Carol L. Thompson, Ph.D.
Senior Manager, Data Management
Carol Thompson has provided scientific leadership and management at the Allen Institute for Brain Science for the past 15 years. In the early days, as a follow-on to the Allen Mouse Brain Atlas, she oversaw from concept to execution, the Allen Developing Mouse Brain Atlas, a resource characterizing gene expression from the embryonic brain to the adult, and the Sleep Study, a resource that explores the many dynamic changes in gene expression induced by sleep deprivation. Beyond that, Carol has managed the build of integrated pipelines for high throughput generation of biological datasets, including hardware and software integration for neurophysiology, including calcium imaging and Neuropixels silicon probes, as well as for transcriptomics profiling and stem cell engineering, culminating in freely available community resources for neuroscience. As the Program and Project Manager, she has supported the creation of the Allen Brain Observatory, a data resource for cellular physiological responses to visual input, and its sister project, OpenScope, which generates datasets based on proposals from the community.
Carol is interested in the power of projects that lie at the intersection of big data, biology and computation. She is currently coordinating community-generated data for the Brain Cell Data Center as part of the BRAIN Initiative Cell Census Network (BICCN) and she hopes to serve as a point of harmonization between BCDC data and other consortium data projects and standards efforts. Carol holds a BS in Biology from the University of Richmond and a PhD in Biochemistry from the University of North Carolina at Chapel Hill, where she studied cryptochromes under the guidance of Nobel laureate Aziz Sancar, MD, PhD.
Research Interests From a broad perspective, I am interested in the power of projects that lie at the intersection of big data, biology and computation. To make an impact, data must be useful, and this requires that we understand how to interpret data in the context of its provenance, the complexity of biology, and the limitations of our current knowledge and available assays. I hope to support continuing integration of data from many sources to understand cell types and their function in the brain, and value interactions with efforts by the scientific community to harmonize efforts and extend the life and utility of the data to support deep understanding and continuing discoveries about the complex organ that makes us truly human: the brain.
- Program Management
- Hardware and software integration projects
- Project Lifecycle Management
- Strategic and Tactical Planning
- Gene Expression Profiling
- Developmental Neurobiology
- Sleep and Circadian Rhythms
- Stem Cell Biology
- DNA Repair
- Data Analysis
Selected Publications View Publications
May 1, 2019
Waters J, Lee E, Gaudreault N, Griffin F, Lecoq J, Slaughterbeck C, Sullivan D, Farrell C, Perkins J, Reid D, Feng D, Graddis N, Garrett M, Li Y, Long F, Mochizuki C, Roll K, Zhuang J, Thompson C
December 16, 2019
de Vries S, Lecoq J, Buice MA, Groblewski PA, Ocker GK, Oliver M, Feng F, Cain N, Ledochowitsch P, Millman D, Roll K, Garrett M, Keenan T, Kuan L, Mihalas S, Olsen S, Thompson C, Wakeman W, Waters J, Williams D, Barber C, Berbesque N, Blanchard B, Bowles N, Caldejon S, Casal L, Cho A, Cross S, Dang C, Dolbeare T, Edwards M, Galbraith J, Gaudreault N, Griffin F, Hargrave P, Howard R, Huang L, Jewell S, Keller N, Knoblich U, Larkin J, Larsen R, Lau C, Lee E, Lee F, Leon A, Li L, Long F, Luviano J, Mace K, Nguyen T, Perkins J, Robertson M, Seid S, Shea-Brown E, Shi J, Sjoquist N, Slaughterbeck C, Sullivan D, Valenza R, White C, Williford A, Witten D, Zhuang J, Zeng H, Farrell C, Ng L, Bernard A, Phillips JW, R Reid C, Koch C
Nucleic Acids Research
November 28, 2012
Sunkin SM, Ng L, Lau C, Dolbeare T, Gilbert TL, Thompson CL, Hawrylycz M, Dang C
Journal of Comparative Neurology
June 22, 2011
Boyle MP, Bernard A, Thompson CL, Ng L, Boe A, Mortrud M, Hawrylycz MJ, Jones AR, Hevner RF, Lein ES
Frontiers in Neuroscience
October 21, 2010
Thompson CL, Wisor JP, Lee C, Pathak SD, Gerashchenko D, Smith KA, Fischer SR, Kuan CL, Sunkin SM, Ng LL, Lau C, Hawrylycz M, Jones AR, Kilduff T, Lein ES
March 18, 2008
Lau C, Ng L, Thompson C, Pathak S, Kuan L, Jones A, Hawrylycz M
December 26, 2008
Thompson CL, Pathak SD, Jeromin A, Ng LL, MacPherson CR, Mortrud MT, Cusick A, Riley ZL, Sunkin SM, Bernard A, Puchalski RB, Gage FH, Jones AR, Bajic VB, Hawrylycz MJ, Lein ES