Benjamin P. Bowen and Oliver Rübel, "OpenMSI has been selected as one of the 100 most technologically significant new products of the year in Software/Services by the prestigious R&D100 awards.", November, 2015. The complete list of 2015 award winners is available here.


Curt R. Fischer, Oliver Rübel, and Benjamin P. Bowen, "An accessible, scalable ecosystem for enabling and sharing diverse mass spectrometry imaging analyses" Archives of Biochemistry and Biophysics, Sept. 2015, DOI: 10.1016/ [BibTeX][Online at Science Direct]

Jiyan Yang, Oliver Rübel, Prabhat, Micheal W. Mahoney, and Benjamin P. Bowen, "Identifying important ions and positions in mass spectrometry imaging data using CUR matrix decompositions" Analytical Chemistry 2015 (pre-print March 31, 2015), DOI: 10.1021/ac5040264. [Online at ACS]

Oliver Rübel, Annette Greiner, Shreyas Cholia, Katherine Louie, E. Wes Bethel, Trent R. Northen, and Benjamin P. Bowen, "OpenMSI: A High-Performance Web-Based Platform for Mass Spectrometry Imaging" Analytical Chemistry 2013 85 (21), 10354-10361, DOI: 10.1021/ac402540a. [BibTeX][Online at ACS]


Oliver Rübel and Benjamin P. Bowen, "Visualization and analysis of mass spectrometry imaging data in OpenMSI with BASTet" DOE Computer Graphics Forum (DOECGF) 2016, Apr. 26 - 28, 206 at Asilomar, Pacific Grove, CA (Talk)

Jiyan Yang, Jey Kottalam, Mohitdeep Singh, Oliver Rübel, Curt Fischer, Benjamin P. Bowen, Michael W. Mahoney, Prabhat, "Implementing Randomized Matrix Algorithms in Spark," 8th Extremely Large Databases Conference and Workshop (XLDB 2015), May 19-21, 2015, Stanford University, Stanford, California (Poster)

Oliver Rübel, "Mass Spectrometry Imaging in the World of Modern Data Sciences," LBNL BioImaging Seminar Series, Feb. 05, 2014. (Talk)

Oliver Rübel, Annette Greiner, Shreyas Cholia, Katherine Louie, E. Wes Bethel, Trent R. Northen, and Benjamin P. Bowen, "OpenMSI: Advanced visualization, analysis and management of mass spectrometry imaging data via the web," DataScience Faire, Dec.12, 2013, Berkeley CA, USA. (Poster)

Prabhat, Jon McAuliffe, Michael Mahoney, Ryan Adams, Aydin Buluc, Fritz Sommer, Benjamin P. Bowen, Brenton Partridge, Jeffrey Regier, Oren Rippel, Oliver Ruebel, Urs Koster, Albert Wu, Jiyan Yang, Peter Nugent, David Schlegel, Craig Tull, Michael Wehner, Yushu Yao, "MANTISSA: Massive Acceleration of New Techniques in Science with Scalable Algorithms," DataScience Faire, Dec.12, 2013, Berkeley CA, USA. (Poster)

Benjamin P. Bowen, "Coming to a hospital near you: mass spectrometry imaging," Science at the Theater: Eight Big Ideas, Oct. 28, 2013 (View the video on YouTube). (Talk)

Benjamin P. Bowen, "3D NIMS, kinetic MSI, and visualization of data via the web using OpenMSI," 3D-MASSOMICS Satellite Workshop at EuPA2013 Scientific Meeting, “3D IMAGING MASS SPECTROMETRY,” October 18, 2013 - Saint Malo, France. (Talk)

Benjamin P. Bowen, "OpenMSI: A Mass Spectrometry Imaging Science Gateway," NUG 2013 User Day: Trends, Discovery, and Innovation in High Performance Computing, Feb. 13, 2013. (Talk)

User Publications

Katherine Louie, Benjamin Bowen, Rebecca Lau, Trent Northen, "Localizing metabolic synthesis in microbial cultures with kinetic mass spectrometry imaging (kMSI), bioRxiv 050658; doi: [Online at bioRxiv]

Doralyn S. Dalisay, Kye Won Kim, Choonseok Lee, Hong Yang, Oliver Rübel, Benjamin P. Bowen, Laurence B. Davin, and Norman G. Lewis, "Dirigent Protein-Mediated Lignan and Cyanogenic Glucoside Formation in Flax Seed: Integrated Omics and MALDI Mass Spectrometry Imaging," Journal of Natural Products, DOI: 10.1021/acs.jnatprod.5b00023. [Online at ACS]

Leslie P Silva and Trent R Northen, “Exometabolomics and MSI: deconstructing how cells interact to transform their small molecule environment," Elsevier, Current Opinion in Biotechnology, 2015, 34 (0), 209 - 216. [Online at ScienceDirect]

Joaquim Jaumot and Romà Taulera, “Potential use of multivariate curve resolution for the analysis of mass spectrometry images, Analyst, The Royal Society of Chemistry, 2015 140 (3), 837-846. [Online at RSC]

M. Lagarrigue, R. Lavigne, E. Tabet, V. Genet, J.P. Thomé, K. Rondel, B. Guével, L. Multigner, M. Samson, C. Pineau "Localization and in situ absolute quantification of chlordecone in the mouse liver by MALDI imaging," Analytical Chemistry 2014 85 (22), 10856-10862. [Online at ACS][Data Online at OpenMSI]

Katherine B. Louie, Benjamin P. Bowen, Xiaoliang Cheng, James E. Berleman, Romy Chakraborty, Adam Deutschbauer, Adam Arkin, and Trent R. Northen, “Replica-Extraction-Transfer” Nanostructure-Initiator Mass Spectrometry Imaging of Acoustically Printed Bacteria, Analytical Chemistry 2013 85 (22), 10856-10862. [Online at ACS]

Bin Dong, Suren Byna, and John Wu, "Expediting Scientific Data Analysis with Reorganization," IEEE Cluster 2013 [Online at]