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Pilot Grant Program



In order to enhance basic science, translational, and clinical studies on the CU Anschutz Campus, the RNA Bioscience Initiative (RBI) supports RNA biology research, particularly RNA-seq and other informatic intensive, cutting-edge technologies via its Pilot Grant Program. The RBI requests applications for various grant types twice each year- spring and fall. Applications are invited for investigator-initiated pilot projects that will generate preliminary data to test the feasibility of novel avenues of research and will support future extramural grant applications. Awards may be in-kind or monetary depending on the studies proposed and the specific program to which you have applied.

Eligibility

  • Principal Investigators (PIs) for all awards must have faculty appointments at the University of Colorado, Anschutz Medical Campus and hold the rank of Assistant, Associate or Full Professor, Research Professor, or Instructor
  • Proposals must have an RNA-related research focus and may not describe the same specific research that is funded by other sources during the grant period

Application Requirements

  1. All applicants must submit a Letter of Intent to this form by the deadline posted in the relevant RFA.
  2. Full applications must be submitted by the deadline posted in the relevant RFA and include the following components:
    1. Brief Cover Letter stating the title of the proposal, describing the value of the project, and confirming that all collaborators listed on the application agree with the proposal
    2. Research Proposal consisting of no more than 1 page in standard NIH grant application format- specific aims, background and broader impact, and research plan.
    3. Current NIH biosketch for all named PIs
  3. All components of the final application should be submitted using the OpenWater Application & Review Platform. A link to the OpenWater Application will only be provided to those that submit a Letter of Intent.

Selection of Awardees

A peer review panel composed of faculty with a range of expertise will be responsible for award decisions, evaluating eligible applications competitively

The primary factors in award decisions will be the scientific merit of the proposed research, the likelihood to “seed” eventual R series-level or equivalent extramural funding, and the long-term promise of the proposed research

No critiques will be provided to applicants

Applicants will be informed with a review response of “Funded”, “Not funded” or “Not eligible”

Grant Recipient Requirements

RBI grant recipients are expected to become active members of the University of Colorado RNA research community. Both the PIs and those working on funded projects are required to:

  1. Acknowledge RBI support on publications that result from the award
  2. Self-identify in “Affiliations” as a member of the RBI on publications that result from the award
  3. For all bioinformatics support, include the RBI fellows as authors on publications that result from the award
  4. Use awarded funds solely to support the RNA research described in the proposal
  5. Provide a progress report to the RBI 30 days after the end of funding year
  6. Attend/Present at “Evenings with RNA” co-hosted by the RBI and the Colorado RNA Club, and at other RBI sponsored RNA events

RBI Pilot Grant Awardees

RECIPIENT

DEPARTMENT

AWARD

PROJECT

David Bentley

BMG

RNA-seq

Determination of nascent RNA folding in vivo by psoralen cross-linking

James Maloney

Medicine- Pulmonary Sciences and Critical Care

RNA-seq

Gene expression changes in human T-regs in response to the SARS-CoV-2 nsp15 protein

Tania Reis

Medicine- Endocrinology, Metabolism, and Diabetes

RNA-seq

Dissecting m6A's role in metabolism

Chandra Tucker 

Pharmacology

RNA-seq

Probing RNA transcriptional responses to sudden appearance or dissolution of biomolecular condensates

Ethan Hughes

CDB

scRNA-seq

Determine the transcriptomics profile of mature oligodendrocytes participating in remyelination

Elena Hsieh

Pediatrics-Allergy/Immunology

scRNA-seq

Understanding SARS-CoV-2 B cell responses derived from COVID-19 immunization

Suja Jagannathan

BMG

scRNA-seq

Singe cell long-read CaptureSeq to characterize isoform structure of DUX4 transcripts

Matt Kennedy

Pharmacology

scRNA-seq

Profiling amyloid-beta binding cells of the central nervous system

Tem Morrison

Immunology and Microbiology

scRNA-seq

Mechanisms of chronic chikungunya virus infection and joint disease

Holger Russ

BDC; Immunology and Microbiology

scRNA-seq

Cellular heterogeneity and function in thymi of patients with Down syndrome

Charles Sagerstrom

Pediatrics-Developmental Biology

scRNA-seq

Adaptation of single-cell calling card technology to test TF function in zebrafish embryogenesis

Rebecca Schweppe

Medicine- Endocrinology, Metabolism, and Diabetes

scRNA-seq

Deregulation of the transcriptome promotes the transformation of anaplastic thyroid cancer

Lori Sussel

BDC

scRNA-seq

Identification of pancreatic islet cell-type specific splicing events

Benjamin Bitler

OBGYN

Spatial Transcriptomics 

Spatial analysis of the ovarian cancer tumor microenvironment

Nicholas Foreman

Pediatrics-Hematology, Oncology, and Bone Marrow Transplantation 

Spatial Transcriptomics 

Spatial lineage trajectory analysis in childhood brain tumor medulloblastoma

Wendy Macklin

CDB

Spatial Transcriptomics 

Spatiotemporal analysis of microglial contribution to immune-mediated demyelinating lesion formation

Rebecca McCullough

Pharmaceutical Sciences

Spatial Transcriptomics 

The neuroimmune landscape of the aging brain: Dissecting the impact of alcohol

Julie Siegenthaler

Pediatrics- Developmental Biology

Spatial Transcriptomics 

Spatial transcriptomics to study mechanisms of meninges development

Carmen Sucharov

Medicine- Cardiology

Spatial Transcriptomics 

Spatial transcriptomics in the failing pediatric heart

Kelly Sullivan

Pediatrics- Developmental Biology

Spatial Transcriptomics 

Defining the impact of interferon receptor copy number on neuroinflammation in a mouse model of Alzheimer’s disease in Down syndrome

 

RECIPIENT

DEPARTMENT

AWARD

PROJECT

Kristin Artinger

Craniofacial Biology

RNA-seq

Using RNA-seq to identify molecular interactions among different cell populations during neural crest cell migration

Adela Cota-Gomez

Pulmonary Sciences and Critical Care 

RNA-seq

Nrf2 activator PB125 as a potential therapeutic agent against coronavirus (COVID related)

Tom Evans

CDB

RNA-seq

Discovering direct RNA targets of novel ncRNAs

Wendy Macklin 

CDB

RNA-seq

Developmental RNAseq analysis of the translatome in axons with conditional neuronal Raptor deletion

Nidia Quillinan 

Anesthesiology

RNA-seq

Distinct firing properties of thalamic neurons receiving cerebellar input

Olivia Rissland 

BMG

RNA-seq

COVID genomic sequencing and tracking

Rebecca Schweppe

Pathology

RNA-seq

Nuclear FAK alters the transcriptome to promote thyroid cancer growth and survival

Linda van Dyk

Barbara Davis Center

RNA-seq

Identification of host and viral ncRNA interatcing with La and RIF-I during gammaherpesvirus infection

Natalia (Maria) Vergara

Opthamology

RNA-seq

Unraveling the molecular basis of retinal abnormalities in Down syndrome

Quentin Vicens

BMG

RNA-seq

Using RNA-seq to determine the biological role of the Z-RNA binding domain of ADAR1 during the interferon response

Rocky Baker

Immunology and Microbiology

scRNA-seq

Combined TCR and gene expression profile of HIP-reactive T cells in islet grafts after induction of tolerance with 2.5HIP PLG-NPs

David Beckham

Infectious Disease

scRNA-seq

Defining innate immune responses to SARS-CoV2 with single cell resolution

Melanie Koenigshoff

Pulmonary Sciences and Critical Care

scRNA-seq

Unraveling the molecular mechanisms of distal lung epithelial stem cell impairment in COPD

Liyen Loh

Immunology and Microbiology

scRNA-seq

Deciphering the development of innate T cells in the human thymus 

James Nichols

Craniofacial Biology

scRNA-seq

Clonal dominance in appendage development 

Matthew Sikora

Pathology

scRNA-seq

Functional heterogeneity in estrogen receptor co-regulator activity

Mary Weiser-Evans

Renal Diseases and Hypertension

scRNA-seq

SMC-derived AdvSca-SM cell contribution to cardiac fibrosis

Timothy McKinsey

Cardiology

scRNA-seq

Exploring the therapeutic potential of HDAC inhibition in HFpEF

Howard Davidson

Barbara Davis Center

scTech Development

Monitoring alternative splicing in single human T cells by ScISOr-Seq plus

Peter Dempsey

Gastroenterology, Hepatology, and Nutrition

scTech Development

Population-based analysis of intestinal organoid heterogeneity using CellTagging and scRNAseq

James Dylewski

Renal Diseases and Hypertension

scTech Development

The role of FcRn in antigen presentation by glomerular endothelial cells in immune mediated kidney disease

Rachel Friedman

Barbara Davis Center

scTech Development

Myeloid cells in the islets

Kirk Hansen

BMG

scTech Development

Development of an ECM atlas to guide regenerative medicine therapies using MULTI-seq

Elena Hsieh

Pediatric Allergy and Immunology

scTech Development

Understanding IL-15/IL-2RB  interactions in a hypomorphic IL-2RB mouse model

Katja Kiseljak-Vassiliades

Endocrinology, Metabolism, and Diabetes

scTech Development

In situ reconstruction of distinct cell populations within the human adrenal gland

Christian Mosimann

Pediatrics

scTech Development

Charting cardiovascular progenitor clonality and developmental trajectories in toto 

Eric Pietras

Hematology

scTech Development

Clonal tracking and expression analysis in a mouse model of human clonal hematopoiesis of indeterminate potential (CHIP)

Stephen Santoro

Peds-Developmental Biology

scTech Development

Lineage tracing the odorant receptor fates of olfactory sensory neurons

Eszter Vladar

Pulmonary Sciences

scTech Development

WNT4 signaling specifies ciliated cell fate in the airway epithelium

Tuoqi Wu

Immunology and Microbiology

scTech Development

Identify the transcriptional and protein expression signatures of CAR T cells with long-term antitumor immunity using endogenous TCR sequences as molecular barcodes

RECIPIENT

DEPARTMENT

AWARD

PROJECT

Howard Davidson

Barbara Davis Center

Bioinformatics Support

Using CITE-seq to define immune biomarkers of the honeymoon period in type 1 diabetes

Matthew Taylor & Sharon Graw

Cardiology & Pathology

Bioinformatics Support

Transcriptome analysis of 1078 adult and pediatric heart samples

Joshua Black

Pharmacology

RNA Biology

Enrichment detection and discovery of repeat element-gene mRNA fusion transcripts

Tom Evans

Cell and Developmental Biology

RNA Biology

Control of RNP co-assembly dynamics in early development

Tania Reis

Endocrinology, Metabolism, and Diabetes

RNA Biology

Mechanisms of control of Drosophila fat storage by conserved RNA-binding protein Nito

Douglas Shepherd & Diego Restrepo

Pharmacology

RNA Biology

High-throughput spatial quantification of RNA expression in mouse olfaction after exposure to viral agents

Jianbin Wang

BMG

RNA Biology

Transcription and transcription-replication collision and R-loop formationduring programmed DNA elimination

Diana Cittelly

Pathology

RNA-seq

Transcriptional profile of reactive astrocytes at early and late stages of brain metastatic progression

Katherine Fantauzzo

Craniofacial Biology

RNA-seq

Srsf3-mediated alternative RNA splicing downstream of PDGFRalpha signaling in the palatal mesenchyme

Jeffrey Kieft

BMG

RNA-seq

Identification of cellular exoribonuclease-resistant RNAs by xrRNA-seq

Traci Lyons

Oncology

RNA-seq

Investigating SEMA7A-regulated mechanisms of endocrine resistance in ER+ breast cancer

Michael McMurray

CDB

RNA-seq

Defining the maternal contribution of RNAs in yeast gametes

Chad Pearson

CDB

RNA-seq

Identifying centriolar RNAs in Tetrahymena thermophila

Rytis Prekeris

CDB

RNA-seq

Identification of midbody-associated RNA

Eszter Vladar

Pulmonary Sciences

RNA-seq

Molecular, physiological and health outcome impacts of triple combination therapy in cystic fibrosis airway disease

Trevor Williams

Craniofacial Biology

RNA-seq

Functional analysis of differential splicing by Rbm10 – the gene mutated in human TARP Syndrome

Rocky Baker

Immunology and Microbiology

scRNA-seq

Monitor phenotype and TCR of HIP-reactive T cells over time in a subject at risk for T1D

Joseph Brzezinski

Opthamology

scRNA-seq

Regulation of human cone photoreceptor development

Eric Clambey

Anesthesiology

scRNA-seq

CD4 T cell lineage tracing by scRNA-seq

Nicholas Foreman

Pediatrics

scRNA-seq

To investigate the feasibility of single-nuclei RNAseq analysis of pediatric brain tumors

Dany Gaillard

CDB

scRNA-seq

Single cell RNA-seq of irradiated mouse CVP

Ross Kedl

Immunology and Microbiology

scRNA-seq

In search of Tvacs: single cell RNAseq comparison between vaccine-elicited and infection elicited CD8+ T cell responses

T. Rajendra Kumar

OB/GYN

scRNA-seq

Single cell RNA-seq analysis of pituitary gonadotropes

Wendy Macklin

CDB

scRNA-seq

scRNAseq of oligodendrocytes during development with conditional rictor deletion in neurons

Karen Moulton

Cardiology

scRNA-seq

Translating vascular cell phenotypes of human coronary artery disease

Holger Russ

Barbara Davis Center

scRNA-seq

Elucidating AIRE dependent expression of tissue-restricted antigens in stem cell derived organotypic thymus cultures from healthy and autoimmune patients

Daniel Sherbenou

Hematology

scRNA-seq

Tracking resistant multiple myeloma cells in residual disease by single-cell RNA-seq

Tamara Terzian

Oncology

scRNA-seq

Molecular determinants of lymphangiogenesis

RECIPIENT

DEPARTMENT

AWARD

PROJECT

Lori Sussel

Barbara Davis Center

Bioinformatics Support

Identification of IncRNAs associated with obesity-induced diabetes

Kristin Artinger & David Bentley

Craniofacial Biology & BMG

RNA-seq

Developmental control of co-transcriptional splicing in zebrafish

Sue Kinnamon

Otolaryngology

RNA-seq

Transcriptome analysis of GAD65-expressing taste receptor cells

Suchitra Rao

Infectious Diseases

RNA-seq

Measures of immune responses to influenza infection in children

Lori Sussel

Barbara Davis Center

RNA-seq

Determine the effect of zinc deficiency on the islet transcriptome

Yael Aschner

Pulmonary Sciences and Critical Care Medicine

scRNA-seq

Analysis of ARDS BAL

Matthew Burchill

Gastroenterology and Hepatology

scRNA-seq

Dissection of the T lymphocyte activation landscape in NASH

David Clouthier

Craniofacial Biology

scRNA-seq

A transcriptional code coordinates jaw development

Howard Davidson

Barbara Davis Center

scRNA-seq

Profiling T cell responses to low affinity polyclonal stimuli

Jonathan Kurche & David Schwartz

Pulmonary and Critical Care

scRNA-seq

Single nuclei RNA sequencing in idiopathic pulmonary fibrosis (IPF)

Hong Li and Eriv Van Otterloo

Craniofacial Biology

scRNA-seq

Redefining the ameloblast lineage

Martin McCarter

Surgical Oncology

scRNA-seq

Analysis of tumor infiltrating MDSCs in human melanoma

Joanna Poczobutt & Oliver Eickelberg

Pulmonary and Critical Care

scRNA-seq

The role of MZB1-positive plasma B cells in idiopathic pulmonary fibrosis

Beth Tamburini

Immunology

scRNA-seq

Transcriptional profiling of lymphatic endothelial cells and dedritic cells during antigen archiving exchange

Ivana Yang

Pulmonary and Critical Care

scRNA-seq

Characterization of bronchoalveolar lavage cell populations from patients with sarcoidosis

RECIPIENT

DEPARTMENT

AWARD

PROJECT

Steve Anderson

Pathology

Bioinformatics Support

Analysis of the role of glucose metabolism upon tumor-initiating cells

David Bentley

BMG

Bioinformatics Support

The development of a bioinformatics pipeline to characterize nascent RNA structure

Nicholas Foreman

Hematology

Bioinformatics Support

Single-cell mRNA seq analysis of pedatric brain tumors

Bernice Gitomer

Renal Medicine

Bioinformatics Support

Identification of the etiology of the bone defect in patients with autosomal dominant polycystic kidney disease (ADPKD)

Eva Grayck

Cardiovascular and Pulmonary 

Bioinformatics Support

Bioinformatic analysis of RNA sequencing data to interrogate the redox regulation of alveolar macrophage populations in acute lung injury

Craig Jordan

Hematology

Bioinformatics Support

Identification and characterization of drug-resistant subpopulations in AML

Elizabeth Wellberg

Pathology

Bioinformatics Support

Using gene expression profiles to predict obesity-associated breast cancer progression

Bruce Appel

Pediatrics, Stem Cell Biology

scRNA-seq

Single cell RNA-seq investigation of glial cell heterogeneity

Kristin Artinger

Craniofacial Biology

scRNA-seq

Single cell profiling of neural crest derived cancers

Linda Barlow

CDB

scRNA-seq

Single cell RNA-seq of Sox2-GFP lingual epithelial cells

Dick Davis

BMG

scRNA-seq

Single cell RNA-seq analysis of ascarsis development

Peter Dempsey

Gastroenterology, Hepatology, and Nutrition

scRNA-seq

Reversion of Defa4Cre-expressing Paneth cells to a stem cell state in response to intestinal injury

Robert Doebele

Oncology

scRNA-seq

Single cell analysis of oncogene-driven lung adenocarcinoma to determine mechanisms of residual disease following oncogene-targeted therapy

Patricia Ernst

Pharmacology

scRNA-seq

Enhancing hematopoietic stem cell emergence from pluripotent embryonic stem cells using MLL1 induction

James Nichols

Craniofacial Biology

scRNA-seq

Understanding jaw evolution by comparing craniofacial progenitor cells in lamprey and zebrafish

Holger Russ

Barbara Davis Center

scRNA-seq

Elucidating human beta cell subtype regulation and interconversion in health and disease

Howard Davidson

Barbara Davis Center

scRNA-seq

Single cell profiling in type 1 diabetes

Joan Hooper

CDB

scRNA-seq

Analysis of craniofacial development

Lori Sussel

Barbara Davis Center

scRNA-seq

Analysis of pancreatic progenitors

RECIPIENT

DEPARTMENT

AWARD

PROJECT

Erin Baschal

Orthopedics

Clinical

Comparison of facet joint cartilage RNA from adolescent idiopathic scoliosis patients and control individuals

Kathleen Connell

Urogynecology and Reconstructive Surgery

Clinical

Epigenetic and RNA expression profiles in women with pelvic organ prolapse

James Costello

Pharmacology

Clinical

RNA sequencing analysis of bladder cancer cell lines that localize to the lung and liver

Tom Evans

CDB

Seed Grant

Identification of novel RNA targets of sm-rings

Bernice Gitomer

Renal Diseases and Hypertension

Seed Grant

Prediction of the rate of autosomal dominant polycystic kidney disease progression based on circulating miRNA levels

Aaron Johnson

BMG

Seed Grant

m6A RNA modification in long noncoding RNA matchmaking and heterochromatin formation

Sandy Martin

CDB

Seed Grant

Investigating RNA editing in the brain of mammalian hibernator and Investigating transcript isoform dynamics in a hibernator

Lee Niswander

Molecular, Cellular & Developmental Biology

Seed Grant

An alternative splicing mechanism in the lincRNA-1354 locus commits embryonic stem cells to neural differentiation

Eric Pietras

Hematology

Seed Grant

Role of RNA splicing factor U2AF1 mutations in regulating hematopoietic stem cell inflammation response and myelodysplastic syndrome

Jennifer Richer

Pathology

Seed Grant

Targeting the long non-coding RNA MALAT1 in ovarian cancer

Mario Santiago

Infectious Diseases

Seed Grant

Noncoding RNAs in mucosal HIV-1 persistence and pathogenesis

Carol Sartorius & Peter Kabos

Pathology & Oncology

Seed Grant

Single cell analysis of organ specific metastasizing cells in estrogen receptor positive breast cancer

Lori Sussel

Barbara Davis Center

Seed Grant

lncRNA discovery in motor neurons

Trevor Williams

Craniofacial Biology

Seed Grant

Probing the consequences of the disruption of epigenetic bookmarking in human Branchio-oculo-facial Syndrome using single-cell sequencing