Innovation and Collaboration Grants

Salk Institute for Biological Studies - Innovation and Collaboration Grants

Innovation Grants

Salk’s Innovation Grants program, launched in 2006 from the forward-thinking minds of then-Board chair Irwin Jacobs and his wife Joan, embodies the vision and spirit of the Institute that bears Jonas Salk’s name. The Innovation Grants Program is designed to fund out-of-the-box ideas that hold significant promise but may not yet have the track record to attract attention from more traditional funding sources.

“When we first started the program, our hope was that it would increase support of the Institute in two key ways,” say the Jacobs. “First, we wanted it to inspire others to support the program. Second, our hope was that as Salk brought in new faculty members those recruits would be able to generate additional grant monies to support their work. So far we have seen significant successes all around so that’s very encouraging.”

The Jacobs’ commitment of $8 million since the start of the Innovation Grants Program helped Salk secure additional philanthropic contributions from the Rose Hills Foundation, James Melcher and April Benasich, Fondation Ipsen, and Elizabeth Keadle. Since then, Salk researchers have gone on to leverage the early results from the Innovation Grants funded research to access more substantial investments from the National Institutes of Health (NIH) BRAIN Initiative, the Keck Foundation and other prominent grant-makers.

Awarded semi-annually by peer review, Salk’s Innovation Grants Program is critical to catalyzing emerging science with the power to redefine the future. Akin to a petri dish for growing and testing new ideas that might otherwise never see the light of a lab, the program has prompted a host of discoveries. The most recent class of recipients are evidence of the continued impact Innovation Grants awards have on Salk research.

2023 Collaboration Grant

Scientists are using artificial intelligence (AI) to assist with the clinical diagnosis of cancer through video-based imaging, offering a non-invasive option for predicting the trajectory of cancer progression from body language. Professor Christian Metallo, Assistant Professor Dannielle Engle, and Salk Fellow Talmo Pereira believe the use of AI can greatly improve how we measure the health status of animals receiving cancer treatment. The team will build AI-based models to relate changes in mouse behavior and diet to pancreatic cancer progression and whole-body physiology. Their findings will further AI application in cancer treatment while improving our scientific understanding of diet and chemotherapy, key factors important to all cancer patients.

2023 Innovation Grant

Within the nucleus of the cell, DNA is wrapped around specialized packaging proteins called histones to form chromatin fibers. Within chromatin, both the DNA and histone components can be modified by the attachment of small chemical tags to affect the level of chromatin compaction and the expression of underlying genes. In addition, some of these modifications can alter the 3D organization of chromatin within the nucleus. To better understand the connections between chromatin modifications, genome organization, and gene regulation in plants, Associate Professor Julie Law and Assistant Professor Jesse Dixon will use a genomic analysis technique called Hi-C to explore how genetically altered chromatin states impact genome organization.

2022 Collaboration Grant

Salk Professor Janelle Ayres recently discovered that uninfected animals respond differently to an infection depending on whether they had previously interacted with asymptomatic or symptomatic infected group mates. Ayres will now collaborate with Salk Professors Joseph Noel and Christian Metallo to determine if asymptomatic and symptomatic individuals emit different chemicals—signals that help group mates respond to the infection. The new team will combine expertise in animal physiology, evolutionary theory and infectious diseases with metabolic biochemistry and mass spectrometry. The methods they develop may help diagnose community spread of infectious diseases and develop new treatments based on emitted chemicals.

2022 Innovation Grants

Not everything is written in our genes—after genes are translated into proteins, cells still modify those proteins to regulate function. Salk Professor Tony Hunter discovered that cells sometimes add a phosphate group—a chemical tag—to a protein component called tyrosine. This event, tyrosine phosphorylation, drives critical cell communications and often malfunctions in cancer. Now it’s emerging that phosphorylated histidine (pHis), another protein component, may play similar roles. Hunter’s lab generated the first antibodies recognizing pHis. Now they will engineer antibodies for higher binding affinity towards pHis proteins and use them to probe pHis function in health and disease.

It’s long been accepted that a single neuron can send only one type of signal, but recent studies have shown that single neurons can store two different pools of transmitters. Assistant Professor Sung Han will explore how single neurons orchestrate the release of different transmitters—glutamate vs. neuropeptides, for example. With this idea, he and his lab are currently investigating the neuronal coding logic of transmitter co-transmission to encode various information. These studies will transform the field’s current understanding of neuronal communication.

Plants use sensory proteins to detect and respond to touch signals from animals and neighboring plants. Professor Joanne Chory, Associate Professor Sreekanth Chalasani and Staff Scientist Carl Procko will investigate these proteins to see if they are sensitive to high-frequency sound waves. The work could help scientists modify how plants behave in the presence of other plants and contribute to the growing body of research on “sonogenetics,” a method Chalasani developed for non-invasively controlling cells with sound waves. Their findings could also lead to new ways for treating conditions like chronic pain, epilepsy and PTSD.

The ease with which researchers can track body parts in motion, such as hands and feet, has improved in recent years due to advances in machine learning and computer vision. However, these methods still require researchers to manually label each body part, which is time-consuming and increasingly impractical as the number of labels on the body grows. Assistant Professor Eiman Azim is now developing automated approaches to simultaneously track hundreds to thousands of points on the body. These methods will provide better ways to examine how brains control movement and insights into how neurodegenerative disease and injury disrupt behavior.

2021 Collaboration Grants

Aging is associated with dysfunctional immune responses, but no one knows the initiating events behind these processes. Professor Susan Kaech, Associate Professors Diana Hargreaves and Ye Zheng, and Assistant Professor Jesse Dixon believe epigenetic influences are particularly vulnerable to age and that many of the age-related changes in immune function and inflammation stem from epigenetic dysfunction. They will determine the effects of age on these factors during a viral infection, identify key factors in aging-associated decline in immunity, and facilitate efforts to improve immune response in older patients.

ALS is hallmarked with delayed adult onsets at unpredictable sites followed by devastating and progressive spread. Professors Sam Pfaff and Axel Nimmerjahn, Associate Professor Nicola Allen, and Assistant Professor Eiman Azim believe that disease onset is accelerated or triggered by secondary environmental insults. An understanding of these environmental interactions could lead to avenues that would delay ALS onset so they are investigating how genetic models of ALS react to these environmental insults, which will begin to define how genetic predisposition and secondary environmental events converge to trigger ALS.

2021 Innovation Grants

The Chalasani lab is seeking to understand how animals make decisions. Associate Professor Sreekanth Chalasani and graduate student Jess Haley will use a novel microscopy system to record the activity of most, if not all, neurons in the C. elegans “brain” as it learns, remembers and makes decisions. They will discover neuronal changes associated with each of these three phenomena (learning, memory and decision-making), providing a framework for analyzing more complex brains.

RNA Polymerase III (Pol III) mutations cause hypomyelinating leukodystrophy (HMLD), a fatal neurodegenerative disease caused by defective CNS nerve myelination. In yeast, conserved Pol III HMLD disease mutations cause growth defects, which are rescued by inhibiting the sumoylation pathway. Professor Tony Hunter’s lab will investigate if Pol III mutant-derived neurodegenerative phenotypes are recapitulated in human neural cells and in animal models, and, if so, how the sumoylation pathway contributes to such phenotypes. This would implicate sumoylation as a target for rescue of Pol III-related neurodegenerative diseases.

Intercellular interactions activate signaling pathways and cause phenotypic changes. The Wahl lab suspects such interactions contribute to cancer metastasis, a deadly killer of cancer patients, yet there are no methods to track the constellation of cells that a cancer cell interacts with in the metastatic niche. Professor Geoffrey Wahl, postdoctoral researcher Nikki Lytle and project scientist Leo Li will develop Contact Tracing, an innovative tool to indelibly label interacting cells for subsequent identification, isolation and analysis. This may reveal cellular relationships that drive metastatic progression.

2020 Collaboration Grants

Professors John ReynoldsJuan Carlos Izpisua Belmonte and Rusty Gage will examine the hallmarks of aging in animal models to determine whether mobile DNA elements, called LINE1 retrotransposons, can be manipulated to slow or reverse aging to create an innovative healthy aging intervention.

Professor Martyn Goulding, Associate Professor Axel Nimmerjahn and Assistant Professor Sung Han will investigate how sensory signals from the skin, the biggest sensory organ, are processed as they travel to the brain. The project will potentially reveal new targets for sensory dysfunction, which can occur with chronic pain and autism spectrum disorders.

2020-2021: Rose Hills Foundation Innovation Grant Program Awardee:

Assistant Professor Dannielle Engle was named The Rose Hills Foundation’s 2020-2021 Innovator Grant Program awardee. The award provides $100,000 for Engle to investigate how the sugar CA19-9 makes pancreatic cancer more aggressive, increases metastatic spread, and interacts with metastatic sites. As most pancreatic cancer patients are diagnosed with metastatic disease, blocking CA19-9 interactions may intercept metastatic spread.

2020 Innovation Grants

One of the holy grails of circadian biology research is to understand what determines whether an animal is active during the day (diurnal) or active during the night (nocturnal). To begin to answer this question, Professor Satchidananda Panda will measure changes in hormones and gene activity as two species of animals— the owl monkey and mouse—switch between diurnal and nocturnal lifestyles. One potential outcome of this work will be strategies for improving the health and life quality of shift workers, a growing fraction of the worldwide workforce.

The RAS protein is frequently mutated in some of the most difficult to treat cancers, including lung and colon. To better understand the contribution of RAS to cancer, Assistant Professor Edward Stites will activate a particularly deadly version of RAS in the microscopic worm C. elegans, a widely used model organism. Subsequent genetic and chemical screens will help to reveal new drugs and therapeutic strategies for treating RAS-associated cancers.

Cancer cells are metabolically greedy, which often leads to nutrient depletion within and around a tumor. Professor and Director of the NOMIS Center for Immunobiology and Microbial Pathogenesis Susan Kaech hypothesizes that this lack of nutrients starves immune cells that might otherwise recognize and eliminate the tumor. The team will map the nutrient landscape of different tumors, with the goal of identifying specific nutrients (metabolites) that boost immune cell effectiveness. Results will help to improve current anti-cancer immunotherapies.

2019-2020: Rose Hills Foundation Innovation Grant Program Awardee:

Assistant Professor Kenta Asahina was named The Rose Hills Foundation’s 2019-2020 Innovator Grant Program awardee, in coordination with Salk’s Innovation Grants Program. The award provides $100,000 for Asahina to explore a novel approach to studying aging. Asahina, who is holder of The Helen McLoraine Developmental Chair in Neurobiology, will study how the nervous system can contribute to lifespan difference between sexes. Females in many animal species, including humans, live longer than males. Asahina’s work aims to provide a novel paradigm for studying aging, with a potential to understand the biological mechanisms that specify human lifespan.

July 2019: Salk Collaboration Grants

Professors Ronald Evans and Susan Kaech and Associate Professor Ye Zheng, will lead a team in exploring if a healthy diet and exercise reduces levels of inflammation and renders tumor cells more sensitive to the immune system, with the goal of expanding the efficacy of immunotherapies.

Professors Alan Saghatelian, Joseph Noel and Jan Karlseder will undertake a multi-pronged approach to develop small-molecule inhibitors of the DNA repair regulator CYREN, with the goal of specifically sensitizing tumor cells to genotoxic therapy.

December 2018: Innovation Grants Awardees

Professor Juan Carlos Izpisua-Belmonte of the Gene Expression Laboratory seeks to determine whether trans-generational epigenetic inheritance can take place in mammals. If possible, this would mean that the experiences that have shaped the genetic expression of parents (e.g., adaptations to environmental challenges) could be passed to children—a significant question in evolutionary biology which remains unanswered.

Associate Professor Sreekanth Chalasani of the Molecular Neurobiology Laboratory alongside Research Associate Chen-Min Yeh and Staff Scientist Gerald Pao seek to answer the question of whether or not brain activity can be used to control a robot. They will leverage advanced live microscopy techniques, in addition to supercomputer technology, to see whether or not the brain activity of zebrafish larvae can control a fish robot.

Professor and Laboratory Head David Schubert of the Cellular Neurobiology Laboratory will work with Staff Scientist Antonio Currais to identify new drug candidates for Alzheimer’s disease using screens for mitochondrial dysfunction. Specifically, they will look at a large library of plant extracts that have pharmacological value to see any have protective traits that are able to preserve mitochondrial function—one of the earliest clinical challenges in Alzheimer’s.

Joseph Ecker, a Professor in the Plant Molecular and Cellular Biology Laboratory and the Director of the Genomic Analysis Laboratory, is working to develop a method that allows researchers to record the transcriptional activity within a cell into the genetic code so that they can analyze the cascade of transcriptional events that occur during an organism’s development as well as cell reprogramming.

Professor Edward Callaway in the Systems Neurobiology Laboratory is undertaking a project that will develop innovative methods for flexible, high-throughput analysis of specific brain-cell types across any species, including humans, that can identify the genetic enhancers that restrict expression of genes that have been passed from one cell (or whole organism) to another.

July 2018: Rose Hills Foundation Innovation Grant Awardee

Xin Jin, an associate professor, will explore how networks of neurons communicate with one another to relay messages from the brain to the limbs. His lab uses research techniques in novel combinations to discover previously unknown connections between brain regions and how they contribute to movement control. Jin’s work may lead to new avenues for treating disorders such as Parkinson’s disease.

July 2018: Innovation Grants Awardees

Thomas Albright, professor and director of the Vision Research Laboratory, will work with Staff Scientist Sergei Gepshtein to investigate the neurological basis of how individuals recognize others, which could lead to better ways to identify suspects during criminal investigations. The goal is to help reduce cases where innocent people are misidentified during lineups.

Wolfgang Busch, associate professor, Uri Manor (core director, Waitt Advanced Biophotonics Core) and Saket Navlakha (assistant professor) will explore the biological algorithms that guide how plants grow and pattern their root systems in search of nutrients. This research may uncover how plants can efficiently find water and other elements in the soil, advancing Salk’s efforts to engineer plants capable of surviving increasingly erratic climate patterns.

Jesse Dixon, a Helmsley-Salk Fellow, is exploring how mutations in individual cells can lead to the development of cancer. His team seeks to understand tumors’ evolutionary histories and potentially reveal new strategies that can halt tumor progression by interrupting the evolution of cells from normal to cancerous.

Susan Kaech, professor and director of the NOMIS Center for Immunobiology and Microbial Pathogenesis, and Ronald Evans, professor and director of the Gene Expression Laboratory and a Howard Hughes Medical Institute investigator, will embark on a study of lipid metabolism as a weapon in the fight against pancreatic cancer, a notoriously difficult-to-treat disease.