Publications of Steven B. Haase    :chronological  alphabetical  combined  bibtex listing:

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Papers Published

  1. Cho, C-Y; Kelliher, CM; Haase, SB, The cell-cycle transcriptional network generates and transmits a pulse of transcription once each cell cycle., Cell Cycle, vol. 18 no. 4 (February, 2019), pp. 363-378 [doi]  [abs].
  2. Kelliher, CM; Foster, MW; Motta, FC; Deckard, A; Soderblom, EJ; Moseley, MA; Haase, SB, Layers of regulation of cell-cycle gene expression in the budding yeast Saccharomyces cerevisiae., Molecular Biology of the Cell, vol. 29 no. 22 (November, 2018), pp. 2644-2655 [doi]  [abs].
  3. Moseley, RC; Mewalal, R; Motta, F; Tuskan, GA; Haase, S; Yang, X, Conservation and Diversification of Circadian Rhythmicity Between a Model Crassulacean Acid Metabolism Plant KalanchoĆ« fedtschenkoi and a Model C3 Photosynthesis Plant Arabidopsis thaliana., Frontiers in Plant Science, vol. 9 (January, 2018), pp. 1757 [doi]  [abs].
  4. Cho, C-Y; Motta, FC; Kelliher, CM; Deckard, A; Haase, SB, Reconciling conflicting models for global control of cell-cycle transcription., Cell Cycle, vol. 16 no. 20 (October, 2017), pp. 1965-1978 [doi]  [abs].
  5. Kelliher, CM; Haase, SB, Connecting virulence pathways to cell-cycle progression in the fungal pathogen Cryptococcus neoformans., Current Genetics, vol. 63 no. 5 (October, 2017), pp. 803-811 [doi]  [abs].
  6. Kelliher, CM; Leman, AR; Sierra, CS; Haase, SB, Investigating Conservation of the Cell-Cycle-Regulated Transcriptional Program in the Fungal Pathogen, Cryptococcus neoformans., Plos Genetics, vol. 12 no. 12 (December, 2016), pp. e1006453 [doi]  [abs].
  7. McGoff, KA; Guo, X; Deckard, A; Kelliher, CM; Leman, AR; Francey, LJ; Hogenesch, JB; Haase, SB; Harer, JL, The Local Edge Machine: inference of dynamic models of gene regulation., Genome Biology, vol. 17 no. 1 (October, 2016), pp. 214 [doi]  [abs].
  8. Perea, JA; Deckard, A; Haase, SB; Harer, J, SW1PerS: Sliding windows and 1-persistence scoring; discovering periodicity in gene expression time series data., Bmc Bioinformatics, vol. 16 (August, 2015), pp. 257 [doi]  [abs].
  9. Leman, AR; Bristow, SL; Haase, SB, Analyzing transcription dynamics during the budding yeast cell cycle, Methods in Molecular Biology (Clifton, N.J.), vol. 1170 (January, 2014), pp. 295-312 [doi]  [abs].
  10. Leman, AR; Bristow, SL; Haase, SB, Analyzing transcription dynamics during the budding yeast cell cycle., Methods in Molecular Biology (Clifton, N.J.), vol. 1170 (January, 2014), pp. 295-312 [doi]  [abs].
  11. Bristow, SL; Leman, AR; Haase, SB, Cell cycle-regulated transcription: effectively using a genomics toolbox., Methods in Molecular Biology (Clifton, N.J.), vol. 1170 (January, 2014), pp. 3-27 [doi]  [abs].
  12. Haase, SB; Wittenberg, C, Topology and control of the cell-cycle-regulated transcriptional circuitry., Genetics, vol. 196 no. 1 (January, 2014), pp. 65-90 [24395825], [doi]  [abs].
  13. Bristow, SL; Leman, AR; Simmons Kovacs, LA; Deckard, A; Harer, J; Haase, SB, Checkpoints couple transcription network oscillator dynamics to cell-cycle progression, Genome Biology, vol. 15 no. 9 (2014), pp. 446-446, Springer Nature [doi]  [abs].
  14. Leman, AR; Bristow, SL; Haase, SB, Analyzing transcription dynamics during the budding yeast cell cycle, Methods in Molecular Biology (Clifton, N.J.), vol. 1170 (2014), pp. 295-312, HUMANA PRESS INC [doi]  [abs].
  15. Deckard, A; Anafi, RC; Hogenesch, JB; Haase, SB; Harer, J, Design and analysis of large-scale biological rhythm studies: a comparison of algorithms for detecting periodic signals in biological data., Bioinformatics (Oxford, England), vol. 29 no. 24 (December, 2013), pp. 3174-3180 [doi]  [abs].
  16. Guo, X; Bernard, A; Orlando, DA; Haase, SB; Hartemink, AJ, Branching process deconvolution algorithm reveals a detailed cell-cycle transcription program., Proceedings of the National Academy of Sciences of the United States of America, vol. 110 no. 10 (March, 2013), pp. E968-E977 [23388635], [doi]  [abs].
  17. Kovacs, LAS; Mayhew, MB; Orlando, DA; Jin, Y; Li, Q; Huang, C; Reed, SI; Mukherjee, S; Haase, SB, Errata to Cyclin-dependent kinases are regulators and effectors of oscillations driven by a transcription factor network [Molecular Cell, 45 (2012) 669-679], Molecular Cell, vol. 49 no. 6 (2013), pp. 1177-1179 [doi] .
  18. Chee, MK; Haase, SB, New and Redesigned pRS Plasmid Shuttle Vectors for Genetic Manipulation of Saccharomycescerevisiae., G3 (Bethesda, Md.), vol. 2 no. 5 (May, 2012), pp. 515-526 [22670222], [doi]  [abs].
  19. Simmons Kovacs, LA; Mayhew, MB; Orlando, DA; Jin, Y; Li, Q; Huang, C; Reed, SI; Mukherjee, S; Haase, SB, Cyclin-dependent kinases are regulators and effectors of oscillations driven by a transcription factor network., Molecular Cell, vol. 45 no. 5 (March, 2012), pp. 669-679, Elsevier BV [22306294], [doi]  [abs].
  20. Mayhew, MB; Guo, X; Haase, SB; Hartemink, AJ, Close encounters of the collaborative kind, Computer, vol. 45 no. 3 (March, 2012), pp. 24-30, Institute of Electrical and Electronics Engineers (IEEE) [85], [doi]  [abs].
  21. Ho, HJ; Lin, TI; Chang, HH; Haase, SB; Huang, S; Pyne, S, Parametric modeling of cellular state transitions as measured with flow cytometry., in ICCABS, IEEE 1st International Conference on Computational Advances in Bio and Medical Sciences, Bmc Bioinformatics, vol. 13 Suppl 5 (January, 2012), pp. 147-152 [doi]  [abs].
  22. Ho, HJ; Lin, TI; Chang, HH; Haase, SB; Huang, S; Pyne, S, Parametric modeling of cellular state transitions as measured with flow cytometry., Bmc Bioinformatics, vol. 13 Suppl 5 (January, 2012), pp. S5 [Gateway.cgi], [doi]  [abs].
  23. HJ Ho, TI Lin, HH Chang, SB Haase, S Huang, S Pyne, Parametric modeling of cellular state transitions as measured with flow cytometry., BMC bioinformatics, vol. 13 Suppl 5 (2012), pp. S5 [doi]  [abs].
  24. Mayhew, MB; Robinson, JW; Jung, B; Haase, SB; Hartemink, AJ, A generalized model for multi-marker analysis of cell cycle progression in synchrony experiments., Bioinformatics (Oxford, England), vol. 27 no. 13 (July, 2011), pp. i295-i303 [21685084], [doi]  [abs].
  25. Simmons Kovacs, LA; Haase, SB, Cohesin: it's not just for chromosomes anymore., Cell Cycle, vol. 9 no. 9 (May, 2010), pp. 1750-1753 [20436287], [doi] .
  26. Chee, MK; Haase, SB, B-cyclin/CDKs regulate mitotic spindle assembly by phosphorylating kinesins-5 in budding yeast., Plos Genetics, vol. 6 no. 5 (May, 2010), pp. e1000935 [20463882], [doi]  [abs].
  27. Chee, MK; Haase, SB, B-Cyclin/CDKs regulate mitotic spindle assembly by phosphorylating kinesins-5 in budding yeast, Plos Genetics, vol. 6 no. 5 (May, 2010), pp. 35 [repository], [doi]  [abs].
  28. Orlando, DA; Iversen, ES; Hartemink, AJ; Haase, SB, A branching process model for flow cytometry and budding index measurements in cell synchrony experiments., The Annals of Applied Statistics, vol. 3 no. 4 (Winter, 2009), pp. 1521-1541 [21853014], [doi]  [abs].
  29. DA Orlando, ES Iversen Jr, AJ Hartemink, SB Haase, A BRANCHING PROCESS MODEL FOR FLOW CYTOMETRY AND BUDDING INDEX MEASUREMENTS IN CELL SYNCHRONY EXPERIMENTS., The annals of applied statistics, vol. 3 no. 4 (2009), pp. 1521-1541 [doi]  [abs].
  30. Simmons Kovacs, LA; Orlando, DA; Haase, SB, Transcription networks and cyclin/CDKs: the yin and yang of cell cycle oscillators., Cell Cycle, vol. 7 no. 17 (September, 2008), pp. 2626-2629 [18758238], [doi]  [abs].
  31. LA Simmons Kovacs, DA Orlando, SB Haase, Transcription networks and cyclin/CDKs: the yin and yang of cell cycle oscillators., Cell cycle (Georgetown, Tex.), vol. 7 no. 17 (September, 2008), pp. 2626-9  [abs].
  32. Kovacs, LAS; Orlando, DA; Haase, SB, Transcription network and cyclin/CDKs: The yin and yang of cell cy, Cell Cycle, vol. 7 no. 17 (September, 2008), pp. 2626-2629 [Gateway.cgi], [doi] .
  33. Simmons Kovacs, LA; Nelson, CL; Haase, SB, Intrinsic and cyclin-dependent kinase-dependent control of spindle pole body duplication in budding yeast., Molecular Biology of the Cell, vol. 19 no. 8 (August, 2008), pp. 3243-3253 [18480404], [doi]  [abs].
  34. DA Orlando, CY Lin, A Bernard, JY Wang, JE Socolar, ES Iversen, AJ Hartemink, SB Haase, Global control of cell-cycle transcription by coupled CDK and network oscillators., Nature, vol. 453 no. 7197 (June, 2008), pp. 944-7 [doi]  [abs].
  35. Orlando, DA; Lin, CY; Bernard, A; Wang, JY; Socolar, JES; Iversen, ES; Hartemink, AJ; Haase, SB, Global control of cell-cycle transcription by coupled CDK and network oscillators., Nature, vol. 453 no. 7197 (June, 2008), pp. 944-947 [18463633], [doi]  [abs].
  36. SB Haase, DJ Lew, Microtubule organization: cell shape is destiny., Current biology : CB, vol. 17 no. 7 (April, 2007), pp. R249-51 [doi]  [abs].
  37. Haase, SB; Lew, DJ, Microtubule organization: cell shape is destiny., Current Biology : Cb, vol. 17 no. 7 (April, 2007), pp. R249-R251 [17407755], [doi]  [abs].
  38. Orlando, DA; Lin, CY; Bernard, A; Iversen, ES; Hartemink, AJ; Haase, SB, A probabilistic model for cell cycle distributions in synchrony experiments., Cell Cycle, vol. 6 no. 4 (February, 2007), pp. 478-488 [17329975], [doi]  [abs].
  39. D. A. Orlando and C. Y. Lin and A. Bernard and E. S. Iversen and A. J. Hartemink and S. B. Haase, A probabilistic model for cell cycle distributions in synchrony experiments., Cell Cycle, vol. 6 no. 4 (February, 2007), pp. 478-88  [abs].
  40. Jackson, LP; Reed, SI; Haase, SB, Distinct mechanisms control the stability of the related S-phase cyclins Clb5 and Clb6., Molecular and Cellular Biology, vol. 26 no. 6 (March, 2006), pp. 2456-2466 [16508019], [doi]  [abs].
  41. Haase, SB, Cell cycle analysis of budding yeast using SYTOX Green., Current Protocols in Cytometry, vol. Chapter 7 (November, 2004), pp. Unit-7.23 [18770800], [doi]  [abs].
  42. S. Haase, Cell Cycle Analysis of Budding Yeast Using SYTOX Green, in Curr. Prot. Cytom., edited by J. Paul Robinson (Fall, 2003), pp. 7.23.1-7.23.5, John Wiley and Sons, Inc. .
  43. SB Haase, SI Reed, Improved flow cytometric analysis of the budding yeast cell cycle., Cell cycle (Georgetown, Tex.), United States, vol. 1 no. 2 (January, 2003), pp. 132-6  [abs].
  44. Haase, SB; Reed, SI, Improved flow cytometric analysis of the budding yeast cell cycle., Cell Cycle, vol. 1 no. 2 (March, 2002), pp. 132-136  [abs].
  45. SB Haase, DJ Clarke, A festival of cell-cycle controls., Trends in cell biology, England, vol. 11 no. 11 (November, 2001), pp. 445-6  [abs].
  46. Haase, SB; Clarke, DJ, A festival of cell-cycle controls., Trends in Cell Biology, vol. 11 no. 11 (November, 2001), pp. 445-446 [doi]  [abs].
  47. Haase, SB; Winey, M; Reed, SI, Multi-step control of spindle pole body duplication by cyclin-dependent kinase., Nature Cell Biology, vol. 3 no. 1 (January, 2001), pp. 38-42 [doi]  [abs].
  48. Haase, SB; Winey, M; Reed, SI, Multi-step control of spindle pole body duplication by cyclin-dependent kinase, Nature Cell Biology, vol. 3 no. 1 (2001), pp. 599-607  [abs] [author's comments].
  49. J Kiely, SB Haase, P Russell, J Leatherwood, Functions of fission yeast orp2 in DNA replication and checkpoint control., Genetics, UNITED STATES, vol. 154 no. 2 (February, 2000), pp. 599-607  [abs].
  50. Kiely, J; Haase, SB; Russell, P; Leatherwood, J, Functions of fission yeast orp2 in DNA replication and checkpoint control., Genetics, vol. 154 no. 2 (February, 2000), pp. 599-607  [abs].
  51. SB Haase, SI Reed, Evidence that a free-running oscillator drives G1 events in the budding yeast cell cycle., Nature, ENGLAND, vol. 401 no. 6751 (September, 1999), pp. 394-7 [doi]  [abs].
  52. Haase, SB; Reed, SI, Evidence that a free-running oscillator drives G1 events in the budding yeast cell cycle., Nature, vol. 401 no. 6751 (September, 1999), pp. 394-397 [doi]  [abs] [author's comments].
  53. Haase, SB; Lew, DJ, Flow cytometric analysis of DNA content in budding yeast., Methods in Enzymology, vol. 283 (1997), pp. 322-332 [9251030], [doi] .
  54. Haase, SB; Heinzel, SS; Calos, MP, Transcription inhibits the replication of autonomously replicating plasmids in human cells., Molecular and Cellular Biology, vol. 14 no. 4 (April, 1994), pp. 2516-2524 [doi]  [abs].
  55. Haase, SB; Calos, MP, Replication control of autonomously replicating human sequences., Nucleic Acids Research, vol. 19 no. 18 (September, 1991), pp. 5053-5058 [doi]  [abs].
  56. Haase, SB; Heinzel, SS; Krysan, PJ; Calos, MP, Improved EBV shuttle vectors., Mutation Research, vol. 220 no. 2-3 (March, 1989), pp. 125-132 [doi]  [abs].
  57. Krysan, PJ; Haase, SB; Calos, MP, Isolation of human sequences that replicate autonomously in human cells., Molecular and Cellular Biology, vol. 9 no. 3 (March, 1989), pp. 1026-1033 [doi]  [abs].
  58. MK Chee, SB Haase, B-cyclin/CDKs regulate mitotic spindle assembly by phosphorylating kinesins-5 in budding yeast., PLoS genetics, vol. 6 no. 5 (05-06-2010), pp. e1000935 [doi]  [abs].

Papers Accepted

  1. Bristow, SL; Leman, AR; Haase, SB, Cell cycle-regulated transcription: Effectively using a genomics toolbox, vol. 1170 (January, 2014), pp. 3-27 [doi]  [abs].
  2. Bristow, SL; Leman, AR; Haase, SB, Cell cycle-regulated transcription: Effectively using a genomics toolbox, vol. 1170 (2014), pp. 3-27, HUMANA PRESS INC [doi]  [abs].
  3. Steven B. Haase and Curt Wittenberg, Topology and Control of the Cell Cycle-Regulated Transcriptional Circuitry, Genetics (and Yeastbook) (October, 2013) .