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

search PubMed.

Papers Published

  1. 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].
  2. 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].
  3. 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].
  4. 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].
  5. 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].
  6. Orlando, DA; Lin, CY; Bernard, A; Iversen, ES; Hartemink, AJ; Haase, SB, A probabilistic model for cell cycle distributions in synchrony experiments., Cell cycle (Georgetown, Tex.), vol. 6 no. 4 (February, 2007), pp. 478-488 [17329975], [doi]  [abs].
  7. 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].
  8. Fox, J; Cummins, B; Moseley, RC; Gameiro, M; Haase, SB, A yeast cell cycle pulse generator model shows consistency with multiple oscillatory and checkpoint mutant datasets., Mathematical biosciences, vol. 367 (January, 2024), pp. 109102 [doi]  [abs].
  9. Campione, SA; Kelliher, CM; Orlando, DA; Tran, TQ; Haase, SB, Alignment of Synchronized Time-Series Data Using the Characterizing Loss of Cell Cycle Synchrony Model for Cross-Experiment Comparisons., Journal of visualized experiments : JoVE no. 196 (June, 2023) [doi]  [abs].
  10. Smith, LM; Motta, FC; Chopra, G; Moch, JK; Nerem, RR; Cummins, B; Roche, KE; Kelliher, CM; Leman, AR; Harer, J; Gedeon, T; Waters, NC; Haase, SB, An intrinsic oscillator drives the blood stage cycle of the malaria parasite Plasmodium falciparum., Science (New York, N.Y.), vol. 368 no. 6492 (May, 2020), pp. 754-759 [doi]  [abs].
  11. Leman, AR; Bristow, SL; Haase, SB, Analyzing transcription dynamics during the budding yeast cell cycle, Methods in Molecular Biology, vol. 1170 (January, 2014), pp. 295-312 [doi]  [abs].
  12. Leman, AR; Bristow, SL; Haase, SB, Analyzing transcription dynamics during the budding yeast cell cycle, Methods in Molecular Biology, vol. 1170 (2014), pp. 295-312, Humana Press Inc. [doi]  [abs].
  13. 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].
  14. Motta, FC; McGoff, KA; Deckard, A; Wolfe, CR; Bonsignori, M; Moody, MA; Cavanaugh, K; Denny, TN; Harer, J; Haase, SB, Assessment of Simulated Surveillance Testing and Quarantine in a SARS-CoV-2-Vaccinated Population of Students on a University Campus., JAMA Health Forum, vol. 2 no. 10 (October, 2021), pp. e213035 [doi]  [abs].
  15. Liu, AB; Davidi, D; Landsberg, HE; Francesconi, M; Platt, JT; Nguyen, GT; Yune, S; Deckard, A; Puglin, J; Haase, SB; Hamer, DH; Springer, M, Association of COVID-19 Quarantine Duration and Postquarantine Transmission Risk in 4 University Cohorts., JAMA network open, vol. 5 no. 2 (February, 2022), pp. e220088 [doi]  [abs].
  16. Hasnain, A; Balakrishnan, S; Joshy, DM; Smith, J; Haase, SB; Yeung, E, Author Correction: Learning perturbation-inducible cell states from observability analysis of transcriptome dynamics., Nature communications, vol. 15 no. 1 (March, 2024), pp. 2034 [doi] .
  17. 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].
  18. 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].
  19. 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].
  20. Motta, F; McGoff, K; Deckard, A; Wolfe, C; Moody, A; Cavanaugh, K; Denny, T; Harer, J; Haase, S, Benefits of Surveillance Testing and Quarantine in a SARS-CoV-2 Vaccinated Population of Students on a University Campus, in medRxiv (2021) [doi] .
  21. 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].
  22. 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. .
  23. 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].
  24. Bristow, SL; Leman, AR; Haase, SB, Cell cycle-regulated transcription: Effectively using a genomics toolbox, vol. 1170 (January, 2014), pp. 3-27 [doi]  [abs].
  25. 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].
  26. 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].
  27. 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 Science and Business Media LLC [doi]  [abs].
  28. 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].
  29. Simmons Kovacs, LA; Haase, SB, Cohesin: it's not just for chromosomes anymore., Cell cycle (Georgetown, Tex.), vol. 9 no. 9 (May, 2010), pp. 1750-1753 [20436287], [doi] .
  30. Leins, DA; Haase, SB; Eslami, M; Schrier, J; Freeman, JT, Collaborative methods to enhance reproducibility and accelerate discovery, Digital Discovery, vol. 2 no. 1 (February, 2023), pp. 12-27 [doi]  [abs].
  31. Saelens, JW; Petersen, JE; Freedman, B; Haase, SB; Taylor, SM, COMPARATIVE TRANSCRIPTOMICS OF PLASMODIUM FALCIPARUM IN NORMAL AND SICKLE-TRAIT ERYTHROCYTES USING RNA SEQUENCING, AMERICAN JOURNAL OF TROPICAL MEDICINE AND HYGIENE, vol. 101 (January, 2019), pp. 500-500, AMER SOC TROP MED & HYGIENE .
  32. 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].
  33. 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 Kalanchoë fedtschenkoi and a Model C3 Photosynthesis Plant Arabidopsis thaliana., Frontiers in plant science, vol. 9 (January, 2018), pp. 1757 [doi]  [abs].
  34. Motta, F; Moseley, R; Cummins, B; Deckard, A; Haase, S, Conservation of dynamic characteristics of transcriptional regulatory elements in periodic biological processes (2020) [doi]  [abs].
  35. Motta, FC; Moseley, RC; Cummins, B; Deckard, A; Haase, SB, Conservation of dynamic characteristics of transcriptional regulatory elements in periodic biological processes., BMC bioinformatics, vol. 23 no. 1 (March, 2022), pp. 94 [doi]  [abs].
  36. 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].
  37. 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, PLOS Computational Biology, vol. 29 no. 24 (2012), pp. 3174-3180 [doi]  [abs].
  38. 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].
  39. Simmons Kovacs, LA; 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 (March, 2013), pp. 1177-1179 [doi] .
  40. 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].
  41. 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].
  42. Cummins, B; Motta, FC; Moseley, RC; Deckard, A; Campione, S; Gameiro, M; Gedeon, T; Mischaikow, K; Haase, SB, Experimental guidance for discovering genetic networks through hypothesis reduction on time series., PLoS computational biology, vol. 18 no. 10 (October, 2022), pp. e1010145 [doi]  [abs].
  43. Cummins, B; Motta, F; Moseley, R; Deckard, A; Campione, S; Gedeon, T; Mischaikow, K; Haase, S, Experimental Guidance for Discovering Genetic Networks through Iterative Hypothesis Reduction on Time Series, in bioRxiv (2022) [doi] .
  44. Haase, SB; Lew, DJ, Flow cytometric analysis of DNA content in budding yeast., Methods Enzymol, vol. 283 (1997), pp. 322-332 [9251030], [doi] .
  45. 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].
  46. 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 [doi]  [abs].
  47. 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].
  48. 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].
  49. Goldman, RP; Moseley, R; Roehner, N; Cummins, B; Vrana, JD; Clowers, KJ; Bryce, D; Beal, J; DeHaven, M; Nowak, J; Higa, T; Biggers, V; Lee, P; Hunt, JP; Mosqueda, L; Haase, SB; Weston, M; Zheng, G; Deckard, A; Gopaulakrishnan, S; Stubbs, JF; Gaffney, NI; Vaughn, MW; Maheshri, N; Mikhalev, E; Bartley, B; Markeloff, R; Mitchell, T; Nguyen, T; Sumorok, D; Walczak, N; Myers, C; Zundel, Z; Hatch, B; Scholz, J; Colonna-Romano, J, Highly-automated, high-throughput replication of yeast-based logic circuit design assessments., Synthetic biology (Oxford, England), vol. 7 no. 1 (January, 2022), pp. ysac018 [doi]  [abs].
  50. Saelens, JW; Petersen, JEV; Freedman, E; Moseley, RC; Konaté, D; Diakité, SAS; Traoré, K; Vance, N; Fairhurst, RM; Diakité, M; Haase, SB; Taylor, SM, Impact of Sickle Cell Trait Hemoglobin on the Intraerythrocytic Transcriptional Program of Plasmodium falciparum., mSphere, vol. 6 no. 5 (October, 2021), pp. e0075521 [doi]  [abs].
  51. Saelens, J; Petersen, JEV; Freedman, E; Moseley, R; Konaté, D; Diakité, SAS; Traoré, K; Vance, N; Fairhurst, R; Diakité, M; Haase, S; Taylor, S, Impact of sickle cell trait hemoglobin on the intraerythrocytic transcriptional program ofPlasmodium falciparum, in bioRxiv (2021) [doi] .
  52. Denny, TN; Andrews, L; Bonsignori, M; Cavanaugh, K; Datto, MB; Deckard, A; DeMarco, CT; DeNaeyer, N; Epling, CA; Gurley, T; Haase, SB; Hallberg, C; Harer, J; Kneifel, CL; Lee, MJ; Louzao, R; Moody, MA; Moore, Z; Polage, CR; Puglin, J; Spotts, PH; Vaughn, JA; Wolfe, CR, Implementation of a Pooled Surveillance Testing Program for Asymptomatic SARS-CoV-2 Infections on a College Campus - Duke University, Durham, North Carolina, August 2-October 11, 2020., MMWR Morb Mortal Wkly Rep, vol. 69 no. 46 (November, 2020), pp. 1743-1747 [doi]  [abs].
  53. Zaitzeff, A; Leiby, N; Motta, F; Haase, S; Singer, J, Improved data sets and evaluation methods for the automatic prediction of DNA-binding proteins, in bioRxiv (2021) [doi] .
  54. Zaitzeff, A; Leiby, N; Motta, FC; Haase, SB; Singer, JM, Improved datasets and evaluation methods for the automatic prediction of DNA-binding proteins., Bioinformatics (Oxford, England), vol. 38 no. 1 (December, 2021), pp. 44-51 [doi]  [abs].
  55. 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].
  56. 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].
  57. Haase, SB; Reed, SI, Improved flow cytometric analysis of the budding yeast cell cycle., Cell cycle (Georgetown, Tex.), vol. 1 no. 2 (March, 2002), pp. 132-136  [abs].
  58. Moseley, RC; Motta, F; Tuskan, GA; Haase, SB; Yang, X, Inference of Gene Regulatory Network Uncovers the Linkage between Circadian Clock and Crassulacean Acid Metabolism in Kalanchoë fedtschenkoi., Cells, vol. 10 no. 9 (August, 2021), pp. 2217 [doi]  [abs].
  59. Moseley, R; Motta, F; Tuskan, G; Haase, S; Yang, X, Inference of Gene Regulatory Network Uncovers the Linkage Between Circadian Clock and Crassulacean Acid Metabolism in Kalanchoë fedtschenkoi, in bioRxiv (2019) [doi] .
  60. Moseley, RC; Campione, S; Cummins, B; Motta, F; Haase, SB, Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline., Journal of visualized experiments : JoVE no. 178 (December, 2021) [doi]  [abs].
  61. 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].
  62. 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].
  63. 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].
  64. 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., Mol Biol Cell, vol. 29 no. 22 (November, 2018), pp. 2644-2655 [doi]  [abs].
  65. Hasnain, A; Balakrishnan, S; Joshy, DM; Smith, J; Haase, SB; Yeung, E, Learning perturbation-inducible cell states from observability analysis of transcriptome dynamics., Nature communications, vol. 14 no. 1 (May, 2023), pp. 3148 [doi]  [abs].
  66. SB Haase, DJ Lew, Microtubule organization: cell shape is destiny., Current biology : CB, vol. 17 no. 7 (April, 2007), pp. R249-51 [doi]  [abs].
  67. Haase, SB; Lew, DJ, Microtubule organization: cell shape is destiny., Curr Biol, vol. 17 no. 7 (April, 2007), pp. R249-R251 [17407755], [doi]  [abs].
  68. 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].
  69. 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].
  70. 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].
  71. 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 (April, 2012), pp. S5 [Gateway.cgi], [doi]  [abs].
  72. 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].
  73. 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].
  74. Welling, CM; Singleton, DR; Haase, SB; Browning, CH; Stoner, BR; Gunsch, CK; Grego, S, Predictive values of time-dense SARS-CoV-2 wastewater analysis in university campus buildings., The Science of the total environment, vol. 835 (August, 2022), pp. 155401 [doi]  [abs].
  75. Vance, NM; Saelens, JW; Petersen, JE; Freedman, E; Moseley, RC; Fairhurst, RM; Diakite, M; Haase, SB; Taylor, SM, QUANTIFICATION OF PLASMODIUM FALCIPARUM CYCLOPHILIN 19B TRANSCRIPTS VIA QPCR IN NORMAL AND SICKLE-TRAIT HEMOGLOBIN GENOTYPES, AMERICAN JOURNAL OF TROPICAL MEDICINE AND HYGIENE, vol. 105 no. 5 (2021), pp. 60-60 .
  76. Cho, C-Y; Motta, F; Kelliher, C; Deckard, A; Haase, S, Reconciling Conflicting Models for Global Control of Cell-Cycle Transcription, in bioRxiv (2017) [doi] .
  77. Cho, C-Y; Motta, FC; Kelliher, CM; Deckard, A; Haase, SB, Reconciling conflicting models for global control of cell-cycle transcription., Cell cycle (Georgetown, Tex.), vol. 16 no. 20 (October, 2017), pp. 1965-1978 [doi]  [abs].
  78. 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].
  79. Cummins, B; Vrana, J; Moseley, RC; Eramian, H; Deckard, A; Fontanarrosa, P; Bryce, D; Weston, M; Zheng, G; Nowak, J; Motta, FC; Eslami, M; Johnson, KL; Goldman, RP; Myers, CJ; Johnson, T; Vaughn, MW; Gaffney, N; Urrutia, J; Gopaulakrishnan, S; Biggers, V; Higa, TR; Mosqueda, LA; Gameiro, M; Gedeon, T; Mischaikow, K; Beal, J; Bartley, B; Mitchell, T; Nguyen, TT; Roehner, N; Haase, SB, Robustness and reproducibility of simple and complex synthetic logic circuit designs using a DBTL loop., Synthetic biology (Oxford, England), vol. 8 no. 1 (January, 2023), pp. ysad005 [doi]  [abs].
  80. Bryce, D; Goldman, RP; DeHaven, M; Beal, J; Bartley, B; Nguyen, TT; Walczak, N; Weston, M; Zheng, G; Nowak, J; Lee, P; Stubbs, J; Gaffney, N; Vaughn, MW; Myers, CJ; Moseley, RC; Haase, S; Deckard, A; Cummins, B; Leiby, N, Round Trip: An Automated Pipeline for Experimental Design, Execution, and Analysis., ACS synthetic biology, vol. 11 no. 2 (February, 2022), pp. 608-622 [doi]  [abs].
  81. Freeman, J; Leins, D; Bell, C, Selecting and assessing challenge problems, Theoretical Issues in Ergonomics Science, vol. 20 no. 1 (January, 2019), pp. 27-38, Informa UK Limited [doi] .
  82. Liu, AB; Davidi, D; Landsberg, HE; Francesconi, M; Platt, J; Nguyen, G; Yune, S; Deckard, A; Puglin, J; Haase, S; Hamer, D; Springer, M, Seven-day COVID-19 quarantine may be too short: assessing post-quarantine transmission risk in four university cohorts, in medRxiv (2021) [doi] .
  83. 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].
  84. Cho, C-Y; Kelliher, C; Haase, S, The Cell-Cycle Transcriptional Network Generates and Transmits a Pulse of Transcription Once Each Cell Cycle, in bioRxiv (2017) [doi] .
  85. 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 (Georgetown, Tex.), vol. 18 no. 4 (February, 2019), pp. 363-378 [doi]  [abs].
  86. 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].
  87. Motta, FC; McGoff, K; Moseley, RC; Cho, C-Y; Kelliher, CM; Smith, LM; Ortiz, MS; Leman, AR; Campione, SA; Devos, N; Chaorattanakawee, S; Uthaimongkol, N; Kuntawunginn, W; Thongpiam, C; Thamnurak, C; Arsanok, M; Wojnarski, M; Vanchayangkul, P; Boonyalai, N; Smith, PL; Spring, MD; Jongsakul, K; Chuang, I; Harer, J; Haase, SB, The parasite intraerythrocytic cycle and human circadian cycle are coupled during malaria infection., Proceedings of the National Academy of Sciences of the United States of America, vol. 120 no. 24 (June, 2023), pp. e2216522120 [doi]  [abs].
  88. 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].
  89. 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].
  90. 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].
  91. Simmons Kovacs, LA; Orlando, DA; Haase, SB, Transcription networks and cyclin/CDKs: the yin and yang of cell cycle oscillators., Cell cycle (Georgetown, Tex.), vol. 7 no. 17 (September, 2008), pp. 2626-2629 [18758238], [doi]  [abs].
  92. Berry, E; Cummins, B; Nerem, RR; Smith, LM; Haase, SB; Gedeon, T, Using extremal events to characterize noisy time series., Journal of mathematical biology, vol. 80 no. 5 (April, 2020), pp. 1523-1557 [doi]  [abs].
  93. Leman, A; Sierra, C; Haase, S, Yeast cells growing slowly: alterations in the dynamics of the cell-cycle transcription program, YEAST, vol. 32 (2015), pp. S62-S63 .