Cushion MT, Meller J, Large scale analysis of intron and splice site elements in the Pneumocystis carinii genome. 9th International Workshop on Opportunistic Pathogens, Lisbon, Portugal, June 20-24, 2006.

Smulian AG, Slaven BE, Demland M, Collins M, Cushion MT. Microarray analysis of the Pneumocystis carinii transcriptome. 9th International Workshop of Opportunistic Pathogens, Lisbon, Portugal, June 20-24, 2006.

Cushion MT, Smulain AG, Slaven BE, Sesterhenn T, Porollo A, Meller J. Analysis and fucntional classification of transcripts expressed by Pneumocystis carinii during fulminate infection. 9th International Workshop of Opportunistic Pathogens, Lisbon, Portugal, June 20-24, 2006.

Linke MJ, Smulian AG, Slaven BE, Sesterhenn T, Demland J, Cushion MT. Evaluation of hybridization of Pneumocystis murina RNA to Pneumocystis carinii microarrays. 9th International Workshop of Opportunistic Pathogens, Lisbon, Portugal, June 20-24, 2006.

Sesterhenn T, Cushion MT, Slaven BE, Smulian AG. Methods for cloning of the Pneumocystis carinii genome. 8th International Workshop on Opportunistic Pathogens 8th, Hilo, HI, July 25-29, 2003.

Cushion MT, Slaven BE, Smulian AG. Looking inside the Pneumocystis carinii genome. 8th International Workshop on Opportunistic Pathogens 8th, Hilo, HI, July 25-29, 2003.

Cushion MT, Slaven BE, Arnold J, Wunderlich J, Staben C, Sesterhenn T, Smulian AG. Inferred Metabolic Capacity of Pneumocystis f. sp. carinii Through Genomics and Informatics. 7th International Workshop on Opportunistic Protists, Cincinnati, OH, June 13-16, 2001.

Cushion MT, Nauli A, Sesterhenn T, Slaven BE, Smulian AG, Wagner J, Wunderlich J, Arnold J. Partial reconstruction of the Mitochondrial Genome of Pneumocystis carinii f. sp. carinii. 8th International Workshop on Opportunistic Protists, Cincinnati, OH, June 13-16, 2001

Slaven BE, Smulian AG, Staben C, Weise MJ, Wagner J, Arnold J, Cushion MT. Comparison of Informatics Tools to Analyze the Expressed Sequence Tags from a Pneumocystis carinii f. sp. carinii cDNA library. 7th International Workshop on Opportunistic Protists, Cincinnati, OH, June 13-16, 2001

Slaven BE, Large Scale Bioinformatic Solutions: Building High Throughput Genomic Systems, Bio/Start and University of Cincinnati College of Medicine Symposium on Expression Technology, Cincinnati, OH, Feb. 3, 2000.

Slaven BE, Buchoff J, Kosack D, Ferlanti E, Developing High Throughput Genomic Closure Systems, TIGR Bioinformatics Products and Activities, Rockville, MD, Dec 17, 1999.

Slaven BE, Meller J, Smulian AG, Porollo A, Sesterhenn T, Cushion MT. Genomic sequencing, assembly and analysis of the P. carini genome. Graduate Student Research Forum, Cincinnati, OH, November 9, 2006.

Slaven BE, Meller J, Smulian AG, Porollo A, Sesterhenn T, Cushion MT. Genomic sequencing, assembly and annotation of a novel genome: Pneumocystis carinii: A biological and computational platform for medical discovery. BioOhio 2006: Building the Bioscience Workforce, Columbus, OH, October 23-24, 2006.

Keely SP, Slaven BE Cushion MT, Smulain AG, Stringer JR. P. carinii PRT1/MRS/MSG gene clusters assembled from shotgun sequences. 9th International Workshop of Opportunistic Pathogens, Lisbon, Portugal, June 20-24, 2006.

Slaven BE, Peterson J, Khalak H, Kosack D, Hickey E, White O, Omniome: Using a PVM Cluster to conduct Homology and Ortholog Searches on all 25 Fully Sequenced Microbial Genomes, Microbial Genomics, Feb. 12, 2000, Chantilly, VA.

Kosack D, Slaven BE, Extending the Capabilities and Capacity of Genomic Assembly at TIGR, Microbial Genomics, Feb. 12, 2000, Chantilly, VA.

Slaven BE, Kosack D, Khalak H, Implementing a High Throughput Genomic Shotgun Assembly System, Computational Genomics, Nov. 18, 1999, Baltimore, MD.

Slaven BE, Kosack D, Khalak H, Vincent B, Shao J, Lee B, Hickey E, A Parallel Computing System to Facilitate High Throughput Genomic Annotation, Bioinformatics Meeting: Bridging the Gap between Structure and Function, Cold Spring Harbor Laboratory, Sept. 7, 1999, CSH, NY.

Slaven BE, D. Kosack, H. Khalak, B. Vincent, J. Shao, B. Lee, E. Hickey, Annotation Master: A Parallel Computing System to Facilitate High-Throughput Genomic Annotation, Microbial and Comparative Genomics, Vol. 4, No. 2, 1998.

Slaven BE, Khalak H, Vincent B, Kosack D, Lee B, Sikes M, Richardson D, Distributed Homology Searches using PVM and WU-Blast on a Heterogeneous Computer Network, Microbial and Comparative Genomics, Vol. 3, No. 4, 1998.

Slaven BE, Kosack D, Khalak H, Vincent B, Shao J, Lee B, Hickey E, A Parallel Computing System to Facilitate High Throughput Genomic Annotation, Bioinformatics Meeting: Bridging the Gap between Structure and Function, Cold Spring Harbor Laboratory, Sept. 7, 1999, CSH, NY.

Slaven BE, Kosack D, H. Khalak, B. Vincent, J. Shao, B. Lee, E. Hickey, Annotation Master: A Parallel Computing System to Facilitate High-Throughput Genomic Annotation, Microbial and Comparative Genomics, Vol. 4, No. 2, 1998.

Slaven BE, Khalak H, Vincent B, Kosack D, Lee B, Sikes M, Richardson D, Distributed Homology Searches using PVM and WU-Blast on a Heterogeneous Computer Network, Microbial and Comparative Genomics, Vol. 3, No. 4, 1998.