Jeremy Buhler

Jeremy D. Buhler

	2012
45		Jeremy D. Buhler, Kunal Agrawal, Peng Li, Roger D. Chamberlain: Efficient deadlock avoidance for streaming computation with filtering. PPOPP 2012: 235-246
44		Hongtao Sun, Jeremy D. Buhler: PhyLAT: a phylogenetic local alignment tool. Bioinformatics 28(10): 1336-1344 (2012)
43		Yanni Sun, Jeremy Buhler, Cheng Yuan: Designing Filters for Fast-Known NcRNA Identification. IEEE/ACM Trans. Comput. Biology Bioinform. 9(3): 774-787 (2012)
	2011
42		Joseph M. Lancaster, E. F. Berkley Shands, Jeremy D. Buhler, Roger D. Chamberlain: TimeTrial: A low-impact performance profiler for streaming data applications. ASAP 2011: 69-76
41		Lin Ma, Roger D. Chamberlain, Jeremy D. Buhler, Mark A. Franklin: Bloom Filter Performance on Graphics Engines. ICPP 2011: 522-531
	2010
40		Arpith C. Jacob, Jeremy D. Buhler, Roger D. Chamberlain: Design of throughput-optimized arrays from recurrence abstractions. ASAP 2010: 133-140
39		Peng Li, Kunal Agrawal, Jeremy Buhler, Roger D. Chamberlain, Joseph M. Lancaster: Deadlock-avoidance for streaming applications with split-join structure: Two case studies. ASAP 2010: 333-336
38		Narayan Ganesan, Roger D. Chamberlain, Jeremy Buhler, Michela Taufer: Accelerating HMMER on GPUs by implementing hybrid data and task parallelism. BCB 2010: 418-421
37		Arpith C. Jacob, Jeremy D. Buhler, Roger D. Chamberlain: Rapid RNA Folding: Analysis and Acceleration of the Zuker Recurrence. FCCM 2010: 87-94
36		Arpith C. Jacob, Jeremy D. Buhler, Roger D. Chamberlain: Design space exploration of throughput-optimized arrays from recurrence abstractions (abstract only). FPGA 2010: 286
35		Roger D. Chamberlain, Jeremy Buhler, Mark A. Franklin, James H. Buckley: Application-guided tool development for architecturally diverse computation. SAC 2010: 496-501
34		Peng Li, Kunal Agrawal, Jeremy Buhler, Roger D. Chamberlain: Deadlock avoidance for streaming computations with filtering. SPAA 2010: 243-252
33		Roger D. Chamberlain, Mark A. Franklin, Eric J. Tyson, James H. Buckley, Jeremy Buhler, Greg Galloway, Saurabh Gayen, Michael J. Hall, E. F. Berkley Shands, Naveen Singla: Auto-Pipe: Streaming Applications on Architecturally Diverse Systems. IEEE Computer 43(3): 42-49 (2010)
	2009
32		Arpith C. Jacob, Jeremy D. Buhler, Roger D. Chamberlain: Optimal runtime reconfiguration strategies for systolic arrays. FPL 2009: 162-167
31		Joseph M. Lancaster, Jeremy D. Buhler, Roger D. Chamberlain: Efficient runtime performance monitoring of FPGA-based applications. SoCC 2009: 23-28
30		Yanni Sun, Jeremy Buhler: Designing Patterns and Profiles for Faster HMM Search. IEEE/ACM Trans. Comput. Biology Bioinform. 6(2): 232-243 (2009)
29		Joseph M. Lancaster, Jeremy Buhler, Roger D. Chamberlain: Acceleration of ungapped extension in Mercury BLAST. Microprocessors and Microsystems - Embedded Hardware Design 33(4): 281-289 (2009)
	2008
28		Arpith C. Jacob, Jeremy Buhler, Roger D. Chamberlain: Accelerating Nussinov RNA secondary structure prediction with systolic arrays on FPGAs. ASAP 2008: 191-196
27		Arpith C. Jacob, Joseph M. Lancaster, Jeremy Buhler, Brandon Harris, Roger D. Chamberlain: Mercury BLASTP: Accelerating Protein Sequence Alignment. TRETS 1(2): (2008)
	2007
26		Arpith C. Jacob, Joseph M. Lancaster, Jeremy Buhler, Roger D. Chamberlain: FPGA-accelerated seed generation in Mercury BLASTP. FCCM 2007: 95-106
25		Brandon Harris, Arpith C. Jacob, Joseph M. Lancaster, Jeremy Buhler, Roger D. Chamberlain: A Banded Smith-Waterman FPGA Accelerator for Mercury BLASTP. FPL 2007: 765-769
24		Arpith C. Jacob, Joseph M. Lancaster, Jeremy D. Buhler, Roger D. Chamberlain: Preliminary results in accelerating profile HMM search on FPGAs. IPDPS 2007: 1-8
23		Roger D. Chamberlain, Mark A. Franklin, Eric J. Tyson, Jeremy Buhler, Saurabh Gayen, Patrick Crowley, James H. Buckley: Application development on hybrid systems. SC 2007: 50
22		Yanni Sun, Jeremy Buhler: Designing patterns for profile HMM search. Bioinformatics 23(2): 42-43 (2007)
21		Praveen Krishnamurthy, Jeremy Buhler, Roger D. Chamberlain, Mark A. Franklin, Kwame Gyang, Arpith C. Jacob, Joseph M. Lancaster: Biosequence Similarity Search on the Mercury System. VLSI Signal Processing 49(1): 101-121 (2007)
	2006
20		Arpith C. Jacob, Brandon Harris, Jeremy Buhler, Roger D. Chamberlain, Young H. Cho: Scalable Softcore Vector Processor for Biosequence Applications. FCCM 2006: 295-296
19		Rahul P. Maddimsetty, Jeremy Buhler, Roger D. Chamberlain, Mark A. Franklin, Brandon Harris: Accelerator design for protein sequence HMM search. ICS 2006: 288-296
18		Can Alkan, Emre Karakoç, Süleyman Cenk Sahinalp, Peter J. Unrau, H. Alexander Ebhardt, Kaizhong Zhang, Jeremy Buhler: RNA Secondary Structure Prediction Via Energy Density Minimization. RECOMB 2006: 130-142
17		Yanni Sun, Jeremy Buhler: Choosing the best heuristic for seeded alignment of DNA sequences. BMC Bioinformatics 7: 133 (2006)
	2005
16		Ben Wun, Jeremy Buhler, Patrick Crowley: Exploiting Coarse-Grained Parallelism to Accelerate Protein Motif Finding with a Network Processor. IEEE PACT 2005: 173-184
15		Benjamin P. Westover, Jeremy D. Buhler, Justin L. Sonnenburg, Jeffrey I. Gordon: Operon prediction without a training set. Bioinformatics 21(7): 880-888 (2005)
14		Jeremy Buhler, Uri Keich, Yanni Sun: Designing seeds for similarity search in genomic DNA. J. Comput. Syst. Sci. 70(3): 342-363 (2005)
13		Yanni Sun, Jeremy Buhler: Designing Multiple Simultaneous Seeds for DNA Similarity Search. Journal of Computational Biology 12(6): 847-861 (2005)
	2004
12		Praveen Krishnamurthy, Jeremy Buhler, Roger D. Chamberlain, Mark A. Franklin, Kwame Gyang, Joseph M. Lancaster: Biosequence Similarity Search on the Mercury System. ASAP 2004: 365-375
11		Jeremy Buhler, Rachel Nordgren: Toward a Phylogenetically Aware Algorithm for Fast DNA Similarity Search. Comparative Genomics 2004: 15-29
10		Jeremy Buhler, Richard Souvenir, Weixiong Zhang, Rob Mitra: Design of a High-Throughput Assay for Alternative Splicing Using Polymerase Colonies. Pacific Symposium on Biocomputing 2004: 5-16
9		Yanni Sun, Jeremy Buhler: Designing multiple simultaneous seeds for DNA similarity search. RECOMB 2004: 76-84
	2003
8		Eran Halperin, Jeremy Buhler, Richard M. Karp, Robert Krauthgamer, Ben Westover: Detecting protein sequence conservation via metric embeddings. ISMB (Supplement of Bioinformatics) 2003: 122-129
7		Jeremy Buhler, Uri Keich, Yanni Sun: Designing seeds for similarity search in genomic DNA. RECOMB 2003: 67-75
6		Richard Souvenir, Jeremy Buhler, Gary D. Stormo, Weixiong Zhang: Selecting Degenerate Multiplex PCR Primers. WABI 2003: 512-526
5		Jeremy Buhler: Provably Sensitive Indexing Strategies for Biosequence Similarity Search. Journal of Computational Biology 10(3/4): 399-417 (2003)
	2002
4		Jeremy Buhler: Provably sensitive Indexing strategies for biosequence similarity search. RECOMB 2002: 90-99
3		Jeremy Buhler, Martin Tompa: Finding Motifs Using Random Projections. Journal of Computational Biology 9(2): 225-242 (2002)
	2001
2		Jeremy Buhler, Martin Tompa: Finding motifs using random projections. RECOMB 2001: 69-76
1		Jeremy Buhler: Efficient large-scale sequence comparison by locality-sensitive hashing. Bioinformatics 17(5): 419-428 (2001)

Coauthor Index

1	Kunal Agrawal	[34] [39] [45]
2	Can Alkan	[18]
3	James H. Buckley	[23] [33] [35]
4	Roger D. Chamberlain	[12] [19] [20] [21] [23] [24] [25] [26] [27] [28] [29] [31] [32] [33] [34] [35] [36] [37] [38] [39] [40] [41] [42] [45]
5	Young H. Cho	[20]
6	Patrick Crowley	[16] [23]
7	H. Alexander Ebhardt	[18]
8	Mark A. Franklin	[12] [19] [21] [23] [33] [35] [41]
9	Greg Galloway	[33]
10	Narayan Ganesan	[38]
11	Saurabh Gayen	[23] [33]
12	Jeffrey I. Gordon	[15]
13	Kwame Gyang	[12] [21]
14	Michael J. Hall	[33]
15	Eran Halperin	[8]
16	Brandon Harris	[19] [20] [25] [27]
17	Arpith C. Jacob	[20] [21] [24] [25] [26] [27] [28] [32] [36] [37] [40]
18	Emre Karakoç	[18]
19	Richard M. Karp	[8]
20	Uri Keich	[7] [14]
21	Robert Krauthgamer	[8]
22	Praveen Krishnamurthy	[12] [21]
23	Joseph M. Lancaster	[12] [21] [24] [25] [26] [27] [29] [31] [39] [42]
24	Peng Li	[34] [39] [45]
25	Lin Ma	[41]
26	Rahul P. Maddimsetty	[19]
27	Rob Mitra	[10]
28	Rachel Nordgren	[11]
29	Süleyman Cenk Sahinalp	[18]
30	E. F. Berkley Shands	[33] [42]
31	Naveen Singla	[33]
32	Justin L. Sonnenburg	[15]
33	Richard Souvenir	[6] [10]
34	Gary D. Stormo	[6]
35	Hongtao Sun	[44]
36	Yanni Sun	[7] [9] [13] [14] [17] [22] [30] [43]
37	Michela Taufer	[38]
38	Martin Tompa	[2] [3]
39	Eric J. Tyson	[23] [33]
40	Peter J. Unrau	[18]
41	Ben Westover	[8]
42	Benjamin P. Westover	[15]
43	Ben Wun (Benjamin Wun)	[16]
44	Cheng Yuan	[43]
45	Kaizhong Zhang	[18]
46	Weixiong Zhang	[6] [10]

Colors in the list of coauthors

Last update Sun May 27 04:04:01 2012 CET by the DBLP Team — Data released under the ODC-BY 1.0 license — See also our legal information page