Experts and Thought Leaders in Biomedicine
Ping Luo
Assistant Professor at Algoma University
Education
University of Saskatchewan
Ph.D., Biomedical Engineering / September, 2019
Beijing Institute of Technology
M.Eng., Biomedical Engineering / June, 2015
Hunan University
B.Eng., Computer Science / June, 2010
Experience
Princess Margaret Cancer Centre
Postdoctoral Researcher / November, 2019 — Present
I work in Dr. Trevor Pugh's lab and design cancer diagnosis and treatment strategies by analyze cell-free DNA and single cell sequencing data
Princess Margaret Cancer Centre
Bioinformatics Specialist / September, 2023 — Present
I work in Dr. Tak Mak's lab and study tumor immunology using single cell and TCR sequencing data.
Most Relevant Research Expertise
Other Research Expertise (20)
About
Most Relevant Publications (6+)
23 total publications
Enhancing the prediction of disease–gene associations with multimodal deep learning
Bioinformatics / Mar 02, 2019
Luo, P., Li, Y., Tian, L.-P., & Wu, F.-X. (2019). Enhancing the prediction of disease–gene associations with multimodal deep learning. Bioinformatics, 35(19), 3735–3742. https://doi.org/10.1093/bioinformatics/btz155
Identifying cell types from single-cell data based on similarities and dissimilarities between cells
BMC Bioinformatics / May 01, 2021
Li, Y., Luo, P., Lu, Y., & Wu, F.-X. (2021). Identifying cell types from single-cell data based on similarities and dissimilarities between cells. BMC Bioinformatics, 22(S3). https://doi.org/10.1186/s12859-020-03873-z
Ensemble disease gene prediction by clinical sample-based networks
BMC Bioinformatics / Mar 01, 2020
Luo, P., Tian, L.-P., Chen, B., Xiao, Q., & Wu, F.-X. (2020). Ensemble disease gene prediction by clinical sample-based networks. BMC Bioinformatics, 21(S2). https://doi.org/10.1186/s12859-020-3346-8
A Novel Core-Attachment-Based Method to Identify Dynamic Protein Complexes Based on Gene Expression Profiles and PPI Networks
PROTEOMICS / Feb 20, 2019
Xiao, Q., Luo, P., Li, M., Wang, J., & Wu, F.-X. (2019). A Novel Core-Attachment-Based Method to Identify Dynamic Protein Complexes Based on Gene Expression Profiles and PPI Networks. PROTEOMICS, 19(5), 1800129. Portico. https://doi.org/10.1002/pmic.201800129
Normalization of the Immune Microenvironment during Lenalidomide Maintenance Is Associated with Sustained MRD Negativity in Patients with Multiple Myeloma
Blood / Nov 05, 2021
Coffey, D. G., Maura, F., Gonzalez-Kozlova, E., Diaz-Mejia3, J., Luo, P., Zhang, Y., Xu, Y., Warren, E. H., Smith, E. L., Cho, H. J., Lesokhin, A., Diamond, B., Kazandjian, D., Pugh, T. J., Green, D. J., Gnjatic, S., & Landgren, O. (2021). Normalization of the Immune Microenvironment during Lenalidomide Maintenance Is Associated with Sustained MRD Negativity in Patients with Multiple Myeloma. Blood, 138(Supplement 1), 329–329. https://doi.org/10.1182/blood-2021-154506
Evaluation of single-cell RNA-seq clustering algorithms on cancer tumor datasets
Computational and Structural Biotechnology Journal / Jan 01, 2022
Mahalanabis, A., Turinsky, A. L., Husić, M., Christensen, E., Luo, P., Naidas, A., Brudno, M., Pugh, T., Ramani, A. K., & Shooshtari, P. (2022). Evaluation of single-cell RNA-seq clustering algorithms on cancer tumor datasets. Computational and Structural Biotechnology Journal, 20, 6375–6387. https://doi.org/10.1016/j.csbj.2022.10.029
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Gwendolyn Thomas, Ph.D., CSCS, USAW-L1
Resistance Exercise Physiologist/Performance Enhancement/Optimizing RE Prescription
Education
University of Connecticut
Ph.D., Kinesiology (Exercise Endocrinology, Exercise Physiology, Resistance Exercise) / May, 2010
University of Connecticut
M.A., Strength and Conditioning / May, 2007
Experience
Penn State University
Assistant Research Professor / September, 2019 — August, 2023
Principal Investigator of the Exercise Prescription Lab. The lab (PI: Thomas) conducts interdisciplinary and translational research on chronic diseases, publishing in peer-reviewed journals. Transform population health outcomes through data, analytics, and actionable insights. Chair the regulatory review board, overseeing IRB Administration, running meetings, and approving research protocols. Expertise in institutional, FDA, and Federal regulatory work.
Penn State Integrative Physiology
Faculty Member / September, 2019 — Present
Faculty Member In Integrative Physiology
Syracuse University
Assistant Professor / August, 2016 — August, 2019
Independent Principal Investigator: Assumed responsibility for all research studies conducted in my lab, including but not limited to oversight and training of research assistants (25), training of research assistants (30), and generating independent, high quality, reproducible results. Responsible for the management and integrity of design, conduct and reporting of the research project and for managing, monitoring and ensuring the integrity of collaborative relationships. Curriculum Committee Chair:Led Curriculum Committee and Departmental Leadership to develop Master’s Degree in Strength and Conditioning through certifying agency, the National Strength and Conditioning Association (NSCA).
Most Relevant Research Expertise
Other Research Expertise (28)
About
Most Relevant Publications (2+)
51 total publications
Effect of resistance exercise on muscle steroid receptor protein content in strength-trained men and women
Steroids / Nov 01, 2009
Vingren, J. L., Kraemer, W. J., Hatfield, D. L., Volek, J. S., Ratamess, N. A., Anderson, J. M., Häkkinen, K., Ahtiainen, J., Fragala, M. S., & Thomas, G. A. (2009). Effect of resistance exercise on muscle steroid receptor protein content in strength-trained men and women. Steroids, 74(13–14), 1033–1039. https://doi.org/10.1016/j.steroids.2009.08.002
Endogenous opioid peptide responses to opioid and anti-inflammatory medications following eccentric exercise-induced muscle damage
Peptides / Jan 01, 2010
Kraemer, W. J., Joseph, M. F., Volek, J. S., Hoffman, J. R., Ratamess, N. A., Newton, R. U., Fragala, M. S., French, D. N., Rubin, M. A., Scheett, T. P., McGuigan, M. R., Thomas, G. A., Gomez, A. L., Häkkinen, K., & Maresh, C. M. (2010). Endogenous opioid peptide responses to opioid and anti-inflammatory medications following eccentric exercise-induced muscle damage. Peptides, 31(1), 88–93. https://doi.org/10.1016/j.peptides.2009.09.031
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Luciano Dibona, Ph.D
Highly motivated young professional with a PhD in Chemistry and specialized in Photobiological aspects of Life Sciences and Agriculture on Crop protection.
Education
Pontificia Universidad Católica de Chile
PhD Chemistry, Facultad de Química y de Farmacia
Universidad de Tarapaca - Campus Saucache
Químico/Licenciado en Química, Departamento de Química
Experience
IQS
Postdoctoral Researcher / March, 2022 — Present
Pontificia Universidad Católica de Chile
R+D Project Director / January, 2021 — April, 2023
R&D Project director in VIU Project: “Development of fungicidal formulations based on photoactive polymers (LEAPs) for application in Agriculture”. Pontificia Universidad Católica de Chile.
Pontificia Universidad Católica de Chile
Researcher / January, 2021 — June, 2023
Researcher in COPEC UC 2019.J.1273 “Photoactive biofungicides for use citrus and postharvest table grapes” Pontificia Universidad Católica de Chile
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Other Research Expertise (5)
About
Most Relevant Publications (1+)
7 total publications
Recent Photosensitizer Developments, Delivery Strategies and Combination‐based Approaches for Photodynamic Therapy†
Photochemistry and Photobiology / Dec 20, 2022
Mariño‐Ocampo, N., Dibona‐Villanueva, L., Escobar‐Álvarez, E., Guerra‐Díaz, D., Zúñiga‐Núñez, D., Fuentealba, D., & Robinson‐Duggon, J. (2022). Recent Photosensitizer Developments, Delivery Strategies and Combination‐based Approaches for Photodynamic Therapy†. Photochemistry and Photobiology, 99(2), 469–497. Portico. https://doi.org/10.1111/php.13749
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Ajay Badhan
Research Biologist, Lethbridge Research Center, Canada
Education
Ph.D., Microbiology
Experience
Agriculture Agri-food Canada
Biologist / May, 2015 — Present
Most Relevant Research Expertise
Other Research Expertise (22)
About
Most Relevant Publications (15+)
29 total publications
Production of multiple xylanolytic and cellulolytic enzymes by thermophilic fungus Myceliophthora sp. IMI 387099
Bioresource Technology / Feb 01, 2007
Badhan, A. K., Chadha, B. S., Kaur, J., Saini, H. S., & Bhat, M. K. (2007). Production of multiple xylanolytic and cellulolytic enzymes by thermophilic fungus Myceliophthora sp. IMI 387099. Bioresource Technology, 98(3), 504–510. https://doi.org/10.1016/j.biortech.2006.02.009
Purification and characterization of ß-glucosidase from Melanocarpus sp. MTCC 3922
Electronic Journal of Biotechnology / Apr 15, 2007
Kaur, J., Chadha, B. S., Kumar, B. A., Ghatora, S. K., & Saini, H. S. (2007). Purification and characterization of ß-glucosidase from Melanocarpus sp. MTCC 3922. Electronic Journal of Biotechnology, 10(2), 0–0. https://doi.org/10.2225/vol10-issue2-fulltext-4
Purification and characterization of two endoglucanases from Melanocarpus sp. MTCC 3922
Bioresource Technology / Jan 01, 2007
KAUR, J., CHADHA, B., KUMAR, B., & SAINI, H. (2007). Purification and characterization of two endoglucanases from Melanocarpus sp. MTCC 3922. Bioresource Technology, 98(1), 74–81. https://doi.org/10.1016/j.biortech.2005.11.019
Identification and characterization of diverse xylanases from thermophilic and thermotolerant fungi
BioResources / Jul 01, 2006
Ghatora, S. K., Chadha, B. S., Badhan, A. K., Saini, H. S., & Bhat, M. K. (2006). Identification and characterization of diverse xylanases from thermophilic and thermotolerant fungi. BioResources, 1(1), 18–33. https://doi.org/10.15376/biores.1.1.18-33
Functionally diverse multiple xylanases of thermophilic fungus Myceliophthora sp. IMI 387099
Enzyme and Microbial Technology / Oct 01, 2004
Badhan, A. K., Chadha, B. S., Sonia, K. G., Saini, H. S., & Bhat, M. K. (2004). Functionally diverse multiple xylanases of thermophilic fungus Myceliophthora sp. IMI 387099. Enzyme and Microbial Technology, 35(5), 460–466. https://doi.org/10.1016/j.enzmictec.2004.07.002
Expression of a fungal ferulic acid esterase in alfalfa modifies cell wall digestibility
Biotechnology for Biofuels / Mar 20, 2014
Badhan, A., Jin, L., Wang, Y., Han, S., Kowalczys, K., Brown, D. C., Ayala, C. J., Latoszek-Green, M., Miki, B., Tsang, A., & McAllister, T. (2014). Expression of a fungal ferulic acid esterase in alfalfa modifies cell wall digestibility. Biotechnology for Biofuels, 7(1). https://doi.org/10.1186/1754-6834-7-39
Identification of glucose tolerant acid active β-glucosidases from thermophilic and thermotolerant fungi
World Journal of Microbiology and Biotechnology / Aug 23, 2007
Sonia, K. G., Chadha, B. S., Badhan, A. K., Saini, H. S., & Bhat, M. K. (2007). Identification of glucose tolerant acid active β-glucosidases from thermophilic and thermotolerant fungi. World Journal of Microbiology and Biotechnology, 24(5), 599–604. https://doi.org/10.1007/s11274-007-9512-6
Two endoxylanases active and stable at alkaline pH from the newly isolated thermophilic fungus, Myceliophthora sp. IMI 387099
Journal of Biotechnology / Apr 01, 2004
Chadha, B. S., Ajay, B. K., Mellon, F., & Bhat, M. K. (2004). Two endoxylanases active and stable at alkaline pH from the newly isolated thermophilic fungus, Myceliophthora sp. IMI 387099. Journal of Biotechnology, 109(3), 227–237. https://doi.org/10.1016/j.jbiotec.2003.12.010
Identification of novel enzymes to enhance the ruminal digestion of barley straw
Bioresource Technology / Jul 01, 2018
Badhan, A., Ribeiro, G. O., Jones, D. R., Wang, Y., Abbott, D. W., Di Falco, M., Tsang, A., & McAllister, T. A. (2018). Identification of novel enzymes to enhance the ruminal digestion of barley straw. Bioresource Technology, 260, 76–84. https://doi.org/10.1016/j.biortech.2018.03.086
Role of Transglycosylation Products in the Expression of Multiple Xylanases in Myceliophthora sp. IMI 387099
Current Microbiology / May 14, 2007
Badhan, A. K., Chadha, B. S., Kaur, J., Sonia, K. G., Saini, H. S., & Bhat, M. K. (2007). Role of Transglycosylation Products in the Expression of Multiple Xylanases in Myceliophthora sp. IMI 387099. Current Microbiology, 54(6), 405–409. https://doi.org/10.1007/s00284-006-0204-5
Designer Plants for Biofuels: A Review
Current Metabolomics / Mar 02, 2016
Badhan, A., & McAllister, T. (2016). Designer Plants for Biofuels: A Review. Current Metabolomics, 4(1), 49–55. https://doi.org/10.2174/2213235x03666141226213656
Purification of the alkaliphilic xylanases from Myceliophthora sp. IMI 387099 using cellulose-binding domain as an affinity tag
World Journal of Microbiology and Biotechnology / Sep 19, 2007
Badhan, A. K., Chadha, B. S., & Saini, H. S. (2007). Purification of the alkaliphilic xylanases from Myceliophthora sp. IMI 387099 using cellulose-binding domain as an affinity tag. World Journal of Microbiology and Biotechnology, 24(7), 973–981. https://doi.org/10.1007/s11274-007-9561-x
Mechanistic insights into the digestion of complex dietary fibre by the rumen microbiota using combinatorial high-resolution glycomics and transcriptomic analyses
Computational and Structural Biotechnology Journal / Jan 01, 2022
Badhan, A., Low, K. E., Jones, D. R., Xing, X., Milani, M. R. M., Polo, R. O., Klassen, L., Venketachalam, S., Hahn, M. G., Abbott, D. W., & McAllister, T. A. (2022). Mechanistic insights into the digestion of complex dietary fibre by the rumen microbiota using combinatorial high-resolution glycomics and transcriptomic analyses. Computational and Structural Biotechnology Journal, 20, 148–164. https://doi.org/10.1016/j.csbj.2021.12.009
Saccharification efficiencies of multi-enzyme complexes produced by aerobic fungi
New Biotechnology / Nov 01, 2018
Badhan, A., Huang, J., Wang, Y., Abbott, D. W., Di Falco, M., Tsang, A., & McAllister, T. (2018). Saccharification efficiencies of multi-enzyme complexes produced by aerobic fungi. New Biotechnology, 46, 1–6. https://doi.org/10.1016/j.nbt.2018.05.003
Comparative analysis of functional diversity of rumen microbiome in bison and beef heifers
Applied and Environmental Microbiology / Dec 21, 2023
Nguyen, T. T. M., Badhan, A. K., Reid, I. D., Ribeiro, G., Gruninger, R., Tsang, A., Guan, L. L., & McAllister, T. (2023). Comparative analysis of functional diversity of rumen microbiome in bison and beef heifers. Applied and Environmental Microbiology, 89(12). https://doi.org/10.1128/aem.01320-23
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Dr. David Siderovski, Ph.D.
Professor of Computational Pharmacology; Chair of HSC SBS Dept. of Pharmacology & Neuroscience
Education
University of Toronto
Ph.D., Medical Biophysics / November, 1997
Experience
University of North Carolina at Chapel Hill
Professor / January, 1999 — June, 2012
West Virginia University School of Medicine
E.J. Van Liere Endowed Medicine Professor and Chairman / July, 2012 — February, 2020
Chair of the Dept. of Physiology and Pharmacology
University of North Texas Health Science Center
Professor & Chair / March, 2020 — Present
Most Relevant Research Expertise
Other Research Expertise (20)
About
Most Relevant Publications (36+)
94 total publications
G-protein signaling: back to the future
Cellular and Molecular Life Sciences / Mar 01, 2005
McCudden, C. R., Hains, M. D., Kimple, R. J., Siderovski, D. P., & Willard, F. S. (2005). G-protein signaling: back to the future. Cellular and Molecular Life Sciences, 62(5), 551–577. https://doi.org/10.1007/s00018-004-4462-3
The GAPs, GEFs, and GDIs of heterotrimeric G-protein alpha subunits
International Journal of Biological Sciences / Jan 01, 2005
Siderovski, D. P., & Willard, F. S. (2005). The GAPs, GEFs, and GDIs of heterotrimeric G-protein alpha subunits. International Journal of Biological Sciences, 51–66. https://doi.org/10.7150/ijbs.1.51
Regulators of G-Protein signalling as new central nervous system drug targets
Nature Reviews Drug Discovery / Mar 01, 2002
Neubig, R. R., & Siderovski, D. P. (2002). Regulators of G-Protein signalling as new central nervous system drug targets. Nature Reviews Drug Discovery, 1(3), 187–197. https://doi.org/10.1038/nrd747
Structural and Evolutionary Division of Phosphotyrosine Binding (PTB) Domains
Journal of Molecular Biology / Jan 01, 2005
Uhlik, M. T., Temple, B., Bencharit, S., Kimple, A. J., Siderovski, D. P., & Johnson, G. L. (2005). Structural and Evolutionary Division of Phosphotyrosine Binding (PTB) Domains. Journal of Molecular Biology, 345(1), 1–20. https://doi.org/10.1016/j.jmb.2004.10.038
Structural basis for the selective activation of Rho GTPases by Dbl exchange factors
Nature Structural Biology / May 13, 2002
Snyder, J. T., Worthylake, D. K., Rossman, K. L., Betts, L., Pruitt, W. M., Siderovski, D. P., Der, C. J., & Sondek, J. (2002). Structural basis for the selective activation of Rho GTPases by Dbl exchange factors. Nature Structural Biology, 9(6), 468–475. https://doi.org/10.1038/nsb796
RGS12 and RGS14 GoLoco Motifs Are GαiInteraction Sites with Guanine Nucleotide Dissociation Inhibitor Activity
Journal of Biological Chemistry / Aug 01, 2001
Kimple, R. J., De Vries, L., Tronchère, H., Behe, C. I., Morris, R. A., Farquhar, M. G., & Siderovski, D. P. (2001). RGS12 and RGS14 GoLoco Motifs Are GαiInteraction Sites with Guanine Nucleotide Dissociation Inhibitor Activity. Journal of Biological Chemistry, 276(31), 29275–29281. https://doi.org/10.1074/jbc.m103208200
GTPase Activating Specificity of RGS12 and Binding Specificity of an Alternatively Spliced PDZ (PSD-95/Dlg/ZO-1) Domain
Journal of Biological Chemistry / Jul 01, 1998
Snow, B. E., Hall, R. A., Krumins, A. M., Brothers, G. M., Bouchard, D., Brothers, C. A., Chung, S., Mangion, J., Gilman, A. G., Lefkowitz, R. J., & Siderovski, D. P. (1998). GTPase Activating Specificity of RGS12 and Binding Specificity of an Alternatively Spliced PDZ (PSD-95/Dlg/ZO-1) Domain. Journal of Biological Chemistry, 273(28), 17749–17755. https://doi.org/10.1074/jbc.273.28.17749
Return of the GDI: The GoLoco Motif in Cell Division
Annual Review of Biochemistry / Jun 01, 2004
Willard, F. S., Kimple, R. J., & Siderovski, D. P. (2004). Return of the GDI: The GoLoco Motif in Cell Division. Annual Review of Biochemistry, 73(1), 925–951. https://doi.org/10.1146/annurev.biochem.73.011303.073756
The GoLoco motif: a Gαi/o binding motif and potential guanine-nucleotide exchange factor
Trends in Biochemical Sciences / Sep 01, 1999
Siderovski, D. P., Diversé-Pierluissi, M. A., & De Vries, L. (1999). The GoLoco motif: a Gαi/o binding motif and potential guanine-nucleotide exchange factor. Trends in Biochemical Sciences, 24(9), 340–341. https://doi.org/10.1016/s0968-0004(99)01441-3
Activation of Phospholipase C-ε by Heterotrimeric G Protein βγ-Subunits
Journal of Biological Chemistry / Dec 01, 2001
Wing, M. R., Houston, D., Kelley, G. G., Der, C. J., Siderovski, D. P., & Harden, T. K. (2001). Activation of Phospholipase C-ε by Heterotrimeric G Protein βγ-Subunits. Journal of Biological Chemistry, 276(51), 48257–48261. https://doi.org/10.1074/jbc.c100574200
Whither Goest the RGS Proteins?
Critical Reviews in Biochemistry and Molecular Biology / Jan 01, 1999
Siderovski, D. P., Strockbine, B., & Behe, C. I. (1999). Whither Goest the RGS Proteins? Critical Reviews in Biochemistry and Molecular Biology, 34(4), 215–251. https://doi.org/10.1080/10409239991209273
Receptor-selective Effects of Endogenous RGS3 and RGS5 to Regulate Mitogen-activated Protein Kinase Activation in Rat Vascular Smooth Muscle Cells
Journal of Biological Chemistry / Jul 01, 2002
Wang, Q., Liu, M., Mullah, B., Siderovski, D. P., & Neubig, R. R. (2002). Receptor-selective Effects of Endogenous RGS3 and RGS5 to Regulate Mitogen-activated Protein Kinase Activation in Rat Vascular Smooth Muscle Cells. Journal of Biological Chemistry, 277(28), 24949–24958. https://doi.org/10.1074/jbc.m203802200
PB1 Domain Interaction of p62/Sequestosome 1 and MEKK3 Regulates NF-κB Activation
Journal of Biological Chemistry / Jan 01, 2010
Nakamura, K., Kimple, A. J., Siderovski, D. P., & Johnson, G. L. (2010). PB1 Domain Interaction of p62/Sequestosome 1 and MEKK3 Regulates NF-κB Activation. Journal of Biological Chemistry, 285(3), 2077–2089. https://doi.org/10.1074/jbc.m109.065102
Molecular Cloning and Expression Analysis of RatRgs12andRgs14
Biochemical and Biophysical Research Communications / Apr 01, 1997
Snow, B. E., Antonio, L., Suggs, S., Gutstein, H. B., & Siderovski, D. P. (1997). Molecular Cloning and Expression Analysis of RatRgs12andRgs14. Biochemical and Biophysical Research Communications, 233(3), 770–777. https://doi.org/10.1006/bbrc.1997.6537
Quantitative Analysis of the Effect of Phosphoinositide Interactions on the Function of Dbl Family Proteins
Journal of Biological Chemistry / Dec 01, 2001
Snyder, J. T., Rossman, K. L., Baumeister, M. A., Pruitt, W. M., Siderovski, D. P., Der, C. J., Lemmon, M. A., & Sondek, J. (2001). Quantitative Analysis of the Effect of Phosphoinositide Interactions on the Function of Dbl Family Proteins. Journal of Biological Chemistry, 276(49), 45868–45875. https://doi.org/10.1074/jbc.m106731200
Crystal structure of the multifunctional Gβ5–RGS9 complex
Nature Structural & Molecular Biology / Jan 20, 2008
Cheever, M. L., Snyder, J. T., Gershburg, S., Siderovski, D. P., Harden, T. K., & Sondek, J. (2008). Crystal structure of the multifunctional Gβ5–RGS9 complex. Nature Structural & Molecular Biology, 15(2), 155–162. https://doi.org/10.1038/nsmb.1377
Structure-based Protocol for Identifying Mutations that Enhance Protein–Protein Binding Affinities
Journal of Molecular Biology / Aug 01, 2007
Sammond, D. W., Eletr, Z. M., Purbeck, C., Kimple, R. J., Siderovski, D. P., & Kuhlman, B. (2007). Structure-based Protocol for Identifying Mutations that Enhance Protein–Protein Binding Affinities. Journal of Molecular Biology, 371(5), 1392–1404. https://doi.org/10.1016/j.jmb.2007.05.096
Structure of Gαi1 Bound to a GDP-Selective Peptide Provides Insight into Guanine Nucleotide Exchange
Structure / Jul 01, 2005
Johnston, C. A., Willard, F. S., Jezyk, M. R., Fredericks, Z., Bodor, E. T., Jones, M. B., Blaesius, R., Watts, V. J., Harden, T. K., Sondek, J., Ramer, J. K., & Siderovski, D. P. (2005). Structure of Gαi1 Bound to a GDP-Selective Peptide Provides Insight into Guanine Nucleotide Exchange. Structure, 13(7), 1069–1080. https://doi.org/10.1016/j.str.2005.04.007
Gβγ Isoforms Selectively Rescue Plasma Membrane Localization and Palmitoylation of Mutant Gαs and Gαq
Journal of Biological Chemistry / Jun 01, 2001
Evanko, D. S., Thiyagarajan, M. M., Siderovski, D. P., & Wedegaertner, P. B. (2001). Gβγ Isoforms Selectively Rescue Plasma Membrane Localization and Palmitoylation of Mutant Gαs and Gαq. Journal of Biological Chemistry, 276(26), 23945–23953. https://doi.org/10.1074/jbc.m101154200
Structural Determinants of G-protein α Subunit Selectivity by Regulator of G-protein Signaling 2 (RGS2)
Journal of Biological Chemistry / Jul 01, 2009
Kimple, A. J., Soundararajan, M., Hutsell, S. Q., Roos, A. K., Urban, D. J., Setola, V., Temple, B. R. S., Roth, B. L., Knapp, S., Willard, F. S., & Siderovski, D. P. (2009). Structural Determinants of G-protein α Subunit Selectivity by Regulator of G-protein Signaling 2 (RGS2). Journal of Biological Chemistry, 284(29), 19402–19411. https://doi.org/10.1074/jbc.m109.024711
Guanine nucleotide dissociation inhibitor activity of the triple GoLoco motif protein G18: alanine-to-aspartate mutation restores function to an inactive second GoLoco motif
Biochemical Journal / Mar 15, 2004
KIMPLE, R. J., WILLARD, F. S., HAINS, M. D., JONES, M. B., NWEKE, G. K., & SIDEROVSKI, D. P. (2004). Guanine nucleotide dissociation inhibitor activity of the triple GoLoco motif protein G18: alanine-to-aspartate mutation restores function to an inactive second GoLoco motif. Biochemical Journal, 378(3), 801–808. https://doi.org/10.1042/bj20031686
D2 dopamine receptor activation of potassium channels is selectively decoupled by Gαi‐specific GoLoco motif peptides
Journal of Neurochemistry / Feb 17, 2005
Webb, C. K., McCudden, C. R., Willard, F. S., Kimple, R. J., Siderovski, D. P., & Oxford, G. S. (2005). D2 dopamine receptor activation of potassium channels is selectively decoupled by Gαi‐specific GoLoco motif peptides. Journal of Neurochemistry, 92(6), 1408–1418. Portico. https://doi.org/10.1111/j.1471-4159.2004.02997.x
G protein signaling in the parasite Entamoeba histolytica
Experimental & Molecular Medicine / Mar 22, 2013
Bosch, D. E., & Siderovski, D. P. (2013). G protein signaling in the parasite Entamoeba histolytica. Experimental & Molecular Medicine, 45(3), e15–e15. https://doi.org/10.1038/emm.2013.30
Gβ Association and Effector Interaction Selectivities of the Divergent Gγ Subunit Gγ13
Journal of Biological Chemistry / Dec 01, 2001
Blake, B. L., Wing, M. R., Zhou, J. Y., Lei, Q., Hillmann, J. R., Behe, C. I., Morris, R. A., Harden, T. K., Bayliss, D. A., Miller, R. J., & Siderovski, D. P. (2001). Gβ Association and Effector Interaction Selectivities of the Divergent Gγ Subunit Gγ13. Journal of Biological Chemistry, 276(52), 49267–49274. https://doi.org/10.1074/jbc.m106565200
The RGS protein inhibitor CCG-4986 is a covalent modifier of the RGS4 Gα-interaction face
Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics / Sep 01, 2007
Kimple, A. J., Willard, F. S., Giguère, P. M., Johnston, C. A., Mocanu, V., & Siderovski, D. P. (2007). The RGS protein inhibitor CCG-4986 is a covalent modifier of the RGS4 Gα-interaction face. Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics, 1774(9), 1213–1220. https://doi.org/10.1016/j.bbapap.2007.06.002
Established and Emerging Fluorescence-Based Assays for G-Protein Function: Ras-Superfamily GTPases
Combinatorial Chemistry & High Throughput Screening / Jun 01, 2003
Rojas, R., Kimple, R., Rossman, K., Siderovski, D., & Sondek, J. (2003). Established and Emerging Fluorescence-Based Assays for G-Protein Function: Ras-Superfamily GTPases. Combinatorial Chemistry & High Throughput Screening, 6(4), 409–418. https://doi.org/10.2174/138620703106298509
Computational Design of the Sequence and Structure of a Protein-Binding Peptide
Journal of the American Chemical Society / Mar 09, 2011
Sammond, D. W., Bosch, D. E., Butterfoss, G. L., Purbeck, C., Machius, M., Siderovski, D. P., & Kuhlman, B. (2011). Computational Design of the Sequence and Structure of a Protein-Binding Peptide. Journal of the American Chemical Society, 133(12), 4190–4192. https://doi.org/10.1021/ja110296z
A direct fluorescence-based assay for RGS domain GTPase accelerating activity
Analytical Biochemistry / May 01, 2005
Willard, F. S., Kimple, A. J., Johnston, C. A., & Siderovski, D. P. (2005). A direct fluorescence-based assay for RGS domain GTPase accelerating activity. Analytical Biochemistry, 340(2), 341–351. https://doi.org/10.1016/j.ab.2005.02.015
Integrating energy calculations with functional assays to decipher the specificity of G protein–RGS protein interactions
Nature Structural & Molecular Biology / Jun 19, 2011
Kosloff, M., Travis, A. M., Bosch, D. E., Siderovski, D. P., & Arshavsky, V. Y. (2011). Integrating energy calculations with functional assays to decipher the specificity of G protein–RGS protein interactions. Nature Structural & Molecular Biology, 18(7), 846–853. https://doi.org/10.1038/nsmb.2068
A Point Mutation to Gαi Selectively Blocks GoLoco Motif Binding
Journal of Biological Chemistry / Dec 01, 2008
Willard, F. S., Zheng, Z., Guo, J., Digby, G. J., Kimple, A. J., Conley, J. M., Johnston, C. A., Bosch, D., Willard, M. D., Watts, V. J., Lambert, N. A., Ikeda, S. R., Du, Q., & Siderovski, D. P. (2008). A Point Mutation to Gαi Selectively Blocks GoLoco Motif Binding. Journal of Biological Chemistry, 283(52), 36698–36710. https://doi.org/10.1074/jbc.m804936200
Minimal Determinants for Binding Activated Gα from the Structure of a Gαi1−Peptide Dimer,
Biochemistry / Aug 30, 2006
Johnston, C. A., Lobanova, E. S., Shavkunov, A. S., Low, J., Ramer, J. K., Blaesius, R., Fredericks, Z., Willard, F. S., Kuhlman, B., Arshavsky, V. Y., & Siderovski, D. P. (2006). Minimal Determinants for Binding Activated Gα from the Structure of a Gαi1−Peptide Dimer,. Biochemistry, 45(38), 11390–11400. https://doi.org/10.1021/bi0613832
Cooperative interaction between the DNA-binding domains of PU.1 and IRF4
Journal of Molecular Biology / Jun 01, 1998
Yee, A. A., Yin, P., Siderovski, D. P., Mak, T. W., Litchfield, D. W., & Arrowsmith, C. H. (1998). Cooperative interaction between the DNA-binding domains of PU.1 and IRF4. Journal of Molecular Biology, 279(5), 1075–1083. https://doi.org/10.1006/jmbi.1998.1838
Covalent immobilization of histidine-tagged proteins for surface plasmon resonance
Analytical Biochemistry / Jun 01, 2006
Willard, F. S., & Siderovski, D. P. (2006). Covalent immobilization of histidine-tagged proteins for surface plasmon resonance. Analytical Biochemistry, 353(1), 147–149. https://doi.org/10.1016/j.ab.2006.02.004
Established and Emerging Fluorescence-Based Assays for G-Protein Function: Heterotrimeric G-Protein Alpha Subunits and Regulator of G-Protein Signaling (RGS) Proteins
Combinatorial Chemistry & High Throughput Screening / Jun 01, 2003
Kimple, R., Jones, M., Shutes, A., Yerxa, B., Siderovski, D., & Willard, F. (2003). Established and Emerging Fluorescence-Based Assays for G-Protein Function: Heterotrimeric G-Protein Alpha Subunits and Regulator of G-Protein Signaling (RGS) Proteins. Combinatorial Chemistry & High Throughput Screening, 6(4), 399–407. https://doi.org/10.2174/138620703106298491
A High Throughput Fluorescence Polarization Assay for Inhibitors of the GoLoco Motif/G-alpha Interaction
Combinatorial Chemistry & High Throughput Screening / Jun 01, 2008
Kimple, A., Yasgar, A., Hughes, M., Jadhav, A., Willard, F., Muller, R., Austin, C., Inglese, J., Ibeanu, G., Siderovski, D., & Simeonov, A. (2008). A High Throughput Fluorescence Polarization Assay for Inhibitors of the GoLoco Motif/G-alpha Interaction. Combinatorial Chemistry & High Throughput Screening, 11(5), 396–409. https://doi.org/10.2174/138620708784534770
Regulator of G-protein Signaling-21 (RGS21) Is an Inhibitor of Bitter Gustatory Signaling Found in Lingual and Airway Epithelia
Journal of Biological Chemistry / Dec 01, 2012
Cohen, S. P., Buckley, B. K., Kosloff, M., Garland, A. L., Bosch, D. E., Cheng, G., Radhakrishna, H., Brown, M. D., Willard, F. S., Arshavsky, V. Y., Tarran, R., Siderovski, D. P., & Kimple, A. J. (2012). Regulator of G-protein Signaling-21 (RGS21) Is an Inhibitor of Bitter Gustatory Signaling Found in Lingual and Airway Epithelia. Journal of Biological Chemistry, 287(50), 41706–41719. https://doi.org/10.1074/jbc.m112.423806
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Martin Tsui
University of California, San Francisco
Education
Florida State University
Ph.D., Molecular Biophysics / July, 2017
University of California, San Diego
B.S., Chemistry / June, 2012
Experience
Stealth
Founder & CEO / January, 2023 — Present
Genome engineering
Amazon
Senior Scientist / December, 2021 — February, 2023
Molecular Diagnostics
Van Andel Institute
Postdoctoral Fellow / September, 2020 — April, 2021
Cryo-EM of membrane proteins
Most Relevant Research Expertise
Other Research Expertise (12)
About
Most Relevant Publications (3+)
16 total publications
The Impact of DNA Topology and Guide Length on Target Selection by a Cytosine-Specific Cas9
ACS Synthetic Biology / Mar 20, 2017
Tsui, T. K. M., Hand, T. H., Duboy, E. C., & Li, H. (2017). The Impact of DNA Topology and Guide Length on Target Selection by a Cytosine-Specific Cas9. ACS Synthetic Biology, 6(6), 1103–1113. https://doi.org/10.1021/acssynbio.7b00050
Structure Principles of CRISPR-Cas Surveillance and Effector Complexes
Annual Review of Biophysics / Jun 22, 2015
Tsui, T. K. M., & Li, H. (2015). Structure Principles of CRISPR-Cas Surveillance and Effector Complexes. Annual Review of Biophysics, 44(1), 229–255. https://doi.org/10.1146/annurev-biophys-060414-033939
Computational pipeline provides mechanistic understanding of Omicron variant of concern neutralizing engineered ACE2 receptor traps
Structure / Mar 01, 2023
Remesh, S. G., Merz, G. E., Brilot, A. F., Chio, U. S., Rizo, A. N., Pospiech, T. H., Lui, I., Laurie, M. T., Glasgow, J., Le, C. Q., Zhang, Y., Diwanji, D., Hernandez, E., Lopez, J., Mehmood, H., Pawar, K. I., Pourmal, S., Smith, A. M., Zhou, F., … Verba, K. A. (2023). Computational pipeline provides mechanistic understanding of Omicron variant of concern neutralizing engineered ACE2 receptor traps. Structure, 31(3), 253-264.e6. https://doi.org/10.1016/j.str.2023.01.009
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Boris Leibovitch
Experienced wet lab and in teaching Molecular Cell biologist, geneticist, cancer biologist in Academia
Education
Moscow Region State University
PhD, Molecular Biology / April, 1978
Moscow Region State University
MS, Genetics / July, 1972
Moscow Region State University
BS, Genetics / April, 1971
Experience
NYU Langone Medical Center
Associate Research Scientist / June, 2021 — September, 2022
Wet lab research and teaching Molecular and Cell Biology in MD program
Icahn School of Medicine at Mount Sinai
Assistant Professor / July, 2004 — June, 2021
Wet lab research and teaching Molecular and Cell Biology in MD program
Washington University in St. Louis
Post-doctoral Research Associate / June, 1994 — June, 2004
Wet lab research and teaching Molecular and Cell Biology in MS program
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Other Research Expertise (8)
About
Most Relevant Publications (3+)
22 total publications
The MMSET protein is a histone methyltransferase with characteristics of a transcriptional corepressor
Blood / Mar 15, 2008
Marango, J., Shimoyama, M., Nishio, H., Meyer, J. A., Min, D.-J., Sirulnik, A., Martinez-Martinez, Y., Chesi, M., Bergsagel, P. L., Zhou, M.-M., Waxman, S., Leibovitch, B. A., Walsh, M. J., & Licht, J. D. (2008). The MMSET protein is a histone methyltransferase with characteristics of a transcriptional corepressor. Blood, 111(6), 3145–3154. https://doi.org/10.1182/blood-2007-06-092122
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
Mutations That Affect Ion Channels Change the Sensitivity ofDrosophila Melanogasterto Volatile Anesthetics
Journal of Neurogenetics / Jan 01, 1995
Leibovitch, B. A., Campbell, D. B., Krishnan, K. S., & Nash, H. A. (1995). Mutations That Affect Ion Channels Change the Sensitivity ofDrosophila Melanogasterto Volatile Anesthetics. Journal of Neurogenetics, 10(1), 1–13. https://doi.org/10.3109/01677069509083455
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Dushani L. Palliyaguru, Ph.D.
Toxicologist | Aging, Nutrition and Metabolism Research Scientist | Systems Biologist
Education
University of Pittsburgh
Ph.D., Environmental and Occupational Health (Toxicology) / May, 2016
Clark University
B.A., Biochemistry and Molecular Biology, Mathematics / May, 2009
Experience
National Institute on Aging Intramural Research Program, Translational Gerontology Branch
IRTA Postdoctoral Fellow, K99/R00 Grant Recipient / September, 2018 — Present
-Leading, managing and coordinating large population longitudinal studies within US Federal Government and Industry partnerships - Successfully writing, submitting, and managing grants and manuscripts to ensure continuity of research initiatives -Hiring, mentoring, and supervising research fellows and technicians -Applying epidemiological, machine learning and data science methods to multi-omics data to characterize biomarkers of aging and aging-related diseases -Testing nutritional and pharmacological compounds for lifespan extension, and prevention of chronic diseases (eg. Alzheimer’s)
University of Pittsburgh, Department of Pharmacology and Chemical Biology
Postdoctoral Fellow / May, 2016 — September, 2018
Identified a novel urinary biomarker of cruciferous vegetable intake in cancer prevention clinical trials using liquid chromatography mass spectrometry -Led and managed project that showed broccoli-derived sulforaphane prevented breast cancer through altering gene expression and lipidomics profiles
Healthcare Ready
Health Policy Fellow / January, 2017 — January, 2018
-Synthesized data, mined literature and wrote Toolkits/ Issue Brief on “Pharmacy and Emergency Preparedness: A Landscape Analysis”
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Other Research Expertise (16)
About
Most Relevant Publications (1+)
20 total publications
Withaferin A induces Nrf2-dependent protection against liver injury: Role of Keap1-independent mechanisms
Free Radical Biology and Medicine / Dec 01, 2016
Palliyaguru, D. L., Chartoumpekis, D. V., Wakabayashi, N., Skoko, J. J., Yagishita, Y., Singh, S. V., & Kensler, T. W. (2016). Withaferin A induces Nrf2-dependent protection against liver injury: Role of Keap1-independent mechanisms. Free Radical Biology and Medicine, 101, 116–128. https://doi.org/10.1016/j.freeradbiomed.2016.10.003
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Daniel Milej, Ph.D.
Ph.D. in biomedical engineering
Education
Western University
Post-doctorate fellowship, Department of Medical Biophysics / June, 2019
Polish Academy of Science
PhD, Nalecz Institute of Biocybernetics and Biomedical Engineering / June, 2014
Military Univeristy of Technology
MSc, Department of Electronics / June, 2008
Experience
Lawson Research Institute
Research Associate / July, 2019 — July, 2025
Scientist / August, 2024 — Present
Western University
Postdoctoral fellow / September, 2014 — June, 2019
Assistant Professor / September, 2024 — Present
Polish Academy of Science
Researcher/PhD Student / June, 2008 — September, 2014
Most Relevant Research Expertise
Other Research Expertise (23)
About
Most Relevant Publications (24+)
91 total publications
Performance assessment of time-domain optical brain imagers, part 1: basic instrumental performance protocol
Journal of Biomedical Optics / Aug 14, 2014
Wabnitz, H., Taubert, D. R., Mazurenka, M., Steinkellner, O., Jelzow, A., Macdonald, R., Milej, D., Sawosz, P., Kacprzak, M., Liebert, A., Cooper, R., Hebden, J., Pifferi, A., Farina, A., Bargigia, I., Contini, D., Caffini, M., Zucchelli, L., Spinelli, L., … Torricelli, A. (2014). Performance assessment of time-domain optical brain imagers, part 1: basic instrumental performance protocol. Journal of Biomedical Optics, 19(8), 086010. https://doi.org/10.1117/1.jbo.19.8.086010
Performance assessment of time-domain optical brain imagers, part 2: nEUROPt protocol
Journal of Biomedical Optics / Aug 14, 2014
Wabnitz, H., Jelzow, A., Mazurenka, M., Steinkellner, O., Macdonald, R., Milej, D., Zolek, N., Kacprzak, M., Sawosz, P., Maniewski, R., Liebert, A., Magazov, S., Hebden, J., Martelli, F., Di Ninni, P., Zaccanti, G., Torricelli, A., Contini, D., Re, R., … Pifferi, A. (2014). Performance assessment of time-domain optical brain imagers, part 2: nEUROPt protocol. Journal of Biomedical Optics, 19(8), 086012. https://doi.org/10.1117/1.jbo.19.8.086012
Application of optical methods in the monitoring of traumatic brain injury: A review
Journal of Cerebral Blood Flow & Metabolism / Oct 01, 2016
Weigl, W., Milej, D., Janusek, D., Wojtkiewicz, S., Sawosz, P., Kacprzak, M., Gerega, A., Maniewski, R., & Liebert, A. (2016). Application of optical methods in the monitoring of traumatic brain injury: A review. Journal of Cerebral Blood Flow & Metabolism, 36(11), 1825–1843. https://doi.org/10.1177/0271678x16667953
Wavelength-resolved measurements of fluorescence lifetime of indocyanine green
Journal of Biomedical Optics / Jan 01, 2011
Gerega, A., Zolek, N., Soltysinski, T., Milej, D., Sawosz, P., Toczylowska, B., & Liebert, A. (2011). Wavelength-resolved measurements of fluorescence lifetime of indocyanine green. Journal of Biomedical Optics, 16(6), 067010. https://doi.org/10.1117/1.3593386
Noninvasive continuous optical monitoring of absolute cerebral blood flow in critically ill adults
Neurophotonics / Nov 23, 2018
Noninvasive continuous optical monitoring of absolute cerebral blood flow in critically ill adults. (2018). Neurophotonics, 5(04), 1. https://doi.org/10.1117/1.nph.5.4.045006
Assessment of inflow and washout of indocyanine green in the adult human brain by monitoring of diffuse reflectance at large source-detector separation
Journal of Biomedical Optics / Jan 01, 2011
Liebert, A., Sawosz, P., Milej, D., Kacprzak, M., Weigl, W., Botwicz, M., Mączewska, J., Fronczewska, K., Mayzner-Zawadzka, E., Królicki, L., & Maniewski, R. (2011). Assessment of inflow and washout of indocyanine green in the adult human brain by monitoring of diffuse reflectance at large source-detector separation. Journal of Biomedical Optics, 16(4), 046011. https://doi.org/10.1117/1.3574018
Single-session communication with a locked-in patient by functional near-infrared spectroscopy
Neurophotonics / Dec 23, 2017
Abdalmalak, A., Milej, D., Norton, L., Debicki, D. B., Gofton, T., Diop, M., Owen, A. M., & St. Lawrence, K. (2017). Single-session communication with a locked-in patient by functional near-infrared spectroscopy. Neurophotonics, 4(04), 1. https://doi.org/10.1117/1.nph.4.4.040501
Direct assessment of extracerebral signal contamination on optical measurements of cerebral blood flow, oxygenation, and metabolism
Neurophotonics / Oct 07, 2020
Milej, D., Abdalmalak, A., Rajaram, A., & St. Lawrence, K. (2020). Direct assessment of extracerebral signal contamination on optical measurements of cerebral blood flow, oxygenation, and metabolism. Neurophotonics, 7(04). https://doi.org/10.1117/1.nph.7.4.045002
Quantification of cerebral blood flow in adults by contrast-enhanced near-infrared spectroscopy: Validation against MRI
Journal of Cerebral Blood Flow & Metabolism / Sep 09, 2019
Milej, D., He, L., Abdalmalak, A., Baker, W. B., Anazodo, U. C., Diop, M., Dolui, S., Kavuri, V. C., Pavlosky, W., Wang, L., Balu, R., Detre, J. A., Amendolia, O., Quattrone, F., Kofke, W. A., Yodh, A. G., & St Lawrence, K. (2019). Quantification of cerebral blood flow in adults by contrast-enhanced near-infrared spectroscopy: Validation against MRI. Journal of Cerebral Blood Flow & Metabolism, 40(8), 1672–1684. https://doi.org/10.1177/0271678x19872564
Optimization of the method for assessment of brain perfusion in humans using contrast-enhanced reflectometry: multidistance time-resolved measurements
Journal of Biomedical Optics / Oct 28, 2015
Milej, D., Janusek, D., Gerega, A., Wojtkiewicz, S., Sawosz, P., Treszczanowicz, J., Weigl, W., & Liebert, A. (2015). Optimization of the method for assessment of brain perfusion in humans using contrast-enhanced reflectometry: multidistance time-resolved measurements. Journal of Biomedical Optics, 20(10), 106013. https://doi.org/10.1117/1.jbo.20.10.106013
Multiwavelength time-resolved detection of fluorescence during the inflow of indocyanine green into the adult’s brain
Journal of Biomedical Optics / Aug 02, 2012
Gerega, A. (2012). Multiwavelength time-resolved detection of fluorescence during the inflow of indocyanine green into the adult’s brain. Journal of Biomedical Optics, 17(8), 087001. https://doi.org/10.1117/1.jbo.17.8.087001
Incorporating early and late-arriving photons to improve the reconstruction of cerebral hemodynamic responses acquired by time-resolved near-infrared spectroscopy
Journal of Biomedical Optics / May 17, 2021
Milej, D., Abdalmalak, A., Rajaram, A., Jhajj, A., Owen, A. M., & St. Lawrence, K. (2021). Incorporating early and late-arriving photons to improve the reconstruction of cerebral hemodynamic responses acquired by time-resolved near-infrared spectroscopy. Journal of Biomedical Optics, 26(05). https://doi.org/10.1117/1.jbo.26.5.056003
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
Assessing the relationship between the cerebral metabolic rate of oxygen and the oxidation state of cytochrome-c-oxidase
Neurophotonics / Jul 01, 2022
Milej, D., Rajaram, A., Suwalski, M., Morrison, L. B., Shoemaker, L. N., & St. Lawrence, K. (2022). Assessing the relationship between the cerebral metabolic rate of oxygen and the oxidation state of cytochrome-c-oxidase. Neurophotonics, 9(03). https://doi.org/10.1117/1.nph.9.3.035001
The Potential Role of fNIRS in Evaluating Levels of Consciousness
Frontiers in Human Neuroscience / Jul 08, 2021
Abdalmalak, A., Milej, D., Norton, L., Debicki, D. B., Owen, A. M., & Lawrence, K. St. (2021). The Potential Role of fNIRS in Evaluating Levels of Consciousness. Frontiers in Human Neuroscience, 15. https://doi.org/10.3389/fnhum.2021.703405
Detection of Brain Hypoxia Based on Noninvasive Optical Monitoring of Cerebral Blood Flow with Diffuse Correlation Spectroscopy
Neurocritical Care / Jul 20, 2018
Busch, D. R., Balu, R., Baker, W. B., Guo, W., He, L., Diop, M., Milej, D., Kavuri, V., Amendolia, O., St. Lawrence, K., Yodh, A. G., & Kofke, W. A. (2018). Detection of Brain Hypoxia Based on Noninvasive Optical Monitoring of Cerebral Blood Flow with Diffuse Correlation Spectroscopy. Neurocritical Care, 30(1), 72–80. https://doi.org/10.1007/s12028-018-0573-1
Estimation of light detection efficiency for different light guides used in time-resolved near-infrared spectroscopy
Biocybernetics and Biomedical Engineering / Jan 01, 2015
Milej, D., Kruczkowski, M., Kacprzak, M., Sawosz, P., Maniewski, R., & Liebert, A. (2015). Estimation of light detection efficiency for different light guides used in time-resolved near-infrared spectroscopy. Biocybernetics and Biomedical Engineering, 35(4), 227–231. https://doi.org/10.1016/j.bbe.2015.05.003
A Monte Carlo study of fluorescence generation probability in a two-layered tissue model
Physics in Medicine and Biology / Feb 28, 2014
Milej, D., Gerega, A., Wabnitz, H., & Liebert, A. (2014). A Monte Carlo study of fluorescence generation probability in a two-layered tissue model. Physics in Medicine and Biology, 59(6), 1407–1424. https://doi.org/10.1088/0031-9155/59/6/1407
Assessment of cerebral perfusion in post-traumatic brain injury patients with the use of ICG-bolus tracking method
NeuroImage / Jan 01, 2014
Weigl, W., Milej, D., Gerega, A., Toczylowska, B., Kacprzak, M., Sawosz, P., Botwicz, M., Maniewski, R., Mayzner-Zawadzka, E., & Liebert, A. (2014). Assessment of cerebral perfusion in post-traumatic brain injury patients with the use of ICG-bolus tracking method. NeuroImage, 85, 555–565. https://doi.org/10.1016/j.neuroimage.2013.06.065
Time-resolved multi-channel optical system for assessment of brain oxygenation and perfusion by monitoring of diffuse reflectance and fluorescence
Opto-Electronics Review / Jan 01, 2014
Milej, D., Gerega, A., Kacprzak, M., Sawosz, P., Weigl, W., Maniewski, R., & Liebert, A. (2014). Time-resolved multi-channel optical system for assessment of brain oxygenation and perfusion by monitoring of diffuse reflectance and fluorescence. Opto-Electronics Review, 22(1). https://doi.org/10.2478/s11772-014-0178-y
Time-resolved detection of fluorescent light during inflow of ICG to the brain—a methodological study
Physics in Medicine and Biology / Oct 03, 2012
Milej, D., Gerega, A., Żołek, N., Weigl, W., Kacprzak, M., Sawosz, P., Mączewska, J., Fronczewska, K., Mayzner-Zawadzka, E., Królicki, L., Maniewski, R., & Liebert, A. (2012). Time-resolved detection of fluorescent light during inflow of ICG to the brain—a methodological study. Physics in Medicine and Biology, 57(20), 6725–6742. https://doi.org/10.1088/0031-9155/57/20/6725
Advantages of fluorescence over diffuse reflectance measurements tested in phantom experiments with dynamic inflow of ICG
Opto-Electronics Review / Jan 01, 2010
Milej, D., Kacprzak, M., Żołek, N., Sawosz, P., Gerega, A., Maniewski, R., & Liebert, A. (2010). Advantages of fluorescence over diffuse reflectance measurements tested in phantom experiments with dynamic inflow of ICG. Opto-Electronics Review, 18(2). https://doi.org/10.2478/s11772-010-0013-z
Time-resolved imaging of fluorescent inclusions in optically turbid medium — phantom study
Opto-Electronics Review / Jan 01, 2010
Kacprzak, M., Liebert, A., Sawosz, P., Żołek, N., Milej, D., & Maniewski, R. (2010). Time-resolved imaging of fluorescent inclusions in optically turbid medium — phantom study. Opto-Electronics Review, 18(1). https://doi.org/10.2478/s11772-009-0027-6
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Burcu Vitrinel, Ph.D.
Cross-functional life sciences strategy professional with a Ph.D. in genetics
Education
New York University
Ph.D., Developmental Genetics / May, 2021
M.Sc., Molecular Medicine / September, 2015
Sabancı University
B.Sc., Bioengineering / May, 2013
Experience
Putnam Associates
Life Sciences Consultant / July, 2021 — November, 2023
Most Relevant Research Expertise
Other Research Expertise (14)
About
Most Relevant Publications (2+)
10 total publications
Exploiting Interdata Relationships in Next-generation Proteomics Analysis
Molecular & Cellular Proteomics / Aug 01, 2019
Vitrinel, B., Koh, H. W. L., Mujgan Kar, F., Maity, S., Rendleman, J., Choi, H., & Vogel, C. (2019). Exploiting Interdata Relationships in Next-generation Proteomics Analysis. Molecular & Cellular Proteomics, 18(8), S5–S14. https://doi.org/10.1074/mcp.mr118.001246
Conserved Epigenetic Regulatory Logic Infers Genes Governing Cell Identity
Cell Systems / Dec 01, 2020
Shim, W. J., Sinniah, E., Xu, J., Vitrinel, B., Alexanian, M., Andreoletti, G., Shen, S., Sun, Y., Balderson, B., Boix, C., Peng, G., Jing, N., Wang, Y., Kellis, M., Tam, P. P. L., Smith, A., Piper, M., Christiaen, L., Nguyen, Q., … Palpant, N. J. (2020). Conserved Epigenetic Regulatory Logic Infers Genes Governing Cell Identity. Cell Systems, 11(6), 625-639.e13. https://doi.org/10.1016/j.cels.2020.11.001
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Elvira Forte
Scientific strategist • Senior Scientist • Senior Scientific Editor
Education
Sapienza University of Rome
PhD, Pasteurian Sciences / January, 2011
Sapienza University of Rome
Master, Medical, Molecular and Cellular Biotechnology / October, 2006
Sapienza University of Rome
Bachelor, Biotechnology / October, 2004
Experience
Springer Nature
Associate/Senior Editor / June, 2021 — February, 2024
Helped shape and launch a new journal, Nature Cardiovascular Research, which publishes exceptional advances in the fields of cardiac, vascular, and blood biology, covering fundamental, translational, clinical, and public health research. • Assessed the novelty and impact of manuscripts within all the topics covered by the journal and chaperoned the whole revision process until acceptance for over 40% of all the content published by the journal since its start, with optimal processing times and excellent feedback from the authors. • Interfaced with scientists around the World, provided scientific guidance on how to improve manuscripts, or recommended more appropriate journals to publish with. Commissioned Comments, Reviews, News and Views on current topics, and summarized novel scientific findings in meaningful snippets and Research Highlights. • Contributed to the training and supervision of 2 Associate Editors; covered the Chief Editor's functions when needed.
Research Fellow/Associate Research Scientist / January, 2017 — June, 2021
• Analyzed the dynamic cellular changes during the fibrotic repair post-myocardial infarction, using cutting-edge techniques such as single-cell RNAseq with 10xChromium. Learned how to perform myocardial infarction in mice and assess the cardiac function via echography; analyze scRNAseq data using the Seurat package on R studio. • Completed a project aimed to characterize similarities and differences among fibroblasts from different organs cultured in the same conditions. Through cytometric, transcriptomic analysis, functional assays, shRNA and CRISPR-Cas9-mediated in vitro gene knockdowns we showed that fibroblasts isolated from different organs retain the expression of key transcription factors reflecting their embryological origin. • Collaborated with other laboratories in the Institute to design new mice models that could possibly recapitulate the symptoms of COVID-19; to analyze the response of mice with diverse genetic backgrounds to stressors.
Post-doctoral fellow/ Co-joint lecturer / May, 2013 — November, 2016
Developed projects aimed at understanding the embryological origin and function of a population of putative progenitor cells, cardiac colony forming unit fibroblasts cCFU-F, identified 2 years before in the lab (PMID: 22136928). • Performed cell lineage tracing and designed in vitro and in vivo cellular assays to assess the functional and immunomodulatory properties of PDGFRa+ fibroblasts in homeostasis and post-myocardial infarction with or without treatment with the PDGF-AB ligands. The data, presented in 3 international conferences and included in a preprint manuscript, have supported the use of a short-term treatment with PDGF-AB in a preclinical model of acute myocardial infarction in pigs. • Co-supervised 2 Ph.D. students at University of New South Wales
Scientific Editor / March, 2024 — Present
Consultant freelancer position within a team of former journal editors and grants specialists • Helped scientists increase the impact of their science by providing advice, in-depth editing, and feedback on manuscripts.
Most Relevant Research Expertise
Other Research Expertise (24)
About
Most Relevant Publications (2+)
63 total publications
Human cardiosphere-seeded gelatin and collagen scaffolds as cardiogenic engineered bioconstructs
Biomaterials / Dec 01, 2011
Chimenti, I., Rizzitelli, G., Gaetani, R., Angelini, F., Ionta, V., Forte, E., Frati, G., Schussler, O., Barbetta, A., Messina, E., Dentini, M., & Giacomello, A. (2011). Human cardiosphere-seeded gelatin and collagen scaffolds as cardiogenic engineered bioconstructs. Biomaterials, 32(35), 9271–9281. https://doi.org/10.1016/j.biomaterials.2011.08.049
Biochemistry and biology: Heart-to-heart to investigate cardiac progenitor cells
Biochimica et Biophysica Acta (BBA) - General Subjects / Feb 01, 2013
Chimenti, I., Forte, E., Angelini, F., Messina, E., & Giacomello, A. (2013). Biochemistry and biology: Heart-to-heart to investigate cardiac progenitor cells. Biochimica et Biophysica Acta (BBA) - General Subjects, 1830(2), 2459–2469. https://doi.org/10.1016/j.bbagen.2012.08.004
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Shariq Usmani, PhD
Massachusetts General Hospital, Harvard Medical School
Education
University of Konstanz
PhD, Molecular and Cell Biology / May, 2011
Harvard University
Postdoctoral fellow, Virology/Immunology / 2019
Experience
Cabaletta Bio
Scientific Director / 2024 — Present
I lead a research team in the preclinical R&D organization at Cabaletta bio. I directly manage a talented group of Senior Scientists, Scientists and Research Associates to spearhead and drive innovation in cell therapies and biologics in autoimmune disease indications.
Sana Biotechnology
Principal Scientist / 2022 — 2023
As a team lead, I led efforts to establish in vivo genome editing platform, vector design/engineering and optimization, with a broader goal to develop innovative and effective genomic medicine for unmet medical needs.
Zohdan Bio
Consultant / 2024 — Present
Providing strategic support for all aspects of preclinical, R&D programs in gene therapy, genome editing and virology and immunology space.
Most Relevant Research Expertise
Other Research Expertise (9)
About
Most Relevant Publications (2+)
22 total publications
Peptide nanofibrils boost retroviral gene transfer and provide a rapid means for concentrating viruses
Nature Nanotechnology / Jan 20, 2013
Yolamanova, M., Meier, C., Shaytan, A. K., Vas, V., Bertoncini, C. W., Arnold, F., Zirafi, O., Usmani, S. M., Müller, J. A., Sauter, D., Goffinet, C., Palesch, D., Walther, P., Roan, N. R., Geiger, H., Lunov, O., Simmet, T., Bohne, J., Schrezenmeier, H., … Münch, J. (2013). Peptide nanofibrils boost retroviral gene transfer and provide a rapid means for concentrating viruses. Nature Nanotechnology, 8(2), 130–136. https://doi.org/10.1038/nnano.2012.248
Atomic force microscopy of microvillous cell surface dynamics at fixed and living alveolar type II cells
Analytical and Bioanalytical Chemistry / Nov 30, 2010
Hecht, E., Usmani, S. M., Albrecht, S., Wittekindt, O. H., Dietl, P., Mizaikoff, B., & Kranz, C. (2010). Atomic force microscopy of microvillous cell surface dynamics at fixed and living alveolar type II cells. Analytical and Bioanalytical Chemistry, 399(7), 2369–2378. https://doi.org/10.1007/s00216-010-4407-z
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Subdisciplines
- biochemistry (340 public profiles)
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- biomedical engineering (163 public profiles)
- biomaterials (116 public profiles)
- drug discovery (107 public profiles)
- neuroscience (106 public profiles)
- neurology (clinical) (89 public profiles)
- neurology (76 public profiles)
- structural biology (74 public profiles)
- cellular and molecular neuroscience (72 public profiles)
- clinical biochemistry (67 public profiles)
- applied microbiology and biotechnology (65 public profiles)
- behavioral neuroscience (57 public profiles)
- developmental neuroscience (36 public profiles)
- complementary and alternative medicine (34 public profiles)
- pulmonary and respiratory medicine (30 public profiles)
- radiation (27 public profiles)
- radiological and ultrasound technology (25 public profiles)
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- normal tissue toxicity (1 public profile)