Work with academic experts in molecular biology
A scholar or researcher with expertise in molecular biology can help business and industrial clients solve their molecular biology problems and conduct molecular biology research to get ahead on R&D. Experts on NotedSource with backgrounds in molecular biology include Aimee Eggler, Elizabeth Kish, Tim Osswald, Dale George, Jo Gogola, Janani Panneerselvam, Giuliana Noratto, Elle Wang, Ammon Posey, Danielle Orozco Cosio, Alyssa Burkhardt, Jonathan Eby, Madhvi Venkatesh, Keisha Walters, Sally Irwin, Jeffrey Townsend, Edoardo Airoldi, Peter Reich, Boris Leibovitch, Dona SLEIMAN, basanti deopura, Dushani L. Palliyaguru, Ph.D., Jamie Marks, Michael W Harman, Jennifer Aaker, Dr. Susanne Ressl, Katelyn Katelyn Masiuk, Nima Ziraknejad, Amir Manbachi, John Joe, Anna Koster, Emily Owens, Marina Baretti, and Daniel Milej, Ph.D..
Aimee Eggler
Professor of Chemistry and Biochemistry at Villanova University
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25 total publications
Discovery of N-(benzo[1,2,3]triazol-1-yl)-N-(benzyl)acetamido)phenyl) carboxamides as severe acute respiratory syndrome coronavirus (SARS-CoV) 3CLpro inhibitors: Identification of ML300 and noncovalent nanomolar inhibitors with an induced-fit binding
Bioorganic & Medicinal Chemistry Letters / Nov 01, 2013
Turlington, M., Chun, A., Tomar, S., Eggler, A., Grum-Tokars, V., Jacobs, J., Daniels, J. S., Dawson, E., Saldanha, A., Chase, P., Baez-Santos, Y. M., Lindsley, C. W., Hodder, P., Mesecar, A. D., & Stauffer, S. R. (2013). Discovery of N-(benzo[1,2,3]triazol-1-yl)-N-(benzyl)acetamido)phenyl) carboxamides as severe acute respiratory syndrome coronavirus (SARS-CoV) 3CLpro inhibitors: Identification of ML300 and noncovalent nanomolar inhibitors with an induced-fit binding. Bioorganic & Medicinal Chemistry Letters, 23(22), 6172–6177. https://doi.org/10.1016/j.bmcl.2013.08.112
Screening for natural chemoprevention agents that modify human Keap1
Analytical Biochemistry / Feb 01, 2012
Hu, C., Nikolic, D., Eggler, A. L., Mesecar, A. D., & van Breemen, R. B. (2012). Screening for natural chemoprevention agents that modify human Keap1. Analytical Biochemistry, 421(1), 108–114. https://doi.org/10.1016/j.ab.2011.10.028
Development of an efficient E. coli expression and purification system for a catalytically active, human Cullin3–RINGBox1 protein complex and elucidation of its quaternary structure with Keap1
Biochemical and Biophysical Research Communications / Oct 01, 2010
Small, E., Eggler, A., & Mesecar, A. D. (2010). Development of an efficient E. coli expression and purification system for a catalytically active, human Cullin3–RINGBox1 protein complex and elucidation of its quaternary structure with Keap1. Biochemical and Biophysical Research Communications, 400(4), 471–475. https://doi.org/10.1016/j.bbrc.2010.08.062
Cul3-mediated Nrf2 ubiquitination and antioxidant response element (ARE) activation are dependent on the partial molar volume at position 151 of Keap1
Biochemical Journal / Jul 29, 2009
Eggler, A. L., Small, E., Hannink, M., & Mesecar, A. D. (2009). Cul3-mediated Nrf2 ubiquitination and antioxidant response element (ARE) activation are dependent on the partial molar volume at position 151 of Keap1. Biochemical Journal, 422(1), 171–180. https://doi.org/10.1042/bj20090471
The structures of T87I phosphono-CheY and T87I/Y106W phosphono-CheY help to explain their binding affinities to the FliM and CheZ peptides
Archives of Biochemistry and Biophysics / Nov 01, 2008
McAdams, K., Casper, E. S., Matthew Haas, R., Santarsiero, B. D., Eggler, A. L., Mesecar, A., & Halkides, C. J. (2008). The structures of T87I phosphono-CheY and T87I/Y106W phosphono-CheY help to explain their binding affinities to the FliM and CheZ peptides. Archives of Biochemistry and Biophysics, 479(2), 105–113. https://doi.org/10.1016/j.abb.2008.08.019
The C Terminus of the Escherichia coli RecA Protein Modulates the DNA Binding Competition with Single-stranded DNA-binding Protein
Journal of Biological Chemistry / May 01, 2003
Eggler, A. L., Lusetti, S. L., & Cox, M. M. (2003). The C Terminus of the Escherichia coli RecA Protein Modulates the DNA Binding Competition with Single-stranded DNA-binding Protein. Journal of Biological Chemistry, 278(18), 16389–16396. https://doi.org/10.1074/jbc.m212920200
The Rad51-dependent Pairing of Long DNA Substrates Is Stabilized by Replication Protein A
Journal of Biological Chemistry / Oct 01, 2002
Eggler, A. L., Inman, R. B., & Cox, M. M. (2002). The Rad51-dependent Pairing of Long DNA Substrates Is Stabilized by Replication Protein A. Journal of Biological Chemistry, 277(42), 39280–39288. https://doi.org/10.1074/jbc.m204328200
DNA Pairing and Strand Exchange by the Escherichia coli RecA and Yeast Rad51 Proteins without ATP Hydrolysis
Journal of Biological Chemistry / Oct 01, 2001
Rice, K. P., Eggler, A. L., Sung, P., & Cox, M. M. (2001). DNA Pairing and Strand Exchange by the Escherichia coli RecA and Yeast Rad51 Proteins without ATP Hydrolysis. Journal of Biological Chemistry, 276(42), 38570–38581. https://doi.org/10.1074/jbc.m105678200
Elizabeth Kish
I'm Liz and I'm currently a post doc at Columbia University. I also consult for a start up that is based in France and do technology evaluations for investors looking at biotech.
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Most Relevant Publications (1+)
4 total publications
Twisting a β-Carotene, an Adaptive Trick from Nature for Dissipating Energy during Photoprotection
Journal of Biological Chemistry / Jan 01, 2017
Llansola-Portoles, M. J., Sobotka, R., Kish, E., Shukla, M. K., Pascal, A. A., Polívka, T., & Robert, B. (2017). Twisting a β-Carotene, an Adaptive Trick from Nature for Dissipating Energy during Photoprotection. Journal of Biological Chemistry, 292(4), 1396–1403. https://doi.org/10.1074/jbc.m116.753723
Tim Osswald
Polymers Professor - University of Wisconsin
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117 total publications
Micro-injection molded, poly(vinyl alcohol)-calcium salt templates for precise customization of 3D hydrogel internal architecture
Acta Biomaterialia / Sep 01, 2019
McNulty, J. D., Marti-Figueroa, C., Seipel, F., Plantz, J. Z., Ellingham, T., Duddleston, L. J. L., Goris, S., Cox, B. L., Osswald, T. A., Turng, L.-S., & Ashton, R. S. (2019). Micro-injection molded, poly(vinyl alcohol)-calcium salt templates for precise customization of 3D hydrogel internal architecture. Acta Biomaterialia, 95, 258–268. https://doi.org/10.1016/j.actbio.2019.04.050
Giuliana Noratto
Food Scientist PhD and Registered Dietician - Texas A&M University
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Most Relevant Publications (26+)
91 total publications
Quinoa protective effects against obesity‐induced intestinal inflammation
The FASEB Journal / Apr 01, 2015
Noratto, G., Carrion‐Rabanal, R., Medina, G., Mencia, A., Mohanty, I., Gonzalez, D., & Murphy, K. (2015). Quinoa protective effects against obesity‐induced intestinal inflammation. The FASEB Journal, 29(S1). Portico. https://doi.org/10.1096/fasebj.29.1_supplement.602.9
Fractions of cottonseed and peanut extracts suppress the proliferation of human LNCaP and DU145 prostate carcinoma cells
The FASEB Journal / Mar 01, 2006
Mo, H., Noratto, G., Fernandes, N., Hussein, D., Sodhani, S., & Cisneros‐Zevallos, L. (2006). Fractions of cottonseed and peanut extracts suppress the proliferation of human LNCaP and DU145 prostate carcinoma cells. The FASEB Journal, 20(4). Portico. https://doi.org/10.1096/fasebj.20.4.a565-b
Quinoa (Chenopodium Quinoa) Peptides Protect Human Umbilical Vein Endothelial Cells (HUVEC) Against Risk Markers For Cardiovascular Disease (CVD)
The FASEB Journal / Apr 01, 2015
Ravisankar, S., Campos Gutierrez, D., Chirinos, R., & Noratto, G. (2015). Quinoa (Chenopodium Quinoa) Peptides Protect Human Umbilical Vein Endothelial Cells (HUVEC) Against Risk Markers For Cardiovascular Disease (CVD). The FASEB Journal, 29(S1). Portico. https://doi.org/10.1096/fasebj.29.1_supplement.923.10
Lepidium meyenii (maca) consumption prevent benign prostatic hyperplasia
The FASEB Journal / Apr 01, 2013
Noratto, G., Condezo‐Hoyos, L., Gasco, M., & Gonzales, G. (2013). Lepidium meyenii (maca) consumption prevent benign prostatic hyperplasia. The FASEB Journal, 27(S1). Portico. https://doi.org/10.1096/fasebj.27.1_supplement.861.25
Effects of Raspberry on Biomarkers of Diabetes, Cardiovascular Disease (CVD) and Oxidative Stress in Obese Diabetic (db/db) Mice
The FASEB Journal / Apr 01, 2015
Atienza, L., Garcia Perez, E., & Noratto, G. (2015). Effects of Raspberry on Biomarkers of Diabetes, Cardiovascular Disease (CVD) and Oxidative Stress in Obese Diabetic (db/db) Mice. The FASEB Journal, 29(S1). Portico. https://doi.org/10.1096/fasebj.29.1_supplement.lb283
Effects of Raspberry on Biomarkers of Diabetes, Cardiovascular Disease (CVD) and Oxidative Stress in Obese Diabetic (db/db) Mice
The FASEB Journal / Apr 01, 2015
Atienza, L., Garcia Perez, E., & Noratto, G. (2015). Effects of Raspberry on Biomarkers of Diabetes, Cardiovascular Disease (CVD) and Oxidative Stress in Obese Diabetic (db/db) Mice. The FASEB Journal, 29(S1). Portico. https://doi.org/10.1096/fasebj.29.1_supplement.lb283
Potential of glycated proteins produced during aging of cheddar cheese to modulate fecal bacteria from obese mice ex vivo and protect against colon inflammation (1018.5)
The FASEB Journal / Apr 01, 2014
Yuan, J., Noratto, K., Munske, G., Pilla, P., Mohanty, I., Alcantara Zapata, D., & Noratto, G. (2014). Potential of glycated proteins produced during aging of cheddar cheese to modulate fecal bacteria from obese mice ex vivo and protect against colon inflammation (1018.5). The FASEB Journal, 28(S1). Portico. https://doi.org/10.1096/fasebj.28.1_supplement.1018.5
Quinoa as source of bioactive compounds with potential for intestinal health (647.18)
The FASEB Journal / Apr 01, 2014
Carrion, R., Murphy, K., Ganjyal, G., Kowalski, R., & Noratto, G. (2014). Quinoa as source of bioactive compounds with potential for intestinal health (647.18). The FASEB Journal, 28(S1). Portico. https://doi.org/10.1096/fasebj.28.1_supplement.647.18
Resveratrol and quercetin target microRNA 27a in their anti‐cancer effects in colon cancer cells
The FASEB Journal / Apr 01, 2009
Del Follo, A., Noratto, G. D., & Mertens‐Talcott, S. (2009). Resveratrol and quercetin target microRNA 27a in their anti‐cancer effects in colon cancer cells. The FASEB Journal, 23(S1). Portico. https://doi.org/10.1096/fasebj.23.1_supplement.717.4
Plum polyphenolics decrease oxidative stress and inflammation in vascular endothelial cells
The FASEB Journal / Apr 01, 2009
Townsley, E. D., Noratto, G., Angel, G., Del Follo, A., Byrne, D., & Mertens‐Talcott, S. (2009). Plum polyphenolics decrease oxidative stress and inflammation in vascular endothelial cells. The FASEB Journal, 23(S1). Portico. https://doi.org/10.1096/fasebj.23.1_supplement.717.12
Apple Consumption Protects Sprague Dawley Rats Against High Fat Diet‐induced Metabolic Disorders Associated With Obesity
The FASEB Journal / Apr 01, 2015
yuan, jialing, chew, B., & noratto, giuliana. (2015). Apple Consumption Protects Sprague Dawley Rats Against High Fat Diet‐induced Metabolic Disorders Associated With Obesity. The FASEB Journal, 29(S1). Portico. https://doi.org/10.1096/fasebj.29.1_supplement.276.7
Whole‐Wheat Supplemented Diet Changed Fecal Microbial Ecology of Obese Diabetic Mice
The FASEB Journal / Apr 01, 2015
Noratto, G., García‐Pérez, E., Ivanov, I., & Mills, D. (2015). Whole‐Wheat Supplemented Diet Changed Fecal Microbial Ecology of Obese Diabetic Mice. The FASEB Journal, 29(S1). Portico. https://doi.org/10.1096/fasebj.29.1_supplement.385.5
The anti‐inflammatory effects of manniflavanone extracted from Garcinia buchananii bark in obesity‐induced mice model (259.3)
The FASEB Journal / Apr 01, 2014
Bibi, S., Balemba, O., Carrion‐Rabanal, R., Nyavor, Y., & Noratto, G. (2014). The anti‐inflammatory effects of manniflavanone extracted from Garcinia buchananii bark in obesity‐induced mice model (259.3). The FASEB Journal, 28(S1). Portico. https://doi.org/10.1096/fasebj.28.1_supplement.259.3
Sacha inchi (Plukenetia volubillis L.) oil as novel source of dietary fat to prevent inflammation and cardiovascular disease risk
The FASEB Journal / Apr 01, 2012
Noratto, G. D., Chirinos, R., Campos, D., Larondelle, Y., Arbizu, S., Dos Santos, M. M., & Mertens-Talcott, S. (2012). Sacha inchi (Plukenetia volubillis L.) oil as novel source of dietary fat to prevent inflammation and cardiovascular disease risk. The FASEB Journal, 26(S1). Portico. https://doi.org/10.1096/fasebj.26.1_supplement.626.13
Ripened Cheddar Cheese Peptides Protect Human Vein Endothelial Cells (HUVEC) Against Expression Of Risk Markers For CVD: Role Of Paroaxonase‐2 (PON‐2) As Peptide Molecular Target
The FASEB Journal / Apr 01, 2015
Ravisankar, S., & Noratto, G. (2015). Ripened Cheddar Cheese Peptides Protect Human Vein Endothelial Cells (HUVEC) Against Expression Of Risk Markers For CVD: Role Of Paroaxonase‐2 (PON‐2) As Peptide Molecular Target. The FASEB Journal, 29(S1). Portico. https://doi.org/10.1096/fasebj.29.1_supplement.130.7
Whole Wheat‐supplemented Diet Prevents Risk Biomarkers of Cardiovascular Diseases in Obese Diabetic Mice
The FASEB Journal / Apr 01, 2015
Mohanty, I., yuan, J., Noratto, G., Balemba, O., & Morris, C. (2015). Whole Wheat‐supplemented Diet Prevents Risk Biomarkers of Cardiovascular Diseases in Obese Diabetic Mice. The FASEB Journal, 29(S1). Portico. https://doi.org/10.1096/fasebj.29.1_supplement.254.3
Ripening of cheddar cheese with Lactobacillus helveticus as adjunct culture produces peptides that protect human vein endothelial cells against inflammatory markers relevant to cardiovascular disease (1034.12)
The FASEB Journal / Apr 01, 2014
Ravisankar, S., Yuan, J., Munske, G., & Noratto, G. (2014). Ripening of cheddar cheese with Lactobacillus helveticus as adjunct culture produces peptides that protect human vein endothelial cells against inflammatory markers relevant to cardiovascular disease (1034.12). The FASEB Journal, 28(S1). Portico. https://doi.org/10.1096/fasebj.28.1_supplement.1034.12
Wheat phenolics can prevent inflammation in human umbilical endothelial cells: effects on biomarkers relevant to development of cardiovascular diseases (249.7)
The FASEB Journal / Apr 01, 2014
Noratto, G., Mohanty, I., Alcantara Zapata, D., & Chew, B. (2014). Wheat phenolics can prevent inflammation in human umbilical endothelial cells: effects on biomarkers relevant to development of cardiovascular diseases (249.7). The FASEB Journal, 28(S1). Portico. https://doi.org/10.1096/fasebj.28.1_supplement.249.7
Anti‐obesity and Anti‐inflammatory Effect of Acai Polyphenols in 3T3‐L1 Adipocytes
The FASEB Journal / Apr 01, 2013
Martino, H., Noratto, G., Dias, M., Talcott, S., & Mertens‐Talcott, S. (2013). Anti‐obesity and Anti‐inflammatory Effect of Acai Polyphenols in 3T3‐L1 Adipocytes. The FASEB Journal, 27(S1). Portico. https://doi.org/10.1096/fasebj.27.1_supplement.865.5
Plum polyphenolics prevent adipogenesis, inflammation and obesity‐induced metabolic disorders in obese Zucker rats
The FASEB Journal / Apr 01, 2012
Noratto, G. D., Simbo, S., Martino, H. S., Byrne, D., & Mertens-Talcott, S. (2012). Plum polyphenolics prevent adipogenesis, inflammation and obesity‐induced metabolic disorders in obese Zucker rats. The FASEB Journal, 26(S1). Portico. https://doi.org/10.1096/fasebj.26.1_supplement.364.3
Reduced expression of pro‐invasive genes in xenographs of MDA‐MB‐231 breast cancer cells by Betulinic Acid is mediated by down‐regulation of microRNA27a
The FASEB Journal / Apr 01, 2011
Noratto, G. D., Simbo, S. Y., Safe, S., & Mertens‐Talcott, S. U. (2011). Reduced expression of pro‐invasive genes in xenographs of MDA‐MB‐231 breast cancer cells by Betulinic Acid is mediated by down‐regulation of microRNA27a. The FASEB Journal, 25(S1). Portico. https://doi.org/10.1096/fasebj.25.1_supplement.213.4
Turmeric curcuminoids (Curcuma longa L.) interacts with microRNAs in the regulation of inflammation on Human Umbilical Vein Endothelial Cells (HUVEC)
The FASEB Journal / Apr 01, 2010
Angel‐Morales, G., Noratto, G., & Mertens‐Talcott, S. (2010). Turmeric curcuminoids (Curcuma longa L.) interacts with microRNAs in the regulation of inflammation on Human Umbilical Vein Endothelial Cells (HUVEC). The FASEB Journal, 24(S1). Portico. https://doi.org/10.1096/fasebj.24.1_supplement.924.5
Antitumor potential of dark sweet cherry sweet (Prunus avium) phenolics in suppressing xenograft tumor growth of MDA-MB-453 breast cancer cells
The Journal of Nutritional Biochemistry / Oct 01, 2020
Noratto, G., Layosa, M. A., Lage, N. N., Atienza, L., Ivanov, I., Mertens-Talcott, S. U., & Chew, B. P. (2020). Antitumor potential of dark sweet cherry sweet (Prunus avium) phenolics in suppressing xenograft tumor growth of MDA-MB-453 breast cancer cells. The Journal of Nutritional Biochemistry, 84, 108437. https://doi.org/10.1016/j.jnutbio.2020.108437
Consumption of polyphenol-rich peach and plum juice prevents risk factors for obesity-related metabolic disorders and cardiovascular disease in Zucker rats
The Journal of Nutritional Biochemistry / Jun 01, 2015
Noratto, G., Martino, H. S. D., Simbo, S., Byrne, D., & Mertens-Talcott, S. U. (2015). Consumption of polyphenol-rich peach and plum juice prevents risk factors for obesity-related metabolic disorders and cardiovascular disease in Zucker rats. The Journal of Nutritional Biochemistry, 26(6), 633–641. https://doi.org/10.1016/j.jnutbio.2014.12.014
Polyphenolics from peach (Prunus persica var. Rich Lady) inhibit tumor growth and metastasis of MDA-MB-435 breast cancer cells in vivo
The Journal of Nutritional Biochemistry / Jul 01, 2014
Noratto, G., Porter, W., Byrne, D., & Cisneros-Zevallos, L. (2014). Polyphenolics from peach (Prunus persica var. Rich Lady) inhibit tumor growth and metastasis of MDA-MB-435 breast cancer cells in vivo. The Journal of Nutritional Biochemistry, 25(7), 796–800. https://doi.org/10.1016/j.jnutbio.2014.03.001
Betulinic acid decreases ER-negative breast cancer cell growth in vitro and in vivo: Role of Sp transcription factors and microRNA-27a:ZBTB10
Molecular Carcinogenesis / Mar 07, 2012
Mertens-Talcott, S. U., Noratto, G. D., Li, X., Angel-Morales, G., Bertoldi, M. C., & Safe, S. (2012). Betulinic acid decreases ER-negative breast cancer cell growth in vitro and in vivo: Role of Sp transcription factors and microRNA-27a:ZBTB10. Molecular Carcinogenesis, 52(8), 591–602. Portico. https://doi.org/10.1002/mc.21893
Elle Wang
Lead Research Scientist at National AI Institute for Adult Learning and Online Education
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26 total publications
Commentary: Massive open online courses
Biochemistry and Molecular Biology Education / Jul 01, 2013
Parslow, G. R. (2013). Commentary: Massive open online courses. Biochemistry and Molecular Biology Education, 41(4), 278–279. https://doi.org/10.1002/bmb.20710
Ammon Posey
Research Scientist, Washington University in St. Louis
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49 total publications
A Lethal de Novo Mutation in the Middle Domain of the Dynamin-related GTPase Drp1 Impairs Higher Order Assembly and Mitochondrial Division
Journal of Biological Chemistry / Oct 01, 2010
Chang, C.-R., Manlandro, C. M., Arnoult, D., Stadler, J., Posey, A. E., Hill, R. B., & Blackstone, C. (2010). A Lethal de Novo Mutation in the Middle Domain of the Dynamin-related GTPase Drp1 Impairs Higher Order Assembly and Mitochondrial Division. Journal of Biological Chemistry, 285(42), 32494–32503. https://doi.org/10.1074/jbc.m110.142430
Arginine-Enriched Mixed-Charge Domains Provide Cohesion for Nuclear Speckle Condensation
Molecular Cell / Mar 01, 2020
Greig, J. A., Nguyen, T. A., Lee, M., Holehouse, A. S., Posey, A. E., Pappu, R. V., & Jedd, G. (2020). Arginine-Enriched Mixed-Charge Domains Provide Cohesion for Nuclear Speckle Condensation. Molecular Cell, 77(6), 1237-1250.e4. https://doi.org/10.1016/j.molcel.2020.01.025
Profilin reduces aggregation and phase separation of huntingtin N-terminal fragments by preferentially binding to soluble monomers and oligomers
Journal of Biological Chemistry / Mar 01, 2018
Posey, A. E., Ruff, K. M., Harmon, T. S., Crick, S. L., Li, A., Diamond, M. I., & Pappu, R. V. (2018). Profilin reduces aggregation and phase separation of huntingtin N-terminal fragments by preferentially binding to soluble monomers and oligomers. Journal of Biological Chemistry, 293(10), 3734–3746. https://doi.org/10.1074/jbc.ra117.000357
Inhibition of amyloid beta fibril formation by monomeric human transthyretin
Protein Science / Mar 14, 2018
Garai, K., Posey, A. E., Li, X., Buxbaum, J. N., & Pappu, R. V. (2018). Inhibition of amyloid beta fibril formation by monomeric human transthyretin. Protein Science, 27(7), 1252–1261. Portico. https://doi.org/10.1002/pro.3396
GADIS: Algorithm for designing sequences to achieve target secondary structure profiles of intrinsically disordered proteins
Protein Engineering Design and Selection / Aug 08, 2016
Harmon, T. S., Crabtree, M. D., Shammas, S. L., Posey, A. E., Clarke, J., & Pappu, R. V. (2016). GADIS: Algorithm for designing sequences to achieve target secondary structure profiles of intrinsically disordered proteins. Protein Engineering Design and Selection, 29(9), 339–346. https://doi.org/10.1093/protein/gzw034
A Targeted Mutation Identified through pK Measurements Indicates a Postrecruitment Role for Fis1 in Yeast Mitochondrial Fission
Journal of Biological Chemistry / Sep 01, 2016
Koppenol-Raab, M., Harwig, M. C., Posey, A. E., Egner, J. M., MacKenzie, K. R., & Hill, R. B. (2016). A Targeted Mutation Identified through pK Measurements Indicates a Postrecruitment Role for Fis1 in Yeast Mitochondrial Fission. Journal of Biological Chemistry, 291(39), 20329–20344. https://doi.org/10.1074/jbc.m116.724005
Mechanistic Inferences From Analysis of Measurements of Protein Phase Transitions in Live Cells
Journal of Molecular Biology / Jun 01, 2021
Posey, A. E., Ruff, K. M., Lalmansingh, J. M., Kandola, T. S., Lange, J. J., Halfmann, R., & Pappu, R. V. (2021). Mechanistic Inferences From Analysis of Measurements of Protein Phase Transitions in Live Cells. Journal of Molecular Biology, 433(12), 166848. https://doi.org/10.1016/j.jmb.2021.166848
A First Glimpse of Nucleation of Phase Transitions in Living Cells
Molecular Cell / Jul 01, 2018
Posey, A. E., & Pappu, R. V. (2018). A First Glimpse of Nucleation of Phase Transitions in Living Cells. Molecular Cell, 71(1), 1–3. https://doi.org/10.1016/j.molcel.2018.06.028
Quantifying Coexistence Concentrations in Multi-Component Phase-Separating Systems Using Analytical HPLC
Biomolecules / Oct 14, 2022
Bremer, A., Posey, A. E., Borgia, M. B., Borcherds, W. M., Farag, M., Pappu, R. V., & Mittag, T. (2022). Quantifying Coexistence Concentrations in Multi-Component Phase-Separating Systems Using Analytical HPLC. Biomolecules, 12(10), 1480. https://doi.org/10.3390/biom12101480
Keisha Walters
I am the Conoco-Dupont Professor of Chemical, Biological and Materials Engineering at the University of Oklahoma (OU), and I have experience in industry (R&D, Milliken Chemical).
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49 total publications
The effects of water and microstructure on the mechanical properties of bighorn sheep (Ovis canadensis) horn keratin
Acta Biomaterialia / Mar 01, 2011
Trim, M. W., Horstemeyer, M. F., Rhee, H., El Kadiri, H., Williams, L. N., Liao, J., Walters, K. B., McKittrick, J., & Park, S.-J. (2011). The effects of water and microstructure on the mechanical properties of bighorn sheep (Ovis canadensis) horn keratin. Acta Biomaterialia, 7(3), 1228–1240. https://doi.org/10.1016/j.actbio.2010.11.024
Sally Irwin
Professor of Genetics and the Microbiome at the University of Hawaii
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3 total publications
Identification of PCR-based markers flanking the recessive LMV resistance gene mo1 in an intraspecific cross in lettuce
Genome / Oct 01, 1999
Irwin, S. V., Kesseli, R. V., Waycott, W., Ryder, E. J., Cho, J. J., & Michelmore, R. W. (1999). Identification of PCR-based markers flanking the recessive LMV resistance gene mo1 in an intraspecific cross in lettuce. Genome, 42(5), 982–986. https://doi.org/10.1139/g99-055
Jeffrey Townsend
Professor of Biostatistics and Ecology & Evolutionary Biology
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207 total publications
Phylogenetic and phylogenomic overview of the Polyporales
Mycologia / Nov 01, 2013
Binder, M., Justo, A., Riley, R., Salamov, A., Lopez-Giraldez, F., Sjökvist, E., Copeland, A., Foster, B., Sun, H., Larsson, E., Larsson, K.-H., Townsend, J., Grigoriev, I. V., & Hibbett, D. S. (2013). Phylogenetic and phylogenomic overview of the Polyporales. Mycologia, 105(6), 1350–1373. https://doi.org/10.3852/13-003
Secondary Metabolism Gene Clusters Exhibit Increasingly Dynamic and Differential Expression during Asexual Growth, Conidiation, and Sexual Development in Neurospora crassa
mSystems / Jun 28, 2022
Wang, Z., Lopez-Giraldez, F., Slot, J., Yarden, O., Trail, F., & Townsend, J. P. (2022). Secondary Metabolism Gene Clusters Exhibit Increasingly Dynamic and Differential Expression during Asexual Growth, Conidiation, and Sexual Development in Neurospora crassa. MSystems, 7(3). https://doi.org/10.1128/msystems.00232-22
Attribution of Cancer Origins to Endogenous, Exogenous, and Preventable Mutational Processes
Molecular Biology and Evolution / Apr 26, 2022
Cannataro, V. L., Mandell, J. D., & Townsend, J. P. (2022). Attribution of Cancer Origins to Endogenous, Exogenous, and Preventable Mutational Processes. Molecular Biology and Evolution, 39(5). https://doi.org/10.1093/molbev/msac084
Sequencing and Analysis of the Entire Genome of the Mycoparasitic Bioeffector Fungus Trichoderma asperelloides Strain T 203 (Hypocreales)
Microbiology Resource Announcements / Feb 17, 2022
Gortikov, M., Wang, Z., Steindorff, A. S., Grigoriev, I. V., Druzhinina, I. S., Townsend, J. P., & Yarden, O. (2022). Sequencing and Analysis of the Entire Genome of the Mycoparasitic Bioeffector Fungus Trichoderma asperelloides Strain T 203 (Hypocreales). Microbiology Resource Announcements, 11(2). https://doi.org/10.1128/mra.00995-21
The somatic molecular evolution of cancer: Mutation, selection, and epistasis
Progress in Biophysics and Molecular Biology / Oct 01, 2021
Dasari, K., Somarelli, J. A., Kumar, S., & Townsend, J. P. (2021). The somatic molecular evolution of cancer: Mutation, selection, and epistasis. Progress in Biophysics and Molecular Biology, 165, 56–65. https://doi.org/10.1016/j.pbiomolbio.2021.08.003
Mechanistic basis of post-treatment control of SIV after anti-α4β7 antibody therapy
PLOS Computational Biology / Jun 09, 2021
Wells, C. R., Cao, Y., Durham, D. P., Byrareddy, S. N., Ansari, A. A., Ruddle, N. H., Townsend, J. P., Galvani, A. P., & Perelson, A. S. (2021). Mechanistic basis of post-treatment control of SIV after anti-α4β7 antibody therapy. PLOS Computational Biology, 17(6), e1009031. https://doi.org/10.1371/journal.pcbi.1009031
Unmatched Level of Molecular Convergence among Deeply Divergent Complex Multicellular Fungi
Molecular Biology and Evolution / Mar 19, 2020
Merényi, Z., Prasanna, A. N., Wang, Z., Kovács, K., Hegedüs, B., Bálint, B., Papp, B., Townsend, J. P., & Nagy, L. G. (2020). Unmatched Level of Molecular Convergence among Deeply Divergent Complex Multicellular Fungi. Molecular Biology and Evolution, 37(8), 2228–2240. https://doi.org/10.1093/molbev/msaa077
Molecular Biology and Evolution of Cancer: From Discovery to Action
Molecular Biology and Evolution / Oct 23, 2019
Somarelli, J. A., Gardner, H., Cannataro, V. L., Gunady, E. F., Boddy, A. M., Johnson, N. A., Fisk, J. N., Gaffney, S. G., Chuang, J. H., Li, S., Ciccarelli, F. D., Panchenko, A. R., Megquier, K., Kumar, S., Dornburg, A., DeGregori, J., & Townsend, J. P. (2019). Molecular Biology and Evolution of Cancer: From Discovery to Action. Molecular Biology and Evolution, 37(2), 320–326. https://doi.org/10.1093/molbev/msz242
APOBEC-induced mutations and their cancer effect size in head and neck squamous cell carcinoma
Oncogene / Jan 15, 2019
Cannataro, V. L., Gaffney, S. G., Sasaki, T., Issaeva, N., Grewal, N. K. S., Grandis, J. R., Yarbrough, W. G., Burtness, B., Anderson, K. S., & Townsend, J. P. (2019). APOBEC-induced mutations and their cancer effect size in head and neck squamous cell carcinoma. Oncogene, 38(18), 3475–3487. https://doi.org/10.1038/s41388-018-0657-6
Wagging the long tail of drivers of prostate cancer
PLOS Genetics / Jan 17, 2019
Cannataro, V. L., & Townsend, J. P. (2019). Wagging the long tail of drivers of prostate cancer. PLOS Genetics, 15(1), e1007820. https://doi.org/10.1371/journal.pgen.1007820
Neutral Theory and the Somatic Evolution of Cancer
Molecular Biology and Evolution / Apr 19, 2018
Cannataro, V. L., & Townsend, J. P. (2018). Neutral Theory and the Somatic Evolution of Cancer. Molecular Biology and Evolution, 35(6), 1308–1315. https://doi.org/10.1093/molbev/msy079
Heterogeneity and mutation in KRAS and associated oncogenes: evaluating the potential for the evolution of resistance to targeting of KRAS G12C
Oncogene / Feb 16, 2018
Cannataro, V. L., Gaffney, S. G., Stender, C., Zhao, Z.-M., Philips, M., Greenstein, A. E., & Townsend, J. P. (2018). Heterogeneity and mutation in KRAS and associated oncogenes: evaluating the potential for the evolution of resistance to targeting of KRAS G12C. Oncogene, 37(18), 2444–2455. https://doi.org/10.1038/s41388-017-0105-z
Neutral Theory and the Somatic Evolution of Cancer
Molecular Biology and Evolution / May 14, 2018
Neutral Theory and the Somatic Evolution of Cancer. (2018). Molecular Biology and Evolution, 35(6), 1561–1561. https://doi.org/10.1093/molbev/msy100
Detection of Regional Variation in Selection Intensity within Protein-Coding Genes Using DNA Sequence Polymorphism and Divergence
Molecular Biology and Evolution / Jul 28, 2017
Zhao, Z.-M., Campbell, M. C., Li, N., Lee, D. S. W., Zhang, Z., & Townsend, J. P. (2017). Detection of Regional Variation in Selection Intensity within Protein-Coding Genes Using DNA Sequence Polymorphism and Divergence. Molecular Biology and Evolution, 34(11), 3006–3022. https://doi.org/10.1093/molbev/msx213
The ancestral levels of transcription and the evolution of sexual phenotypes in filamentous fungi
PLOS Genetics / Jul 13, 2017
Trail, F., Wang, Z., Stefanko, K., Cubba, C., & Townsend, J. P. (2017). The ancestral levels of transcription and the evolution of sexual phenotypes in filamentous fungi. PLOS Genetics, 13(7), e1006867. https://doi.org/10.1371/journal.pgen.1006867
New insights on the sister lineage of percomorph fishes with an anchored hybrid enrichment dataset
Molecular Phylogenetics and Evolution / May 01, 2017
Dornburg, A., Townsend, J. P., Brooks, W., Spriggs, E., Eytan, R. I., Moore, J. A., Wainwright, P. C., Lemmon, A., Lemmon, E. M., & Near, T. J. (2017). New insights on the sister lineage of percomorph fishes with an anchored hybrid enrichment dataset. Molecular Phylogenetics and Evolution, 110, 27–38. https://doi.org/10.1016/j.ympev.2017.02.017
A working model of the deep relationships of diverse modern human genetic lineages outside of Africa
Molecular Biology and Evolution / Jan 10, 2017
Lipson, M., & Reich, D. (2017). A working model of the deep relationships of diverse modern human genetic lineages outside of Africa. Molecular Biology and Evolution, msw293. https://doi.org/10.1093/molbev/msw293
Oncogenes without a neighboring tumor-suppressor gene are more prone to amplification
Molecular Biology and Evolution / Jan 12, 2017
Wu, W. K. K., Li, X., Wang, X., Dai, R. Z. W., Cheng, A. S. L., Wang, M. H. T., Kwong, T., Chow, T. C., Yu, J., Chan, M. T. V., & Wong, S. H. (2017). Oncogenes without a neighboring tumor-suppressor gene are more prone to amplification. Molecular Biology and Evolution, msw295. https://doi.org/10.1093/molbev/msw295
PathScore: a web tool for identifying altered pathways in cancer data
Bioinformatics / Aug 08, 2016
Gaffney, S. G., & Townsend, J. P. (2016). PathScore: a web tool for identifying altered pathways in cancer data. Bioinformatics, 32(23), 3688–3690. https://doi.org/10.1093/bioinformatics/btw512
Gene Expression Evolves under a House-of-Cards Model of Stabilizing Selection
Molecular Biology and Evolution / Apr 20, 2015
Hodgins-Davis, A., Rice, D. P., & Townsend, J. P. (2015). Gene Expression Evolves under a House-of-Cards Model of Stabilizing Selection. Molecular Biology and Evolution, 32(8), 2130–2140. https://doi.org/10.1093/molbev/msv094
H-CLAP: hierarchical clustering within a linear array with an application in genetics
Statistical Applications in Genetics and Molecular Biology / Jan 01, 2015
Ghosh, S., & Townsend, J. P. (2015). H-CLAP: hierarchical clustering within a linear array with an application in genetics. Statistical Applications in Genetics and Molecular Biology, 14(2). https://doi.org/10.1515/sagmb-2013-0076
Genome-Wide Characterization of Light-Regulated Genes inNeurospora crassa
G3 Genes|Genomes|Genetics / Sep 01, 2014
Wu, C., Yang, F., Smith, K. M., Peterson, M., Dekhang, R., Zhang, Y., Zucker, J., Bredeweg, E. L., Mallappa, C., Zhou, X., Lyubetskaya, A., Townsend, J. P., Galagan, J. E., Freitag, M., Dunlap, J. C., Bell-Pedersen, D., & Sachs, M. S. (2014). Genome-Wide Characterization of Light-Regulated Genes inNeurospora crassa. G3 Genes|Genomes|Genetics, 4(9), 1731–1745. https://doi.org/10.1534/g3.114.012617
Cellular Superspreaders: An Epidemiological Perspective on HIV Infection inside the Body
PLoS Pathogens / May 08, 2014
Talbert-Slagle, K., Atkins, K. E., Yan, K.-K., Khurana, E., Gerstein, M., Bradley, E. H., Berg, D., Galvani, A. P., & Townsend, J. P. (2014). Cellular Superspreaders: An Epidemiological Perspective on HIV Infection inside the Body. PLoS Pathogens, 10(5), e1004092. https://doi.org/10.1371/journal.ppat.1004092
Global Gene Expression and Focused Knockout Analysis Reveals Genes Associated with Fungal Fruiting Body Development in Neurospora crassa
Eukaryotic Cell / Jan 01, 2014
Wang, Z., Lopez-Giraldez, F., Lehr, N., Farré, M., Common, R., Trail, F., & Townsend, J. P. (2014). Global Gene Expression and Focused Knockout Analysis Reveals Genes Associated with Fungal Fruiting Body Development in Neurospora crassa. Eukaryotic Cell, 13(1), 154–169. https://doi.org/10.1128/ec.00248-13
AuthorReward: increasing community curation in biological knowledge wikis through automated authorship quantification
Bioinformatics / Jun 03, 2013
Dai, L., Tian, M., Wu, J., Xiao, J., Wang, X., Townsend, J. P., & Zhang, Z. (2013). AuthorReward: increasing community curation in biological knowledge wikis through automated authorship quantification. Bioinformatics, 29(14), 1837–1839. https://doi.org/10.1093/bioinformatics/btt284
Response to: The relative utility of sequence divergence and phylogenetic informativeness profiling in phylogenetic study design
Molecular Phylogenetics and Evolution / Jan 01, 2013
Moeller, A. H., & Townsend, J. P. (2013). Response to: The relative utility of sequence divergence and phylogenetic informativeness profiling in phylogenetic study design. Molecular Phylogenetics and Evolution, 66(1), 436. https://doi.org/10.1016/j.ympev.2012.09.035
Resampling QTL Effects in the QTL Sign Test Leads to Incongruous Sensitivity to Variance in Effect Size
G3 Genes|Genomes|Genetics / Aug 01, 2012
Rice, D. P., & Townsend, J. P. (2012). Resampling QTL Effects in the QTL Sign Test Leads to Incongruous Sensitivity to Variance in Effect Size. G3 Genes|Genomes|Genetics, 2(8), 905–911. https://doi.org/10.1534/g3.112.003228
RBE controls microRNA164 expression to effect floral organogenesis
Development / Jun 15, 2012
Huang, T., López-Giráldez, F., Townsend, J. P., & Irish, V. F. (2012). RBE controls microRNA164 expression to effect floral organogenesis. Development, 139(12), 2161–2169. https://doi.org/10.1242/dev.075069
Codon Deviation Coefficient: a novel measure for estimating codon usage bias and its statistical significance
BMC Bioinformatics / Mar 22, 2012
Zhang, Z., Li, J., Cui, P., Ding, F., Li, A., Townsend, J. P., & Yu, J. (2012). Codon Deviation Coefficient: a novel measure for estimating codon usage bias and its statistical significance. BMC Bioinformatics, 13(1). https://doi.org/10.1186/1471-2105-13-43
Phylogenetic informativeness profiling of 12 genes for 28 vertebrate taxa without divergence dates
Molecular Phylogenetics and Evolution / Aug 01, 2011
Moeller, A. H., & Townsend, J. P. (2011). Phylogenetic informativeness profiling of 12 genes for 28 vertebrate taxa without divergence dates. Molecular Phylogenetics and Evolution, 60(2), 271–272. https://doi.org/10.1016/j.ympev.2011.04.023
Northern species of earth tongue genus Thuemenidium revisited, considering morphology, ecology and molecular phylogeny
Mycologia / Sep 01, 2010
Ohenoja, E., Wang, Z., Townsend, J. P., Mitchel, D., & Voitk, A. (2010). Northern species of earth tongue genus Thuemenidium revisited, considering morphology, ecology and molecular phylogeny. Mycologia, 102(5), 1089–1095. https://doi.org/10.3852/09-317
LOX: inferring Level Of eXpression from diverse methods of census sequencing
Bioinformatics / Jun 10, 2010
Zhang, Z., López-Giráldez, F., & Townsend, J. P. (2010). LOX: inferring Level Of eXpression from diverse methods of census sequencing. Bioinformatics, 26(15), 1918–1919. https://doi.org/10.1093/bioinformatics/btq303
Identification of new molecular markers for assembling the eukaryotic tree of life
Molecular Phylogenetics and Evolution / Jun 01, 2010
Tekle, Y. I., Grant, J. R., Kovner, A. M., Townsend, J. P., & Katz, L. A. (2010). Identification of new molecular markers for assembling the eukaryotic tree of life. Molecular Phylogenetics and Evolution, 55(3), 1177–1182. https://doi.org/10.1016/j.ympev.2010.03.010
Maximum-Likelihood Model Averaging To Profile Clustering of Site Types across Discrete Linear Sequences
PLoS Computational Biology / Jun 26, 2009
Zhang, Z., & Townsend, J. P. (2009). Maximum-Likelihood Model Averaging To Profile Clustering of Site Types across Discrete Linear Sequences. PLoS Computational Biology, 5(6), e1000421. https://doi.org/10.1371/journal.pcbi.1000421
The Phylogenetic Informativeness of Nucleotide and Amino Acid Sequences for Reconstructing the Vertebrate Tree
Journal of Molecular Evolution / Aug 12, 2008
Townsend, J. P., López-Giráldez, F., & Friedman, R. (2008). The Phylogenetic Informativeness of Nucleotide and Amino Acid Sequences for Reconstructing the Vertebrate Tree. Journal of Molecular Evolution, 67(5), 437–447. https://doi.org/10.1007/s00239-008-9142-0
Bringing Web 2.0 to bioinformatics
Briefings in Bioinformatics / Oct 08, 2008
Zhang, Z., Cheung, K.-H., & Townsend, J. P. (2008). Bringing Web 2.0 to bioinformatics. Briefings in Bioinformatics, 10(1), 1–10. https://doi.org/10.1093/bib/bbn041
A Bayesian method for analysing spotted microarray data
Briefings in Bioinformatics / Jan 01, 2005
Meiklejohn, C. D., & Townsend, J. P. (2005). A Bayesian method for analysing spotted microarray data. Briefings in Bioinformatics, 6(4), 318–330. https://doi.org/10.1093/bib/6.4.318
Population Genetic Variation in Genome-Wide Gene Expression
Molecular Biology and Evolution / Apr 25, 2003
Townsend, J. P. (2003). Population Genetic Variation in Genome-Wide Gene Expression. Molecular Biology and Evolution, 20(6), 955–963. https://doi.org/10.1093/molbev/msg106
Solvent Accessibility and Purifying Selection Within Proteins of Escherichia coli and Salmonella enterica
Molecular Biology and Evolution / Feb 01, 2000
Bustamante, C. D., Townsend, J. P., & Hartl, D. L. (2000). Solvent Accessibility and Purifying Selection Within Proteins of Escherichia coli and Salmonella enterica. Molecular Biology and Evolution, 17(2), 301–308. https://doi.org/10.1093/oxfordjournals.molbev.a026310
Edoardo Airoldi
Professor of Statistics & Data Science Temple University & PI, Harvard University
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106 total publications
Coming soon to a journal near you—The updated guidelines for the use and interpretation of assays for monitoring autophagy
Autophagy / Aug 22, 2014
Klionsky, D. J. (2014). Coming soon to a journal near you—The updated guidelines for the use and interpretation of assays for monitoring autophagy. Autophagy, 10(10), 1691–1691. https://doi.org/10.4161/auto.36187
Analysis and design of RNA sequencing experiments for identifying isoform regulation
Nature Methods / Nov 07, 2010
Katz, Y., Wang, E. T., Airoldi, E. M., & Burge, C. B. (2010). Analysis and design of RNA sequencing experiments for identifying isoform regulation. Nature Methods, 7(12), 1009–1015. https://doi.org/10.1038/nmeth.1528
Coordination of Growth Rate, Cell Cycle, Stress Response, and Metabolic Activity in Yeast
Molecular Biology of the Cell / Jan 01, 2008
Brauer, M. J., Huttenhower, C., Airoldi, E. M., Rosenstein, R., Matese, J. C., Gresham, D., Boer, V. M., Troyanskaya, O. G., & Botstein, D. (2008). Coordination of Growth Rate, Cell Cycle, Stress Response, and Metabolic Activity in Yeast. Molecular Biology of the Cell, 19(1), 352–367. https://doi.org/10.1091/mbc.e07-08-0779
Quantitative visualization of alternative exon expression from RNA-seq data
Bioinformatics / Jan 22, 2015
Katz, Y., Wang, E. T., Silterra, J., Schwartz, S., Wong, B., Thorvaldsdóttir, H., Robinson, J. T., Mesirov, J. P., Airoldi, E. M., & Burge, C. B. (2015). Quantitative visualization of alternative exon expression from RNA-seq data. Bioinformatics, 31(14), 2400–2402. https://doi.org/10.1093/bioinformatics/btv034
Defining the Essential Function of Yeast Hsf1 Reveals a Compact Transcriptional Program for Maintaining Eukaryotic Proteostasis
Molecular Cell / Jul 01, 2016
Solís, E. J., Pandey, J. P., Zheng, X., Jin, D. X., Gupta, P. B., Airoldi, E. M., Pincus, D., & Denic, V. (2016). Defining the Essential Function of Yeast Hsf1 Reveals a Compact Transcriptional Program for Maintaining Eukaryotic Proteostasis. Molecular Cell, 63(1), 60–71. https://doi.org/10.1016/j.molcel.2016.05.014
Post-transcriptional regulation across human tissues
PLOS Computational Biology / May 08, 2017
Franks, A., Airoldi, E., & Slavov, N. (2017). Post-transcriptional regulation across human tissues. PLOS Computational Biology, 13(5), e1005535. https://doi.org/10.1371/journal.pcbi.1005535
A conserved cell growth cycle can account for the environmental stress responses of divergent eukaryotes
Molecular Biology of the Cell / May 15, 2012
Slavov, N., Airoldi, E. M., van Oudenaarden, A., & Botstein, D. (2012). A conserved cell growth cycle can account for the environmental stress responses of divergent eukaryotes. Molecular Biology of the Cell, 23(10), 1986–1997. https://doi.org/10.1091/mbc.e11-11-0961
Estimating Selection on Synonymous Codon Usage from Noisy Experimental Data
Molecular Biology and Evolution / Mar 14, 2013
Wallace, E. W. J., Airoldi, E. M., & Drummond, D. A. (2013). Estimating Selection on Synonymous Codon Usage from Noisy Experimental Data. Molecular Biology and Evolution, 30(6), 1438–1453. https://doi.org/10.1093/molbev/mst051
Steady-state and dynamic gene expression programs inSaccharomyces cerevisiaein response to variation in environmental nitrogen
Molecular Biology of the Cell / Apr 15, 2016
Airoldi, E. M., Miller, D., Athanasiadou, R., Brandt, N., Abdul-Rahman, F., Neymotin, B., Hashimoto, T., Bahmani, T., & Gresham, D. (2016). Steady-state and dynamic gene expression programs inSaccharomyces cerevisiaein response to variation in environmental nitrogen. Molecular Biology of the Cell, 27(8), 1383–1396. https://doi.org/10.1091/mbc.e14-05-1013
Mapping Dynamic Histone Acetylation Patterns to Gene Expression in Nanog-Depleted Murine Embryonic Stem Cells
PLoS Computational Biology / Dec 16, 2010
Markowetz, F., Mulder, K. W., Airoldi, E. M., Lemischka, I. R., & Troyanskaya, O. G. (2010). Mapping Dynamic Histone Acetylation Patterns to Gene Expression in Nanog-Depleted Murine Embryonic Stem Cells. PLoS Computational Biology, 6(12), e1001034. https://doi.org/10.1371/journal.pcbi.1001034
Quantifying Homologous Proteins and Proteoforms
Molecular & Cellular Proteomics / Jan 01, 2019
Malioutov, D., Chen, T., Airoldi, E., Jaffe, J., Budnik, B., & Slavov, N. (2019). Quantifying Homologous Proteins and Proteoforms. Molecular & Cellular Proteomics, 18(1), 162–168. https://doi.org/10.1074/mcp.tir118.000947
Accounting for Experimental Noise Reveals That mRNA Levels, Amplified by Post-Transcriptional Processes, Largely Determine Steady-State Protein Levels in Yeast
PLOS Genetics / May 07, 2015
Csárdi, G., Franks, A., Choi, D. S., Airoldi, E. M., & Drummond, D. A. (2015). Accounting for Experimental Noise Reveals That mRNA Levels, Amplified by Post-Transcriptional Processes, Largely Determine Steady-State Protein Levels in Yeast. PLOS Genetics, 11(5), e1005206. https://doi.org/10.1371/journal.pgen.1005206
Predicting Cellular Growth from Gene Expression Signatures
PLoS Computational Biology / Jan 02, 2009
Airoldi, E. M., Huttenhower, C., Gresham, D., Lu, C., Caudy, A. A., Dunham, M. J., Broach, J. R., Botstein, D., & Troyanskaya, O. G. (2009). Predicting Cellular Growth from Gene Expression Signatures. PLoS Computational Biology, 5(1), e1000257. https://doi.org/10.1371/journal.pcbi.1000257
Getting Started in Probabilistic Graphical Models
PLoS Computational Biology / Dec 07, 2007
Airoldi, E. M. (2007). Getting Started in Probabilistic Graphical Models. PLoS Computational Biology, 3(12), e252. https://doi.org/10.1371/journal.pcbi.0030252
Peter Reich
Director of the Institute for Global Change Biology (IGCB)
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509 total publications
Ectomycorrhizal fungal communities of oak savanna are distinct from forest communities
Mycologia / Jul 01, 2009
Dickie, I. A., Dentinger, B. T. M., Avis, P. G., McLaughlin, D. J., & Reich, P. B. (2009). Ectomycorrhizal fungal communities of oak savanna are distinct from forest communities. Mycologia, 101(4), 473–483. https://doi.org/10.3852/08-178
Boris Leibovitch
Experienced wet lab and in teaching Molecular Cell biologist, geneticist, cancer biologist in Academia
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22 total publications
Adipocyte derived paracrine mediators of mammary ductal morphogenesis controlled by retinoic acid receptors
Developmental Biology / Jan 01, 2011
Marzan, C. V., Kupumbati, T. S., Bertran, S. P., Samuels, T., Leibovitch, B., Mira-y-Lopez, R., Ossowski, L., & Farias, E. F. (2011). Adipocyte derived paracrine mediators of mammary ductal morphogenesis controlled by retinoic acid receptors. Developmental Biology, 349(2), 125–136. https://doi.org/10.1016/j.ydbio.2010.10.018
Analyzing Heterochromatin Formation Using Chromosome 4 of Drosophila melanogaster
Cold Spring Harbor Symposia on Quantitative Biology / Jan 01, 2004
HAYNES, K. A., LEIBOVITCH, B. A., RANGWALA, S. H., CRAIG, C., & ELGIN, S. C. R. (2004). Analyzing Heterochromatin Formation Using Chromosome 4 of Drosophila melanogaster. Cold Spring Harbor Symposia on Quantitative Biology, 69(0), 267–272. https://doi.org/10.1101/sqb.2004.69.267
GAGA Factor and the TFIID Complex Collaborate in Generating an Open Chromatin Structure at the Drosophila melanogaster hsp26 Promoter
Molecular and Cellular Biology / Sep 01, 2002
Leibovitch, B. A., Lu, Q., Benjamin, L. R., Liu, Y., Gilmour, D. S., & Elgin, S. C. R. (2002). GAGA Factor and the TFIID Complex Collaborate in Generating an Open Chromatin Structure at the Drosophila melanogaster hsp26 Promoter. Molecular and Cellular Biology, 22(17), 6148–6157. https://doi.org/10.1128/mcb.22.17.6148-6157.2002
Telomeres and P-element of Drosophila melanogaster contain sequences that replicate autonomously in Saccharomyces cerevisiae
Molecular and General Genetics MGG / Nov 01, 1984
Danilevskaya, O. N., Kurenova, E. V., Leibovitch, B. A., Shevelev, A. Ya., Bass, I. A., & Khesin, R. B. (1984). Telomeres and P-element of Drosophila melanogaster contain sequences that replicate autonomously in Saccharomyces cerevisiae. Molecular and General Genetics MGG, 197(2), 342–344. https://doi.org/10.1007/bf00330983
Increase in the number of histone genes in case of their deficiency in Drosophila melanogaster
Molecular and General Genetics MGG / Jul 01, 1980
Chernyshev, A. I., Bashkirov, V. N., Leibovitch, B. A., & Khesin, R. B. (1980). Increase in the number of histone genes in case of their deficiency in Drosophila melanogaster. Molecular and General Genetics MGG, 178(3), 663–668. https://doi.org/10.1007/bf00337876
Influence of deficiency of the histone gene-containing 38B-40 region on X-chromosome template activity and the White gene position effect variegation in Drosophila melanogaster
Molecular and General Genetics MGG / Jan 01, 1978
Khesin, R. B., & Leibovitch, B. A. (1978). Influence of deficiency of the histone gene-containing 38B-40 region on X-chromosome template activity and the White gene position effect variegation in Drosophila melanogaster. Molecular and General Genetics MGG, 162(3), 323–328. https://doi.org/10.1007/bf00268858
Dona SLEIMAN
After completing my BS in Biochemistry in Beirut, I pursued a master’s degree in Genetics followed by a Master 2 degree in Molecular Engineering. I received my PhD in Biochemistry and Biophysics in 2013 at Paris Descartes University with the highest honors & Committee Praise. Throughout my thesis and post-doctoral experience, I have studied different aspects of protein/nucleic acid interactions using several biophysical techniques.
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Most Relevant Publications (1+)
4 total publications
Cyclic di-AMP regulation of osmotic homeostasis is essential in Group B Streptococcus
PLOS Genetics / Apr 16, 2018
Devaux, L., Sleiman, D., Mazzuoli, M.-V., Gominet, M., Lanotte, P., Trieu-Cuot, P., Kaminski, P.-A., & Firon, A. (2018). Cyclic di-AMP regulation of osmotic homeostasis is essential in Group B Streptococcus. PLOS Genetics, 14(4), e1007342. https://doi.org/10.1371/journal.pgen.1007342
basanti deopura
Academic &consultant in man made fibers, Many Technology ready for industries
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89 total publications
Composite wound dressings of pectin and gelatin with aloe vera and curcumin as bioactive agents
International Journal of Biological Macromolecules / Jan 01, 2016
Tummalapalli, M., Berthet, M., Verrier, B., Deopura, B. L., Alam, M. S., & Gupta, B. (2016). Composite wound dressings of pectin and gelatin with aloe vera and curcumin as bioactive agents. International Journal of Biological Macromolecules, 82, 104–113. https://doi.org/10.1016/j.ijbiomac.2015.10.087
Low frequency neutron spectrum of 1,3,5-triamino-2,4,6-trinitrobenzene
Molecular Physics / Oct 01, 1970
Gupta, V. D., & Deopura, B. L. (1970). Low frequency neutron spectrum of 1,3,5-triamino-2,4,6-trinitrobenzene. Molecular Physics, 19(4), 589–592. https://doi.org/10.1080/00268977000101621
Dushani L. Palliyaguru, Ph.D.
Toxicologist | Aging, Nutrition and Metabolism Research Scientist | Systems Biologist
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21 total publications
Notch-Nrf2 Axis: Regulation of Nrf2 Gene Expression and Cytoprotection by Notch Signaling
Molecular and Cellular Biology / Feb 15, 2014
Wakabayashi, N., Skoko, J. J., Chartoumpekis, D. V., Kimura, S., Slocum, S. L., Noda, K., Palliyaguru, D. L., Fujimuro, M., Boley, P. A., Tanaka, Y., Shigemura, N., Biswal, S., Yamamoto, M., & Kensler, T. W. (2014). Notch-Nrf2 Axis: Regulation of Nrf2 Gene Expression and Cytoprotection by Notch Signaling. Molecular and Cellular Biology, 34(4), 653–663. https://doi.org/10.1128/mcb.01408-13
Notch intracellular domain overexpression in adipocytes confers lipodystrophy in mice
Molecular Metabolism / Jul 01, 2015
Chartoumpekis, D. V., Palliyaguru, D. L., Wakabayashi, N., Khoo, N. K. H., Schoiswohl, G., O’Doherty, R. M., & Kensler, T. W. (2015). Notch intracellular domain overexpression in adipocytes confers lipodystrophy in mice. Molecular Metabolism, 4(7), 543–550. https://doi.org/10.1016/j.molmet.2015.04.004
Fasting blood glucose as a predictor of mortality: Lost in translation
Cell Metabolism / Nov 01, 2021
Palliyaguru, D. L., Shiroma, E. J., Nam, J. K., Duregon, E., Vieira Ligo Teixeira, C., Price, N. L., Bernier, M., Camandola, S., Vaughan, K. L., Colman, R. J., Deighan, A., Korstanje, R., Peters, L. L., Dickinson, S. L., Ejima, K., Simonsick, E. M., Launer, L. J., Chia, C. W., Egan, J., … de Cabo, R. (2021). Fasting blood glucose as a predictor of mortality: Lost in translation. Cell Metabolism, 33(11), 2189-2200.e3. https://doi.org/10.1016/j.cmet.2021.08.013
Jamie Marks
An interdisciplinary scientist proficient in statistically analyzing large and complex datasets in RStudio. Balanced the competing needs of teaching, research, and administrative work. Experienced in successfully writing research publications and grant applications.
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4 total publications
Endurance training does not affect maximum exertion/distance capacity in Anolis carolinensis lizards
Journal of Experimental Biology / Oct 31, 2022
Sorlin, M. V., Marks, J. R., & Lailvaux, S. P. (2022). Endurance training does not affect maximum exertion/distance capacity in Anolis carolinensis lizards. Journal of Experimental Biology, 225(21). https://doi.org/10.1242/jeb.244576
Expression of insulin-like growth factors depends on both mass and resource availability in female green anoles (Anolis carolinensis)
Journal of Experimental Biology / Aug 01, 2021
Marks, J. R., Beatty, A. E., Schwartz, T. S., Sorlin, M., & Lailvaux, S. P. (2021). Expression of insulin-like growth factors depends on both mass and resource availability in female green anoles (Anolis carolinensis). Journal of Experimental Biology, 224(15). https://doi.org/10.1242/jeb.242665
Michael W Harman
Distinguished Subject Matter Expert & Leader in Medical Technologies.
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15 total publications
Measuring DNA content in live cells by fluorescence microscopy
Cell Division / Sep 04, 2018
Gomes, C. J., Harman, M. W., Centuori, S. M., Wolgemuth, C. W., & Martinez, J. D. (2018). Measuring DNA content in live cells by fluorescence microscopy. Cell Division, 13(1). https://doi.org/10.1186/s13008-018-0039-z
Vinculin in Neutrophil Adhesion, Motility and Trafficking
The FASEB Journal / Apr 01, 2018
Wilson, Z., Harman, M., Hazlett, L., Odzer, J., Witt, H., Franck, C., Reichner, J., & Lefort, C. (2018). Vinculin in Neutrophil Adhesion, Motility and Trafficking. The FASEB Journal, 32(S1). Portico. https://doi.org/10.1096/fasebj.2018.32.1_supplement.280.11
Jennifer Aaker
General Atlantic Professor, Stanford University
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79 total publications
SPECIAL SYMPOSIUM LECTURE: SIR HANS L. KORNBERG
Advances in Enzyme Regulation / Jan 01, 2002
SPECIAL SYMPOSIUM LECTURE: SIR HANS L. KORNBERG. (2002). Advances in Enzyme Regulation, 42, EX17. https://doi.org/10.1016/s0065-2571(01)00055-3
Dr. Susanne Ressl
Biochemist & Structural Biologist | Project & Team Leader | Creative & Translational Thinker | Problem Solver | Mentor | Educator | Consultant | Innovator | Science Communicator & Writer | Relationship Builder | Collaborator
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Most Relevant Publications (5+)
20 total publications
Substrate specificity and ion coupling in the Na+/betaine symporter BetP
The EMBO Journal / Mar 01, 2011
Perez, C., Koshy, C., Ressl, S., Nicklisch, S., Krämer, R., & Ziegler, C. (2011). Substrate specificity and ion coupling in the Na+/betaine symporter BetP. The EMBO Journal, 30(7), 1221–1229. https://doi.org/10.1038/emboj.2011.46
Structures of C1q-like Proteins Reveal Unique Features among the C1q/TNF Superfamily
Structure / Apr 01, 2015
Ressl, S., Vu, B. K., Vivona, S., Martinelli, D. C., Südhof, T. C., & Brunger, A. T. (2015). Structures of C1q-like Proteins Reveal Unique Features among the C1q/TNF Superfamily. Structure, 23(4), 688–699. https://doi.org/10.1016/j.str.2015.01.019
Munc18a Does Not Alter Fusion Rates Mediated by Neuronal SNAREs, Synaptotagmin, and Complexin
Journal of Biological Chemistry / Apr 01, 2015
Zhang, Y., Diao, J., Colbert, K. N., Lai, Y., Pfuetzner, R. A., Padolina, M. S., Vivona, S., Ressl, S., Cipriano, D. J., Choi, U. B., Shah, N., Weis, W. I., & Brunger, A. T. (2015). Munc18a Does Not Alter Fusion Rates Mediated by Neuronal SNAREs, Synaptotagmin, and Complexin. Journal of Biological Chemistry, 290(16), 10518–10534. https://doi.org/10.1074/jbc.m114.630772
Loss of Pseudouridine Synthases in the RluA Family Causes Hypersensitive Nociception inDrosophila
G3 Genes|Genomes|Genetics / Dec 01, 2020
Song, W., Ressl, S., & Tracey, W. D. (2020). Loss of Pseudouridine Synthases in the RluA Family Causes Hypersensitive Nociception inDrosophila. G3 Genes|Genomes|Genetics, 10(12), 4425–4438. https://doi.org/10.1534/g3.120.401767
C1QL3 promotes cell‐cell adhesion by mediating complex formation between ADGRB3/BAI3 and neuronal pentraxins
The FASEB Journal / Dec 18, 2020
Sticco, M. J., Peña Palomino, P. A., Lukacsovich, D., Thompson, B. L., Földy, C., Ressl, S., & Martinelli, D. C. (2020). C1QL3 promotes cell‐cell adhesion by mediating complex formation between ADGRB3/BAI3 and neuronal pentraxins. The FASEB Journal, 35(1). Portico. https://doi.org/10.1096/fj.202000351rr
Katelyn Katelyn Masiuk
Co-Founder and CSO at Immunovec
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13 total publications
Editing the Sickle Cell Disease Mutation in Human Hematopoietic Stem Cells: Comparison of Endonucleases and Homologous Donor Templates
Molecular Therapy / Aug 01, 2019
Romero, Z., Lomova, A., Said, S., Miggelbrink, A., Kuo, C. Y., Campo-Fernandez, B., Hoban, M. D., Masiuk, K. E., Clark, D. N., Long, J., Sanchez, J. M., Velez, M., Miyahira, E., Zhang, R., Brown, D., Wang, X., Kurmangaliyev, Y. Z., Hollis, R. P., & Kohn, D. B. (2019). Editing the Sickle Cell Disease Mutation in Human Hematopoietic Stem Cells: Comparison of Endonucleases and Homologous Donor Templates. Molecular Therapy, 27(8), 1389–1406. https://doi.org/10.1016/j.ymthe.2019.05.014
PGE2 and Poloxamer Synperonic F108 Enhance Transduction of Human HSPCs with a β-Globin Lentiviral Vector
Molecular Therapy - Methods & Clinical Development / Jun 01, 2019
Masiuk, K. E., Zhang, R., Osborne, K., Hollis, R. P., Campo-Fernandez, B., & Kohn, D. B. (2019). PGE2 and Poloxamer Synperonic F108 Enhance Transduction of Human HSPCs with a β-Globin Lentiviral Vector. Molecular Therapy - Methods & Clinical Development, 13, 390–398. https://doi.org/10.1016/j.omtm.2019.03.005
Improving Gene Therapy Efficiency through the Enrichment of Human Hematopoietic Stem Cells
Molecular Therapy / Sep 01, 2017
Masiuk, K. E., Brown, D., Laborada, J., Hollis, R. P., Urbinati, F., & Kohn, D. B. (2017). Improving Gene Therapy Efficiency through the Enrichment of Human Hematopoietic Stem Cells. Molecular Therapy, 25(9), 2163–2175. https://doi.org/10.1016/j.ymthe.2017.05.023
Pharmacologic Inhibition of ALK5 Causes Selective Induction of Terminal Differentiation in Mouse Keratinocytes Expressing Oncogenic HRAS
Molecular Cancer Research / Jun 01, 2011
Markell, L. M., Masiuk, K. E., Blazanin, N., & Glick, A. B. (2011). Pharmacologic Inhibition of ALK5 Causes Selective Induction of Terminal Differentiation in Mouse Keratinocytes Expressing Oncogenic HRAS. Molecular Cancer Research, 9(6), 746–756. https://doi.org/10.1158/1541-7786.mcr-11-0112
Gene Therapy for Sickle Cell Disease:A Lentiviral Vector Comparison Study
Human Gene Therapy / Oct 01, 2018
Urbinati, F., Campo Fernandez, B., Masiuk, K. E., Poletti, V., Hollis, R. P., Koziol, C., Kaufman, M. L., Brown, D., Mavilio, F., & Kohn, D. B. (2018). Gene Therapy for Sickle Cell Disease:A Lentiviral Vector Comparison Study. Human Gene Therapy, 29(10), 1153–1166. https://doi.org/10.1089/hum.2018.061
Nima Ziraknejad
PhD and Co-Founder of Health and Safety Startup
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15 total publications
Structural and molecular perspectives of SARS-CoV-2
Methods / Nov 01, 2021
Kumar, S., & Saxena, S. K. (2021). Structural and molecular perspectives of SARS-CoV-2. Methods, 195, 23–28. https://doi.org/10.1016/j.ymeth.2021.03.007
Amir Manbachi
Co-director and Founder of the Johns Hopkins HEPIUS Innovation Lab
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92 total publications
Ultrasound monitoring of microcirculation: An original study from the laboratory bench to the clinic
Microcirculation / Jun 29, 2022
Aghabaglou, F., Ainechi, A., Abramson, H., Curry, E., Kaovasia, T. P., Kamal, S., Acord, M., Mahapatra, S., Pustavoitau, A., Smith, B., Azadi, J., Son, J. K., Suk, I., Theodore, N., Tyler, B. M., & Manbachi, A. (2022). Ultrasound monitoring of microcirculation: An original study from the laboratory bench to the clinic. Microcirculation, 29(6–7). Portico. https://doi.org/10.1111/micc.12770
A computational and experimental study inside microfluidic systems: the role of shear stress and flow recirculation in cell docking
Biomedical Microdevices / Mar 19, 2010
Cioffi, M., Moretti, M., Manbachi, A., Chung, B. G., Khademhosseini, A., & Dubini, G. (2010). A computational and experimental study inside microfluidic systems: the role of shear stress and flow recirculation in cell docking. Biomedical Microdevices, 12(4), 619–626. https://doi.org/10.1007/s10544-010-9414-5
John Joe
Faculty of Health and Medical Sciences, University of Surrey, Guildford, UK
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95 total publications
Synchronous firing dynamics in a heterogeneous neurosecretory-cell population in an insect
Brain Research / Mar 01, 2002
Ichikawa, T. (2002). Synchronous firing dynamics in a heterogeneous neurosecretory-cell population in an insect. Brain Research, 929(2), 156–165. https://doi.org/10.1016/s0006-8993(01)03349-2
IS901, a new member of a widespread class of atypical insertion sequences, is associated with pathogenicity inMycobacterium avium
Molecular Microbiology / Sep 01, 1991
Kunze, Z. M., Wall, S., Appelberg, R., Silva, M. T., Portaels, F., & McFadden, J. J. (1991). IS901, a new member of a widespread class of atypical insertion sequences, is associated with pathogenicity inMycobacterium avium. Molecular Microbiology, 5(9), 2265–2272. https://doi.org/10.1111/j.1365-2958.1991.tb02157.x
Carbon flux rerouting during Mycobacterium tuberculosis growth arrest
Molecular Microbiology / Oct 06, 2010
Shi, L., Sohaskey, C. D., Pfeiffer, C., Datta, P., Parks, M., McFadden, J., North, R. J., & Gennaro, M. L. (2010). Carbon flux rerouting during Mycobacterium tuberculosis growth arrest. Molecular Microbiology, 78(5), 1199–1215. https://doi.org/10.1111/j.1365-2958.2010.07399.x
13C-Flux Spectral Analysis of Host-Pathogen Metabolism Reveals a Mixed Diet for Intracellular Mycobacterium tuberculosis
Chemistry & Biology / Aug 01, 2013
Beste, D. J. V., Nöh, K., Niedenführ, S., Mendum, T. A., Hawkins, N. D., Ward, J. L., Beale, M. H., Wiechert, W., & McFadden, J. (2013). 13C-Flux Spectral Analysis of Host-Pathogen Metabolism Reveals a Mixed Diet for Intracellular Mycobacterium tuberculosis. Chemistry & Biology, 20(8), 1012–1021. https://doi.org/10.1016/j.chembiol.2013.06.012
The use of DNA probes identifying restriction-fragment-length polymorphisms to examine the Mycobacterium avium complex
Molecular Microbiology / Jul 01, 1987
McFadden, J. J., Butcher, P. D., Thompson, J., Chiodini, R., & Hermon-Taylor, J. (1987). The use of DNA probes identifying restriction-fragment-length polymorphisms to examine the Mycobacterium avium complex. Molecular Microbiology, 1(1), 283–291. https://doi.org/10.1111/j.1365-2958.1987.tb01934.x
13C Metabolic Flux Analysis Identifies an Unusual Route for Pyruvate Dissimilation in Mycobacteria which Requires Isocitrate Lyase and Carbon Dioxide Fixation
PLoS Pathogens / Jul 21, 2011
Beste, D. J. V., Bonde, B., Hawkins, N., Ward, J. L., Beale, M. H., Noack, S., Nöh, K., Kruger, N. J., Ratcliffe, R. G., & McFadden, J. (2011). 13C Metabolic Flux Analysis Identifies an Unusual Route for Pyruvate Dissimilation in Mycobacteria which Requires Isocitrate Lyase and Carbon Dioxide Fixation. PLoS Pathogens, 7(7), e1002091. https://doi.org/10.1371/journal.ppat.1002091
Recombination in mycobacteria
Molecular Microbiology / Jul 01, 1996
McFadden, J. (1996). Recombination in mycobacteria. Molecular Microbiology, 21(2), 205–211. Portico. https://doi.org/10.1046/j.1365-2958.1996.6271345.x
Compiling a Molecular Inventory for Mycobacterium bovis BCG at Two Growth Rates: Evidence for Growth Rate-Mediated Regulation of Ribosome Biosynthesis and Lipid Metabolism
Journal of Bacteriology / Mar 01, 2005
Beste, D. J. V., Peters, J., Hooper, T., Avignone-Rossa, C., Bushell, M. E., & McFadden, J. (2005). Compiling a Molecular Inventory for Mycobacterium bovis BCG at Two Growth Rates: Evidence for Growth Rate-Mediated Regulation of Ribosome Biosynthesis and Lipid Metabolism. Journal of Bacteriology, 187(5), 1677–1684. https://doi.org/10.1128/jb.187.5.1677-1684.2005
Simple enzymic method for isolation of DNA from diverse bacteria
Journal of Microbiological Methods / Sep 01, 1989
Visuvanathan, S., Moss, M. T., Stanford, J. L., Hermon-Taylor, J., & McFadden, J. J. (1989). Simple enzymic method for isolation of DNA from diverse bacteria. Journal of Microbiological Methods, 10(2), 59–64. https://doi.org/10.1016/0167-7012(89)90001-8
Gene replacement by homologous recombination in Mycobacterium bovis BCG
Molecular Microbiology / May 01, 1995
Norman, E., Dellagostin, O. A., McFadden, J., & Dale, J. W. (1995). Gene replacement by homologous recombination in Mycobacterium bovis BCG. Molecular Microbiology, 16(4), 755–760. https://doi.org/10.1111/j.1365-2958.1995.tb02436.x
Generation and characterization of a PhoP homologue mutant of Neisseria meningitidis
Molecular Microbiology / Feb 24, 2004
Johnson, C. R., Newcombe, J., Thorne, S., Borde, H. A., Eales-Reynolds, L.-J., Gorringe, A. R., Funnell, S. G. P., & McFadden, J. J. (2004). Generation and characterization of a PhoP homologue mutant of Neisseria meningitidis. Molecular Microbiology, 39(5), 1345–1355. https://doi.org/10.1111/j.1365-2958.2001.02324.x
Transcriptomic Analysis Identifies Growth Rate Modulation as a Component of the Adaptation of Mycobacteria to Survival inside the Macrophage
Journal of Bacteriology / Jun 01, 2007
Beste, D. J. V., Laing, E., Bonde, B., Avignone-Rossa, C., Bushell, M. E., & McFadden, J. J. (2007). Transcriptomic Analysis Identifies Growth Rate Modulation as a Component of the Adaptation of Mycobacteria to Survival inside the Macrophage. Journal of Bacteriology, 189(11), 3969–3976. https://doi.org/10.1128/jb.01787-06
Construction and use of integrative vectors to express foreign genes in mycobacteria
Molecular Microbiology / Dec 01, 1993
Dellagostin, O. A., Wall, S., Norman, E., O’Shaughnessy, T., Dale, J. W., & McFadden, J. (1993). Construction and use of integrative vectors to express foreign genes in mycobacteria. Molecular Microbiology, 10(5), 983–993. https://doi.org/10.1111/j.1365-2958.1993.tb00970.x
IS900-promoted stable integration of a foreign gene into mycobacteria
Molecular Microbiology / Aug 01, 1991
England, P. M., Wall, S., & McFadden, J. (1991). IS900-promoted stable integration of a foreign gene into mycobacteria. Molecular Microbiology, 5(8), 2047–2052. https://doi.org/10.1111/j.1365-2958.1991.tb00827.x
Identification and characterization of a novel insertion sequence, IS1106, downstream of the porA gene in B15 Neisseria meningitidis
Molecular Microbiology / Jun 01, 1992
Knight, A. I., Ni, H., Cartwright, K. A. V., & McFadden, J. J. (1992). Identification and characterization of a novel insertion sequence, IS1106, downstream of the porA gene in B15 Neisseria meningitidis. Molecular Microbiology, 6(11), 1565–1573. https://doi.org/10.1111/j.1365-2958.1992.tb00878.x
Stimulation of transposition of the Mycobacterium tuberculosis insertion sequence IS6110 by exposure to a microaerobic environment
Molecular Microbiology / Sep 01, 1999
Ghanekar, K., McBride, A., Dellagostin, O., Thorne, S., Mooney, R., & McFadden, J. (1999). Stimulation of transposition of the Mycobacterium tuberculosis insertion sequence IS6110 by exposure to a microaerobic environment. Molecular Microbiology, 33(5), 982–993. https://doi.org/10.1046/j.1365-2958.1999.01539.x
Genus- and species-specific DNA probes to identify mycobacteria using the polymerase chain reaction
Molecular and Cellular Probes / Apr 01, 1990
Fries, J. W. U., Patel, R. J., Piessens, W. F., & Wirth, D. F. (1990). Genus- and species-specific DNA probes to identify mycobacteria using the polymerase chain reaction. Molecular and Cellular Probes, 4(2), 87–105. https://doi.org/10.1016/0890-8508(90)90011-n
Naturally occurring insertional inactivation of theporAgene ofNeisseria meningitidisby integration of IS1301
Molecular Microbiology / Oct 01, 1998
Newcombe, J., Cartwright, K., Dyer, S., & McFadden, J. (1998). Naturally occurring insertional inactivation of theporAgene ofNeisseria meningitidisby integration of IS1301. Molecular Microbiology, 30(2), 453–454. https://doi.org/10.1046/j.1365-2958.1998.01056.x
Phenotypic and Transcriptional Characterization of the Meningococcal PhoPQ System, a Magnesium-Sensing Two-Component Regulatory System That Controls Genes Involved in Remodeling the Meningococcal Cell Surface
Journal of Bacteriology / Jul 01, 2005
Newcombe, J., Jeynes, J. C., Mendoza, E., Hinds, J., Marsden, G. L., Stabler, R. A., Marti, M., & McFadden, J. J. (2005). Phenotypic and Transcriptional Characterization of the Meningococcal PhoPQ System, a Magnesium-Sensing Two-Component Regulatory System That Controls Genes Involved in Remodeling the Meningococcal Cell Surface. Journal of Bacteriology, 187(14), 4967–4975. https://doi.org/10.1128/jb.187.14.4967-4975.2005
The anaplerotic node is essential for the intracellular survival of Mycobacterium tuberculosis
Journal of Biological Chemistry / Apr 01, 2018
Basu, P., Sandhu, N., Bhatt, A., Singh, A., Balhana, R., Gobe, I., Crowhurst, N. A., Mendum, T. A., Gao, L., Ward, J. L., Beale, M. H., McFadden, J., & Beste, D. J. V. (2018). The anaplerotic node is essential for the intracellular survival of Mycobacterium tuberculosis. Journal of Biological Chemistry, 293(15), 5695–5704. https://doi.org/10.1074/jbc.ra118.001839
Epidemiological and genetic markers, virulence factors and intracellular growth of Mycobacterium avium in AIDS
Research in Microbiology / Jan 01, 1992
McFadden, J. J., Kunze, Z. M., Portaels, F., Labrousse, V., & Rastogi, N. (1992). Epidemiological and genetic markers, virulence factors and intracellular growth of Mycobacterium avium in AIDS. Research in Microbiology, 143(4), 423–430. https://doi.org/10.1016/0923-2508(92)90057-u
Differential Producibility Analysis (DPA) of Transcriptomic Data with Metabolic Networks: Deconstructing the Metabolic Response of M. tuberculosis
PLoS Computational Biology / Jun 30, 2011
Bonde, B. K., Beste, D. J. V., Laing, E., Kierzek, A. M., & McFadden, J. (2011). Differential Producibility Analysis (DPA) of Transcriptomic Data with Metabolic Networks: Deconstructing the Metabolic Response of M. tuberculosis. PLoS Computational Biology, 7(6), e1002060. https://doi.org/10.1371/journal.pcbi.1002060
System-level strategies for studying the metabolism of Mycobacterium tuberculosis
Molecular BioSystems / Jan 01, 2010
Beste, D. J. V., & McFadden, J. (2010). System-level strategies for studying the metabolism of Mycobacterium tuberculosis. Molecular BioSystems, 6(12), 2363. https://doi.org/10.1039/c003757p
Acorn: A grid computing system for constraint based modeling and visualization of the genome scale metabolic reaction networks via a web interface
BMC Bioinformatics / May 24, 2011
Sroka, J., Bieniasz-Krzywiec, Ł., Gwóźdź, S., Leniowski, D., Łącki, J., Markowski, M., Avignone-Rossa, C., Bushell, M. E., McFadden, J., & Kierzek, A. M. (2011). Acorn: A grid computing system for constraint based modeling and visualization of the genome scale metabolic reaction networks via a web interface. BMC Bioinformatics, 12(1). https://doi.org/10.1186/1471-2105-12-196
Anna Koster
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4 total publications
Dynamical model of the CLC-2 ion channel reveals conformational changes associated with selectivity-filter gating
PLOS Computational Biology / Mar 30, 2020
McKiernan, K. A., Koster, A. K., Maduke, M., & Pande, V. S. (2020). Dynamical model of the CLC-2 ion channel reveals conformational changes associated with selectivity-filter gating. PLOS Computational Biology, 16(3), e1007530. https://doi.org/10.1371/journal.pcbi.1007530
Emily Owens
Professor, Department of Criminology, Law and Society
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69 total publications
Police oversight in Ireland: Who complains, who gains?
CrimRxiv / Nov 07, 2022
Moss, B. (2022). Police oversight in Ireland: Who complains, who gains? CrimRxiv. https://doi.org/10.21428/cb6ab371.d0b0b56e
Marina Baretti
I am a clinical translational researcher in gastrointestinal (GI) oncology, collaborating closely with laboratory-based researchers to move laboratory findings into patients and to answer important clinical questions.
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57 total publications
A randomized, phase II trial of oral azacitidine (CC-486) in patients with resected pancreatic adenocarcinoma at high risk for recurrence
Clinical Epigenetics / Dec 01, 2022
Heumann, T. R., Baretti, M., Sugar, E. A., Durham, J. N., Linden, S., Lopez-Vidal, T. Y., Leatherman, J., Cope, L., Sharma, A., Weekes, C. D., O’Dwyer, P. J., Reiss, K. A., Monga, D. K., Ahuja, N., & Azad, N. S. (2022). A randomized, phase II trial of oral azacitidine (CC-486) in patients with resected pancreatic adenocarcinoma at high risk for recurrence. Clinical Epigenetics, 14(1). https://doi.org/10.1186/s13148-022-01367-8
Daniel Milej, Ph.D.
Ph.D. in biomedical engineering
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91 total publications
Assessment by Multi‐Distance Hyperspectral NIRS of Changes in the Oxidation State of Cytochrome C Oxidase (oxCCO) to Carotid Artery Compressions
The FASEB Journal / May 01, 2022
Shoemaker, L., Suwalski, M., Milej, D., Shoemaker, J. K., Chui, J., & St. Lawrence, K. (2022). Assessment by Multi‐Distance Hyperspectral NIRS of Changes in the Oxidation State of Cytochrome C Oxidase (oxCCO) to Carotid Artery Compressions. The FASEB Journal, 36(S1). Portico. https://doi.org/10.1096/fasebj.2022.36.s1.r3459
Assessing the Sensitivity of Multi-Distance Hyperspectral NIRS to Changes in the Oxidation State of Cytochrome C Oxidase in the Brain
Metabolites / Aug 31, 2022
Suwalski, M., Shoemaker, L. N., Shoemaker, J. K., Diop, M., Murkin, J. M., Chui, J., St. Lawrence, K., & Milej, D. (2022). Assessing the Sensitivity of Multi-Distance Hyperspectral NIRS to Changes in the Oxidation State of Cytochrome C Oxidase in the Brain. Metabolites, 12(9), 817. https://doi.org/10.3390/metabo12090817