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David Clayton Kulp, Ph.D.

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Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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  1. Krienen FM, Goldman M, Zhang Q, C H Del Rosario R, Florio M, Machold R, Saunders A, Levandowski K, Zaniewski H, Schuman B, Wu C, Lutservitz A, Mullally CD, Reed N, Bien E, Bortolin L, Fernandez-Otero M, Lin JD, Wysoker A, Nemesh J, Kulp D, Burns M, Tkachev V, Smith R, Walsh CA, Dimidschstein J, Rudy B, S Kean L, Berretta S, Fishell G, Feng G, McCarroll SA. Innovations present in the primate interneuron repertoire. Nature. 2020 Oct; 586(7828):262-269. PMID: 32999462.
    Citations:    
  2. Saunders A, Macosko EZ, Wysoker A, Goldman M, Krienen FM, de Rivera H, Bien E, Baum M, Bortolin L, Wang S, Goeva A, Nemesh J, Kamitaki N, Brumbaugh S, Kulp D, McCarroll SA. Molecular Diversity and Specializations among the Cells of the Adult Mouse Brain. Cell. 2018 08 09; 174(4):1015-1030.e16. PMID: 30096299.
    Citations: 1     Fields:    
  3. Bahl A, Davis PH, Behnke M, Dzierszinski F, Jagalur M, Chen F, Shanmugam D, White MW, Kulp D, Roos DS. A novel multifunctional oligonucleotide microarray for Toxoplasma gondii. BMC Genomics. 2010 Oct 25; 11:603. PMID: 20974003.
    Citations:    
  4. Kwan AL, Li L, Kulp DC, Dutcher SK, Stormo GD. Improving gene-finding in Chlamydomonas reinhardtii:GreenGenie2. BMC Genomics. 2009 May 07; 10:210. PMID: 19422688.
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  5. Jagalur M, Kulp D. An information theoretic method for reconstructing local regulatory network modules from polymorphic samples. Comput Syst Bioinformatics Conf. 2007; 6:133-43. PMID: 17951819.
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  6. Jagalur M, Pal C, Learned-Miller E, Zoeller RT, Kulp D. Analyzing in situ gene expression in the mouse brain with image registration, feature extraction and block clustering. BMC Bioinformatics. 2007; 8 Suppl 10:S5. PMID: 18269699.
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  7. Kulp DC, Jagalur M. Causal inference of regulator-target pairs by gene mapping of expression phenotypes. BMC Genomics. 2006 May 24; 7:125. PMID: 16719927.
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  8. Sugnet CW, Srinivasan K, Clark TA, O'Brien G, Cline MS, Wang H, Williams A, Kulp D, Blume JE, Haussler D, Ares M. Unusual intron conservation near tissue-regulated exons found by splicing microarrays. PLoS Comput Biol. 2006 Jan; 2(1):e4. PMID: 16424921.
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  9. Zhan Y, Kulp D. Model-P: a basecalling method for resequencing microarrays of diploid samples. Bioinformatics. 2005 Sep 01; 21 Suppl 2:ii182-9. PMID: 16204100.
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  10. Di X, Matsuzaki H, Webster TA, Hubbell E, Liu G, Dong S, Bartell D, Huang J, Chiles R, Yang G, Shen MM, Kulp D, Kennedy GC, Mei R, Jones KW, Cawley S. Dynamic model based algorithms for screening and genotyping over 100 K SNPs on oligonucleotide microarrays. Bioinformatics. 2005 May 01; 21(9):1958-63. PMID: 15657097.
    Citations:    
  11. Cheng J, Cline M, Martin J, Finkelstein D, Awad T, Kulp D, Siani-Rose MA. A knowledge-based clustering algorithm driven by Gene Ontology. J Biopharm Stat. 2004 Aug; 14(3):687-700. PMID: 15468759.
    Citations:    
  12. Cheng J, Sun S, Tracy A, Hubbell E, Morris J, Valmeekam V, Kimbrough A, Cline MS, Liu G, Shigeta R, Kulp D, Siani-Rose MA. NetAffx Gene Ontology Mining Tool: a visual approach for microarray data analysis. Bioinformatics. 2004 Jun 12; 20(9):1462-3. PMID: 14962933.
    Citations:    
  13. Liu WM, Di X, Yang G, Matsuzaki H, Huang J, Mei R, Ryder TB, Webster TA, Dong S, Liu G, Jones KW, Kennedy GC, Kulp D. Algorithms for large-scale genotyping microarrays. Bioinformatics. 2003 Dec 12; 19(18):2397-403. PMID: 14668223.
    Citations:    
  14. Mei R, Hubbell E, Bekiranov S, Mittmann M, Christians FC, Shen MM, Lu G, Fang J, Liu WM, Ryder T, Kaplan P, Kulp D, Webster TA. Probe selection for high-density oligonucleotide arrays. Proc Natl Acad Sci U S A. 2003 Sep 30; 100(20):11237-42. PMID: 14500916.
    Citations:    
  15. Li JB, Lin S, Jia H, Wu H, Roe BA, Kulp D, Stormo GD, Dutcher SK. Analysis of Chlamydomonas reinhardtii genome structure using large-scale sequencing of regions on linkage groups I and III. J Eukaryot Microbiol. 2003 May-Jun; 50(3):145-55. PMID: 12836870.
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  16. Liu G, Loraine AE, Shigeta R, Cline M, Cheng J, Valmeekam V, Sun S, Kulp D, Siani-Rose MA. NetAffx: Affymetrix probesets and annotations. Nucleic Acids Res. 2003 Jan 01; 31(1):82-6. PMID: 12519953.
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  17. Wang H, Hubbell E, Hu JS, Mei G, Cline M, Lu G, Clark T, Siani-Rose MA, Ares M, Kulp DC, Haussler D. Gene structure-based splice variant deconvolution using a microarray platform. Bioinformatics. 2003; 19 Suppl 1:i315-22. PMID: 12855476.
    Citations: 37     Fields:    Translation:HumansCells
  18. Waterston RH, Lindblad-Toh K, Birney E, Rogers J, Abril JF, Agarwal P, Agarwala R, Ainscough R, Alexandersson M, An P, Antonarakis SE, Attwood J, Baertsch R, Bailey J, Barlow K, Beck S, Berry E, Birren B, Bloom T, Bork P, Botcherby M, Bray N, Brent MR, Brown DG, Brown SD, Bult C, Burton J, Butler J, Campbell RD, Carninci P, Cawley S, Chiaromonte F, Chinwalla AT, Church DM, Clamp M, Clee C, Collins FS, Cook LL, Copley RR, Coulson A, Couronne O, Cuff J, Curwen V, Cutts T, Daly M, David R, Davies J, Delehaunty KD, Deri J, Dermitzakis ET, Dewey C, Dickens NJ, Diekhans M, Dodge S, Dubchak I, Dunn DM, Eddy SR, Elnitski L, Emes RD, Eswara P, Eyras E, Felsenfeld A, Fewell GA, Flicek P, Foley K, Frankel WN, Fulton LA, Fulton RS, Furey TS, Gage D, Gibbs RA, Glusman G, Gnerre S, Goldman N, Goodstadt L, Grafham D, Graves TA, Green ED, Gregory S, Guigó R, Guyer M, Hardison RC, Haussler D, Hayashizaki Y, Hillier LW, Hinrichs A, Hlavina W, Holzer T, Hsu F, Hua A, Hubbard T, Hunt A, Jackson I, Jaffe DB, Johnson LS, Jones M, Jones TA, Joy A, Kamal M, Karlsson EK, Karolchik D, Kasprzyk A, Kawai J, Keibler E, Kells C, Kent WJ, Kirby A, Kolbe DL, Korf I, Kucherlapati RS, Kulbokas EJ, Kulp D, Landers T, Leger JP, Leonard S, Letunic I, Levine R, Li J, Li M, Lloyd C, Lucas S, Ma B, Maglott DR, Mardis ER, Matthews L, Mauceli E, Mayer JH, McCarthy M, McCombie WR, McLaren S, McLay K, McPherson JD, Meldrim J, Meredith B, Mesirov JP, Miller W, Miner TL, Mongin E, Montgomery KT, Morgan M, Mott R, Mullikin JC, Muzny DM, Nash WE, Nelson JO, Nhan MN, Nicol R, Ning Z, Nusbaum C, O'Connor MJ, Okazaki Y, Oliver K, Overton-Larty E, Pachter L, Parra G, Pepin KH, Peterson J, Pevzner P, Plumb R, Pohl CS, Poliakov A, Ponce TC, Ponting CP, Potter S, Quail M, Reymond A, Roe BA, Roskin KM, Rubin EM, Rust AG, Santos R, Sapojnikov V, Schultz B, Schultz J, Schwartz MS, Schwartz S, Scott C, Seaman S, Searle S, Sharpe T, Sheridan A, Shownkeen R, Sims S, Singer JB, Slater G, Smit A, Smith DR, Spencer B, Stabenau A, Stange-Thomann N, Sugnet C, Suyama M, Tesler G, Thompson J, Torrents D, Trevaskis E, Tromp J, Ucla C, Ureta-Vidal A, Vinson JP, Von Niederhausern AC, Wade CM, Wall M, Weber RJ, Weiss RB, Wendl MC, West AP, Wetterstrand K, Wheeler R, Whelan S, Wierzbowski J, Willey D, Williams S, Wilson RK, Winter E, Worley KC, Wyman D, Yang S, Yang SP, Zdobnov EM, Zody MC, Lander ES. Initial sequencing and comparative analysis of the mouse genome. Nature. 2002 Dec 05; 420(6915):520-62. PMID: 12466850.
    Citations: 2178     Fields:    Translation:HumansAnimalsCells
  19. Cline M, Liu G, Loraine AE, Shigeta R, Cheng J, Mei G, Kulp D, Siani-Rose MA. Structure-based comparison of four eukaryotic genomes. Pac Symp Biocomput. 2002; 127-38. PMID: 11928469.
    Citations:    
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Funded by the NIH National Center for Advancing Translational Sciences through its Clinical and Translational Science Awards Program, grant number UL1TR002541.