John L. Spouge

24 papers Journal 20Unranked 3

Year	Rank	Type	Title / Venue / Authors
2024	J	`jnl`	Landscape of racial and ethnic health disparities in the All of Us Research Program. Database J. Biol. Databases Curation Vincent Lam, Shivam Sharma, John L. Spouge, I. King Jordan, Leonardo Mariño-Ramírez
2024	J	`jnl`	The Statistics of Parametrized Syncmers in a Simple Mutation Process Without Spurious Matches. J. Comput. Biol. John L. Spouge, Pijush Das, Ye Chen, Martin C. Frith
2023	J	`jnl`	How to optimally sample a sequence for rapid analysis. Bioinform. Martin C. Frith, Jim Shaw, John L. Spouge
2022	J	`jnl`	A closed formula relevant to 'Theory of local k-mer selection with applications to long-read alignment' by Jim Shaw and Yun William Yu. Bioinform. John L. Spouge
2020	J	`jnl`	A linear-time algorithm that avoids inverses and computes Jackknife (leave-one-out) products like convolutions or other operators in commutative semigroups. Algorithms Mol. Biol. John L. Spouge, Joseph M. Ziegelbauer, Mileidy Gonzalez
2019	J	`jnl`	MultiDomainBenchmark: a multi-domain query and subject database suite. BMC Bioinform. Hyrum D. Carroll, John L. Spouge, Mileidy Gonzalez
2016	J	`jnl`	ALP & FALP: C++ libraries for pairwise local alignment Bioinform. Sergey Sheetlin, Yonil Park, Martin C. Frith, John L. Spouge
2016	J	`jnl`	Most of the tight positional conservation of transcription factor binding sites near the transcription start site reflects their co-localization within regulatory modules. BMC Bioinform. Natalia Acevedo-Luna, Leonardo Mariño-Ramírez, Armand Halbert, Ulla Hansen, David Landsman, John L. Spouge
2015	J	`jnl`	Improving Retrieval Efficacy of Homology Searches Using the False Discovery Rate. IEEE ACM Trans. Comput. Biol. Bioinform. Hyrum D. Carroll, Alex C. Williams, Anthony G. Davis, John L. Spouge
2014	J	`jnl`	Frameshift alignment: statistics and post-genomic applications. Bioinform. Sergey L. Sheetlin, Yonil Park, Martin C. Frith, John L. Spouge
2014	J	`jnl`	Searching for repeats, as an example of using the generalised Ruzzo-Tompa algorithm to find optimal subsequences with gaps. Int. J. Bioinform. Res. Appl. John L. Spouge, Leonardo Mariño-Ramírez, Sergey L. Sheetlin
2013	—	`conf`	False Discovery Rate for Homology Searches. BSB Hyrum D. Carroll, Alex C. Williams, Anthony G. Davis, John L. Spouge
2012	—	`ed.`	IEEE 2nd International Conference on Computational Advances in Bio and Medical Sciences, ICCABS 2012, Las Vegas, NV, USA, February 23-25, 2012 ICCABS Sorin Istrail, Ion I. Mandoiu, Mihai Pop, Sanguthevar Rajasekaran, John L. Spouge
2012	J	`jnl`	Software: an open-source and scalable framework for exact calculations in coalescent theory. BMC Bioinform. Susanta Tewari, John L. Spouge
2012	—	`conf`	The ruzzo-tompa algorithm can find the maximal paths in weighted, directed graphs on a one-dimensional lattice. ICCABS John L. Spouge, Leonardo Mariño-Ramírez, Sergey Sheetlin
2010	J	`jnl`	Threshold Average Precision (TAP- Bioinform. Hyrum D. Carroll, Maricel G. Kann, Sergey Sheetlin, John L. Spouge
2008	J	`jnl`	Finding sequence motifs with Bayesian models incorporating positional information: an application to transcription factor binding sites. BMC Bioinform. Nak-Kyeong Kim, Kannan Tharakaraman, Leonardo Mariño-Ramírez, John L. Spouge
2006	J	`jnl`	Adding sequence context to a Markov background model improves the identification of regulatory elements. Bioinform. Nak-Kyeong Kim, Kannan Tharakaraman, John L. Spouge
2006	J	`jnl`	Scanning sequences after Gibbs sampling to find multiple occurrences of functional elements. BMC Bioinform. Kannan Tharakaraman, Leonardo Mariño-Ramírez, Sergey Sheetlin, David Landsman, John L. Spouge
2005	—	`conf`	Alignments anchored on genomic landmarks can aid in the identification of regulatory elements. ISMB (Supplement of Bioinformatics) Kannan Tharakaraman, Leonardo Mariño-Ramírez, Sergey Sheetlin, David Landsman, John L. Spouge
2004	J	`jnl`	Searching for Multiple Words in a Markov Sequence. INFORMS J. Comput. Yonil Park, John L. Spouge
2002	J	`jnl`	The Efficient Computation of Position-Specific Match Scores with the Fast Fourier Transform. J. Comput. Biol. Sanguthevar Rajasekaran, X. Jin, John L. Spouge
2002	J	`jnl`	The correlation error and finite-size correction in an ungapped sequence alignment. Bioinform. Yonil Park, John L. Spouge
1991	J	`jnl`	Fast optimal alignment. Comput. Appl. Biosci. John L. Spouge