See what our members have published


Phytochemical drug discovery for COVID-19 using high-resolution computational docking and machine learning assisted binder prediction.
Wang, Zirui & Belecciu, Theodore & Eaves, Joelle & Reimers, Mark & Bachmann, Michael & Woldring, Daniel.
Journal of Biomolecular Structure and Dynamics. 41. 1-21. 2022. 10.1080/07391102.2022.2112976.

Sketch of a novel approach to a neural model.
G. Scheler. arXiv preprint arXiv:2209.06865, 2022

In Vitro and In Vivo Analysis of Extracellular Vesicle‐Mediated Metastasis Using a Bright, Red‐Shifted Bioluminescent Reporter Protein.
Perez, Gloria & Broadbent, David & Zarea, Ahmed & Dolgikh, Benedikt & Bernard, Matthew & Withrow, Alicia & McGill, Amelia & Toomajian, Victoria & Thampy, Lukose & Harkema, Jack & Walker, Joel & Kirkland, Thomas & Bachmann, Michael & Schmidt, Jens & Kanada, Masamitsu.
Advanced Genetics. 3. 2022. 10.1002/ggn2.202270011.

Microvesicle-Mediated Delivery of Minicircle DNA Results in Effective Gene-Directed Enzyme Prodrug Cancer Therapy.
Kanada, Masamitsu & Kim, Bryan & Hardy, Jonathan & Bachmann, Michael & Bernard, Matthew & Perez, Gloria & Zarea, Ahmed & Ge, T & Withrow, Alicia & Ibrahim, Sherif & Toomajian, Victoria & Gambhir, Shweta & Paulmurugan, Ramasamy & Contag, Christopher & Ronald, John.
Molecular Cancer Therapeutics. 18. molcanther.0299.2019. 2019. 10.1158/1535-7163.MCT-19-0299.

Localist plasticity identified by mutual information.
G Scheler, J Schumann. 2019. bioRxiv, 658153

Neuromodulation influences synchronization and intrinsic read-out.
G Scheler. F1000Res. 2018; 7: 1277. doi: 10.12688/f1000research.15804.2

An intravascular magnetic wire for the high-throughput retrieval of circulating tumour cells in vivo.
Vermesh, Ophir & Aalipour, Amin & Ge, T. & Saenz, Yamil & Guo, Yue & Alam, Israt & Park, Seung-min & Adelson, Charlie & Mitsutake, Yoshiaki & Vilches-Moure, Jose & Godoy, Elias & Bachmann, Michael & Ooi, Chin & Lyons, Jennifer & Mueller, Kerstin & Arami, Hamed & Green, Alfredo & Solomon, Edward & Wang, Shan & Gambhir, Shweta.
Nature Biomedical Engineering. 2. 2018. 10.1038/s41551-018-0257-3.

Logarithmic distributions prove that intrinsic learning is Hebbian.
G Scheler. F1000Res. 2017; 6: 1222. Published online 2017 Oct 11. doi: 10.12688/f1000research.12130.2

Local estrogen axis in the human bone microenvironment regulates estrogen receptor-positive breast cancer cells.
Amanatullah, Derek & Tamaresis, John & Chu, Pauline & Bachmann, Michael & Hoang, Nhat & Collyar, Deborah & Mayer, Aaron & West, Robert & Maloney, William & Contag, Christopher & King, Bonnie.
Breast Cancer Research. 19. 121. 10.1186/s13058-017-0910-x. 2017

Extreme pattern compression in lognormal networks.
G Scheler. F1000Research 6, 2016

Signaling by Extracellular Vesicles Advances Cancer Hallmarks
Kanada, Masamitsu & Bachmann, Michael & Contag, Christopher. 2016.

Methods for Culturing Human Femur Tissue Explants to Study Breast Cancer Cell Colonization of the Metastatic Niche.
Templeton, Zachary & Bachmann, Michael & Alluri, Rajiv & Maloney, William & Contag, Christopher & King, Bonnie. Journal of Visualized Experiments. 10.3791/52656. 2015.

Simultaneous Metabolite, Protein, Lipid Extraction (SIMPLEX): A Combinatorial
Multimolecular Omics Approach for Systems Biology.
Coman C, Solari FA, Hentschel A, Sickmann A, Zahedi RP, Ahrends R.
Mol Cell Proteomics. 2016 Apr;15(4):1453-66. doi: 10.1074/mcp.

Controlling low rates of cell differentiation through noise and ultrahigh feedback.
Ahrends R, Ota A, Kovary KM, Kudo T, Park BO, Teruel MN.
Science. 2014 Jun 20;344(6190):1384-9. doi: 10.1126/science.1252079.

Parallel adaptive feedback enhances reliability of the Ca2+ signaling system.
Abell E, Ahrends R, Bandara S, Park BO, Teruel MN.
Proc Natl Acad Sci U S A. 2011 Aug 30;108(35):14485-90. doi: 10.1073/pnas.1018266108. Epub 2011 Aug 15.

Self-organization of signal transduction.
Scheler G.
F1000Res. 2013 Apr 23;2:116. doi: 10.12688/f1000research.2-116.v1

Learning intrinsic excitability in medium spiny neurons
Scheler G.
F1000Res. 2013 Mar 14 [revised 2014 Feb 26];2:88. doi: 10.12688/f1000research.2-88.v2

Differential fates of biomolecules delivered to target cells via extracellular vesicles.
Kanada M, Bachmann MH, Hardy JW, Frimannson DO, Bronsart L, Wang A, Sylvester MD, Schmidt TL, Kaspar RL,
Butte MJ, Matin AC, Contag CH.
Proc Natl Acad Sci U S A. 2015 Mar 24;112(12):E1433-42. doi: 10.1073/pnas.1418401112

Longitudinal, noninvasive imaging of T-cell effector function and proliferation in living subjects
Patel MR, Chang YF, Chen IY, Bachmann MH, Yan X, Contag CH, Gambhir SS.
Cancer Res. 2010 Dec 15;70(24):10141-9. doi: 10.1158/0008-5472

Kinetic pathway of 40S ribosomal subunit recruitment to hepatitis C virus internal ribosome entry site.
Fuchs G, Petrov AN, Marceau CD, Popov LM, Chen J, O’Leary SE, Wang R, Carette JE, Sarnow P, Puglisi JD.
Proc Natl Acad Sci U S A. 2015 Jan 13;112(2):319-25. doi: 10.1073/pnas.1421328111

Proteomic analysis of ribosomes: translational control of mRNA populations by glycogen synthase GYS1.
Fuchs G, Diges C, Kohlstaedt LA, Wehner KA, Sarnow P.
J Mol Biol. 2011 Jul 1;410(1):118-30. doi: 10.1016/j.jmb.2011.04.064

A computer vision system for rapid search inspired by surface-based attention mechanisms from human perception.
Mohr J, Park JH, Obermayer K.
Neural Netw. 2014 Dec;60:182-93. doi: 10.1016/j.neunet.2014.08.010.

How adaptation currents change threshold, gain, and variability of neuronal spiking.
Ladenbauer J, Augustin M, Obermayer K.
J Neurophysiol. 2014 Mar;111(5):939-53. doi: 10.1152/jn.00586

On Expression Patterns and Developmental Origin of Human Brain Regions.
Kirsch L, Chechik G.
PLoS Comput Biol. 2016 Aug 26;12(8):e1005064. doi: 10.1371/journal.pcbi.1005064

Predicting protein-protein interactions in the post synaptic density.
Bar-shira O, Chechik G.
Mol Cell Neurosci. 2013 Sep;56:128-39. doi: 10.1016/j.mcn.2013.04.004

Disentangling giant component and finite cluster contributions in sparse random matrix spectra.
Kühn R.
Phys Rev E. 2016 Apr;93:042110. doi: 10.1103/PhysRevE.93.042110.

Distance distribution in configuration-model networks.
Nitzan M, Katzav E, Kühn R, Biham O.
Phys Rev E. 2016 Jun;93(6):062309. doi: 10.1103/PhysRevE.93.062309

A mathematical model for chronic myelogenous leukemia (CML) and T cell interaction.
Moore H, Li NK.
J Theor Biol. 2004 Apr 21;227(4):513-23.