Conservation of dynamic characteristics of transcriptional regulatory elements in periodic biological processes.

Steven B. Haase https://orcid.org/0000-0001-8127-8992 https://www.wikidata.org/entity/Q59748026

Francis C. Motta Robert C. Moseley Bree Cummins Anastasia Deckard Steven B. Haase Conservation of dynamic characteristics of transcriptional regulatory elements in periodic biological processes. 94 2022 23 BMC Bioinform. 1 https://doi.org/10.1186/s12859-022-04627-9 db/journals/bmcbi/bmcbi23.html#MottaMCDH22

Breschine Cummins Francis C. Motta Robert C. Moseley Anastasia Deckard Sophia Campione Marcio Gameiro Tomás Gedeon Konstantin Mischaikow Steven B. Haase Experimental guidance for discovering genetic networks through hypothesis reduction on time series. 1010145 2022 October 18 PLoS Comput. Biol. 10 https://doi.org/10.1371/journal.pcbi.1010145 https://www.wikidata.org/entity/Q115020717 db/journals/ploscb/ploscb18.html#CumminsMMDCGGMH22

Alexander Zaitzeff Nick Leiby Francis C. Motta Steven B. Haase Jed Singer Improved datasets and evaluation methods for the automatic prediction of DNA-binding proteins. 44-51 2021 38 Bioinform. 1 https://doi.org/10.1093/bioinformatics/btab603 db/journals/bioinformatics/bioinformatics38.html#ZaitzeffLMHS21

Francis C. Motta John Harer Nick Leiby Franco Marinozzi Scott Novotney Gabe Rocklin Jed Singer Devin Strickland Matt Vaughn Christopher J. Tralie Rossella Bedini Fabiano Bini Gilberto Bini Hamed Eramian Marcio Gameiro Steven B. Haase Hugh Haddox Hyperparameter Optimization of Topological Features for Machine Learning Applications. 1107-1114 2019 ICMLA https://doi.org/10.1109/ICMLA.2019.00185 conf/icmla/2019 db/conf/icmla/icmla2019.html#MottaHLMNRSSVTB19

Jose A. Perea Anastasia Deckard Steven B. Haase John Harer SW1PerS: Sliding windows and 1-persistence scoring; discovering periodicity in gene expression time series data. 257:1-257:12 2015 16 BMC Bioinform. https://doi.org/10.1186/s12859-015-0645-6 https://www.wikidata.org/entity/Q30987533 db/journals/bmcbi/bmcbi16.html#PereaDHH15

Anastasia Deckard Ron C. Anafi John B. Hogenesch Steven B. Haase John Harer Design and analysis of large-scale biological rhythm studies: a comparison of algorithms for detecting periodic signals in biological data. 3174-3180 2013 29 Bioinform. 24 https://doi.org/10.1093/bioinformatics/btt541 https://www.wikidata.org/entity/Q30668850 db/journals/bioinformatics/bioinformatics29.html#DeckardAHHH13

Xin Guo 0020 Allister Bernard David A. Orlando Steven B. Haase Alexander J. Hartemink Branching process deconvolution algorithm reveals a detailed cell-cycle transcription program. E968-E977 2013 110 Proc. Natl. Acad. Sci. USA 10 https://doi.org/10.1073/pnas.1120991110 https://www.wikidata.org/entity/Q36673033 db/journals/pnas/pnas110.html#GuoBOHH13

Hsiu J. Ho Tsung-I Lin Hannah H. Chang Steven B. Haase Sui Huang Saumyadipta Pyne Parametric modeling of cellular state transitions as measured with flow cytometry. S5 2012 13 BMC Bioinform. S-5 https://doi.org/10.1186/1471-2105-13-S5-S5 https://www.wikidata.org/entity/Q34248125 db/journals/bmcbi/bmcbi13S.html#HoLCHHP12

Michael B. Mayhew Xin Guo 0020 Steven B. Haase Alexander J. Hartemink Close Encounters of the Collaborative Kind. 24-30 2012 45 Computer 3 https://doi.org/10.1109/MC.2012.85 http://doi.ieeecomputersociety.org/10.1109/MC.2012.85 db/journals/computer/computer45.html#MayhewGHH12

Michael B. Mayhew Joshua W. Robinson Boyoun Jung Steven B. Haase Alexander J. Hartemink A generalized model for multi-marker analysis of cell cycle progression in synchrony experiments. 295-303 2011 27 Bioinform. 13 https://doi.org/10.1093/bioinformatics/btr244 https://www.wikidata.org/entity/Q33936066 db/journals/bioinformatics/bioinformatics27.html#MayhewRJHH11

Saumyadipta Pyne Steven B. Haase Hsiu J. Ho Tsung-I Lin Parametric modeling of cellular state transitions as measured with flow cytometry. 147-152 2011 ICCABS https://doi.org/10.1109/ICCABS.2011.5729870 https://doi.ieeecomputersociety.org/10.1109/ICCABS.2011.5729870 conf/iccabs/2011 db/conf/iccabs/iccabs2011.html#PyneHHL11 Ron C. Anafi Rossella Bedini Allister Bernard Fabiano Bini Gilberto Bini Sophia Campione Hannah H. Chang Breschine CumminsBree Cummins Anastasia Deckard Hamed Eramian Marcio Gameiro Tomás Gedeon Xin Guo 0020 Hugh Haddox John Harer Alexander J. Hartemink Hsiu J. Ho John B. Hogenesch Sui Huang Boyoun Jung Nick Leiby Tsung-I Lin Franco Marinozzi Michael B. Mayhew Konstantin Mischaikow Robert C. Moseley Francis C. Motta Scott Novotney David A. Orlando Jose A. Perea Saumyadipta Pyne Joshua W. Robinson Gabe Rocklin Jed Singer Devin Strickland Christopher J. Tralie Matthew W. VaughnMatt Vaughn Alexander Zaitzeff