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1

Unlocking the Constraints of Cyanobacterial Productivity: Acclimations Enabling Ultrafast Growth

Bernstein, Hans C., McClure, Ryan S., Hill, Eric A., Markillie, Lye Meng, Chrisler, William B., Romine, Margie F., McDermott, Jason E., Posewitz, Matthew C., Bryant, Donald A., Konopka, Allan E., Fred

Journal:

Year:

2016

Language:

english

File:

PDF, 1.11 MB

english, 2016

2

Cells Respond to Distinct Nanoparticle Properties with Multiple Strategies As Revealed by Single-Cell RNA-Seq

Mitchell, Hugh D., Markillie, Lye Meng, Chrisler, William B., Gaffrey, Matthew J., Hu, Dehong, Szymanski, Craig J., Xie, Yumei, Melby, Eric S., Dohnalkova, Alice, Taylor, Ronald C., Grate, Eva K., Coo

Journal:

Year:

2016

Language:

english

File:

PDF, 2.06 MB

english, 2016

3

Coregulation of Terpenoid Pathway Genes and Prediction of Isoprene Production in Bacillus subtilis Using Transcriptomics

Hess, Becky M., Xue, Junfeng, Markillie, Lye Meng, Taylor, Ronald C., Wiley, H. Steven, Ahring, Birgitte K., Linggi, Bryan, Otto, Michael

Journal:

Year:

2013

Language:

english

File:

PDF, 1.92 MB

english, 2013

4

Modulation of JB6 mouse epidermal cell transformation response by the prostaglandin F2α receptor

Thomas J. Weber, Lye M. Markillie, William B. Chrisler, George A. Vielhauer, John W. Regan

Journal:

Molecular Carcinogenesis

Year:

2002

Language:

english

File:

PDF, 198 KB

english, 2002

5

A paracrine signal mediates the cell transformation response to low dose gamma radiation in JB6 cells

Thomas J. Weber, Robert W. Siegel, Lye M. Markillie, William B. Chrisler, Xingye C. Lei, Nancy H. Colburn

Journal:

Molecular Carcinogenesis

Year:

2005

Language:

english

File:

PDF, 120 KB

english, 2005

6

Quantitative phosphoproteomics identifies filaggrin and other targets of ionizing radiation in a human skin model

Feng Yang, Katrina M. Waters, Bobbie-Jo Webb-Robertson, Marianne B. Sowa, Claere von Neubeck, Josh T. Aldrich, Lye Meng Markillie, Rachel M. Wirgau, Marina A. Gritsenko, Rui Zhao, David G. Camp II, Ri

Journal:

Experimental Dermatology

Year:

2012

Language:

english

File:

PDF, 340 KB

english, 2012

7

Ultraviolet radiation as disinfection for fish surgical tools

Ricardo W Walker, Lye Meng Markillie, Alison H Colotelo…

Journal:

Animal Biotelemetry

Year:

2013

Language:

english

File:

PDF, 342 KB

english, 2013

8

Changes in translational efficiency is a dominant regulatory mechanism in the environmental response of bacteria

Taylor, Ronald C., Webb Robertson, Bobbie-Jo M., Markillie, Lye Meng, Serres, Margrethe H., Linggi, Bryan E., Aldrich, Joshua T., Hill, Eric A., Romine, Margaret F., Lipton, Mary S., Wiley, H. Steven

Journal:

Integrative Biology

Year:

2013

Language:

english

File:

PDF, 3.58 MB

english, 2013

9

Simple Protein Complex Purification and Identification Method for High-Throughput Mapping of Protein Interaction Networks

Markillie, Lye Meng, Lin, Chiann-Tso, Adkins, Joshua N., Auberry, Deanna L., Hill, Eric A., Hooker, Brian S., Moore, Priscilla A., Moore, Ronald J., Shi, Liang, Wiley, H. Steven, Kery, Vladimir

Journal:

Journal of Proteome Research

Year:

2005

Language:

english

File:

PDF, 276 KB

english, 2005

10

Inference of interactions in cyanobacterial–heterotrophic co-cultures via transcriptome sequencing

Beliaev, Alexander S, Romine, Margie F, Serres, Margrethe, Bernstein, Hans C, Linggi, Bryan E, Markillie, Lye M, Isern, Nancy G, Chrisler, William B, Kucek, Leo A, Hill, Eric A, Pinchuk, Grigoriy E, B

Journal:

The ISME Journal

Year:

2014

Language:

english

File:

PDF, 1013 KB

english, 2014

11

Dynamic Motion of Helix A in the Amino-Terminal Domain of Calmodulin Is Stabilized upon Calcium Activation †

Chen, Baowei, Mayer, M. Uljana, Markillie, Lye Meng, Stenoien, David L., Squier, Thomas C.

Journal:

Year:

2005

Language:

english

File:

PDF, 215 KB

english, 2005

12

Increased Catalytic Efficiency following Gene Fusion of Bifunctional Methionine Sulfoxide Reductase Enzymes from Shewanella oneidensis †

Chen, Baowei, Markillie, Lye Meng, Xiong, Yijia, Mayer, M. Uljana, Squier, Thomas C.

Journal:

Year:

2007

Language:

english

File:

PDF, 439 KB

english, 2007

13

Cellular recognition and trafficking of amorphous silica nanoparticles by macrophage scavenger receptor A

Orr, Galya A., Chrisler, William B., Cassens, Kaylyn J., Tan, Ruimin, Tarasevich, Barbara J., Markillie, Lye Meng, Zangar, Richard C., Thrall, Brian D.

Journal:

Year:

2011

Language:

english

File:

PDF, 840 KB

english, 2011

14

Genomic Expansion of Domain Archaea Highlights Roles for Organisms from New Phyla in Anaerobic Carbon Cycling

Castelle, Cindy J., Wrighton, Kelly C., Thomas, Brian C., Hug, Laura A., Brown, Christopher T., Wilkins, Michael J., Frischkorn, Kyle R., Tringe, Susannah G., Singh, Andrea, Markillie, Lye Meng, Taylo

Journal:

Current Biology

Year:

2015

Language:

english

File:

PDF, 1.13 MB

english, 2015

15

The Toxoplasma gondii Cyst Wall Protein CST1 Is Critical for Cyst Wall Integrity and Promotes Bradyzoite Persistence

Tomita, Tadakimi, Bzik, David J., Ma, Yan Fen, Fox, Barbara A., Markillie, Lye Meng, Taylor, Ronald C., Kim, Kami, Weiss, Louis M., Soldati-Favre, Dominique

Journal:

Year:

2013

Language:

english

File:

PDF, 7.23 MB

english, 2013

16

Regulation of infection efficiency in a globally abundant marine Bacteriodetes virus

Howard-Varona, Cristina, Roux, Simon, Dore, Hugo, Solonenko, Natalie E, Holmfeldt, Karin, Markillie, Lye M, Orr, Galya, Sullivan, Matthew B

Journal:

The ISME Journal

Year:

2016

Language:

english

File:

PDF, 1.66 MB

english, 2016

17

Network analysis of transcriptomics expands regulatory landscapes in Synechococcus sp. PCC 7002

McClure, Ryan S., Overall, Christopher C., McDermott, Jason E., Hill, Eric A., Markillie, Lye Meng, McCue, Lee Ann, Taylor, Ronald C., Ludwig, Marcus, Bryant, Donald A., Beliaev, Alexander S.

Journal:

Nucleic Acids Research

Year:

2016

Language:

english

File:

PDF, 3.77 MB

english, 2016

18

Identification of Differential Gene Expression Patterns after Acute Exposure to High and Low Doses of Low-LET Ionizing Radiation in a Reconstituted Human Skin Tissue

Tilton, Susan C., Markillie, Lye Meng, Hays, Spencer, Taylor, Ronald C., Stenoien, David L.

Journal:

Radiation Research

Year:

2016

Language:

english

File:

PDF, 926 KB

english, 2016

19

Multi-Omic Dynamics Associate Oxygenic Photosynthesis with Nitrogenase-Mediated H2 Production in Cyanothece sp. ATCC 51142

Bernstein, Hans C., Charania, Moiz A., McClure, Ryan S., Sadler, Natalie C., Melnicki, Matthew R., Hill, Eric A., Markillie, Lye Meng, Nicora, Carrie D., Wright, Aaron T., Romine, Margaret F., Beliaev

Journal:

Scientific Reports

Year:

2015

Language:

english

File:

PDF, 982 KB

english, 2015

20

Regulation of infection efficiency in a globally abundant marine Bacteriodetes virus

Howard-Varona, Cristina, Roux, Simon, Dore, Hugo, Solonenko, Natalie E, Holmfeldt, Karin, Markillie, Lye M, Orr, Galya, Sullivan, Matthew B

Journal:

The ISME Journal

Year:

2017

File:

PDF, 34 KB

2017

21

Fluctuation localization imaging-based fluorescence in situ hybridization (fliFISH) for accurate detection and counting of RNA copies in single cells

Cui, Yi, Hu, Dehong, Markillie, Lye Meng, Chrisler, William B., Gaffrey, Matthew J., Ansong, Charles, Sussel, Lori, Orr, Galya

Journal:

Nucleic Acids Research

Year:

2017

Language:

english

File:

PDF, 7.59 MB

english, 2017

22

Phenotypic responses to interspecies competition and commensalism in a naturally-derived microbial co-culture

Khan, Nymul, Maezato, Yukari, McClure, Ryan S., Brislawn, Colin J., Mobberley, Jennifer M., Isern, Nancy, Chrisler, William B., Markillie, Lye Meng, Barney, Brett M., Song, Hyun-Seob, Nelson, William

Journal:

Scientific Reports

Year:

2018

Language:

english

File:

PDF, 1.94 MB

english, 2018

23

Distinct Strains of Toxoplasma gondii Feature Divergent Transcriptomes Regardless of Developmental Stage

Croken, Matthew McKnight, Ma, Yanfen, Markillie, Lye Meng, Taylor, Ronald C., Orr, Galya, Weiss, Louis M., Kim, Kami, Knoll, Laura J.

Journal:

Year:

2014

Language:

english

File:

PDF, 1.13 MB

english, 2014

24

Multi-time series RNA-seq analysis of Enterobacter lignolyticus SCF1 during growth in lignin-amended medium

Orellana, Roberto, Chaput, Gina, Markillie, Lye Meng, Mitchell, Hugh, Gaffrey, Matt, Orr, Galya, DeAngelis, Kristen M., Yang, Shihui

Journal:

Year:

2017

Language:

english

File:

PDF, 2.46 MB

english, 2017

25

Overexpression of multi-heme C-type cytochromes

Shi, Liang, Lin, Jiann-Trzwo, Markillie, Lye M., Squier, Thomas C., Hooker, Brian S.

Journal:

Year:

2005

Language:

english

File:

PDF, 131 KB

english, 2005

26

Reference genes for accurate normalization of gene expression in wood-decomposing fungi

Zhang, Jiwei, Mitchell, Hugh D., Markillie, Lye Meng, Gaffrey, Matthew J., Orr, Galya, Schilling, Jonathan

Journal:

Fungal Genetics and Biology

Year:

2019

Language:

english

File:

PDF, 1.66 MB

english, 2019

27

Rosette core fungal resistance in Arabidopsis thaliana

Dai, Yanwan, Ogilvie, Huw A., Liu, Yuan, Huang, Michael, Markillie, Lye Meng, Mitchell, Hugh D., Borrego, Eli J., Kolomiets, Michael V., Gaffrey, Matthew J., Orr, Galya, Chehab, E. Wassim, Mao, Wan-Ti

Journal:

Year:

2019

Language:

english

File:

PDF, 1.93 MB

english, 2019

28

Colonies of the fungus Aspergillus niger are highly differentiated to adapt to local carbon source variation

Daly, Paul, Peng, Mao, Mitchell, Hugh D., Kim, Young‐Mo, Ansong, Charles, Brewer, Heather, Gijsel, Peter, Lipton, Mary S., Markillie, Lye Meng, Nicora, Carrie D., Orr, Galya, Wiebenga, Ad, Hildén, Kri

Journal:

Environmental Microbiology

Year:

2020

File:

PDF, 15.72 MB

2020

29

Subtoxic dose of lithium cobalt oxide nanosheets impacts critical molecular pathways in trout gill epithelial cells

Mensch, Arielle C., Mitchell, Hugh D., Markillie, Lye Meng, Laudadio, Elizabeth D., Hedlund Orbeck, Jenny K., Dohnalkova, Alice, Schwartz, Michael P., Hamers, Robert J., Orr, Galya

Journal:

Environmental Science: Nano

Year:

2020

File:

PDF, 3.84 MB

2020