This Project Grant award from the National Science Foundation's Biological Sciences (CFDA 47.074) Federal Grant Program provides $595,875 to the University of Pittsburgh to develop a computational framework for obtaining accurate allele-specific expression measurements and haplotypes from RNA-seq and genotype data. The project aims to combine existing frameworks for transcript expression quantification and haplotype inference into a single framework, while addressing challenges related to...
This National Science Foundation (NSF) Project Grant award, under the Biological Sciences program (CFDA 47.074), will provide $382,727 to The Pennsylvania State University (Penn State) from August 15, 2023 to July 31, 2026. The project will develop a comprehensive "gene annotation pipeline" toolbox to rapidly identify the functions of unknown genes, especially in non-model organisms. This will involve creating a library of microbial strains that can select for key metabolic reactions...
This National Science Foundation project grant of $393,791 awarded on March 1, 2022 will fund the development of new computational tools and statistical methods for analyzing alternative splicing through February 28, 2027. Under the Biological Sciences (CFDA 47.074) federal grant program, the grantee—The Trustees of Columbia University in New York City—will create a unified framework leveraging both short and long read RNA sequencing data using network flow algorithms and other techniques....
This Project Grant award from the National Science Foundation (NSF) Computer and Information Science and Engineering (CISE) program (CFDA 47.070) provides $500,000 to the Regents of the University of California at Riverside over a 3-year period from July 2025 to June 2028. The goal of the project is to develop new methods for improving de novo genome assembly, which is the computational process of reconstructing an organism's complete genomic sequence from fragmented DNA data. The research...
The Pennsylvania State University (Penn State) received a $608,569 Project Grant award from the National Science Foundation (NSF) on September 1, 2021 to develop a predictive biophysical model of transcription rate across cellular conditions. The award is part of the NSF's Biological Sciences program (CFDA 47.074) and will support research through August 31, 2024 to promote progress in the biological sciences and strengthen the nation's scientific enterprise through increased knowledge and...
This Project Grant award from the National Science Foundation's Biological Sciences (CFDA 47.074) Federal Grant Program provides $776,309 to The Pennsylvania State University (Penn State) to conduct research on the structural responses to chemical modifications that trigger the release of RNA polymerase II from promoter proximal pausing and enable efficient decoding of genetic information. The research aims to push the boundaries of current nuclear magnetic resonance (NMR) spectroscopy...
This Project Grant award from the National Institute of General Medical Sciences (NIGMS), under the Biomedical Research and Research Training program (CFDA 93.859), provides $424,264 in funding to the Regents of the University of Michigan from June 1, 2025 to May 31, 2030. The funding will support the development of advanced quantitative analysis methods for long-read RNA sequencing, both at the bulk and single-cell level. The goal is to enable deeper investigations of gene isoforms and their...
This $794,457 federal Project Grant award from the National Science Foundation's (NSF) Biological Sciences program (CFDA 47.074) will support the development of new genetic analysis tools. The goal is to incorporate molecular and cellular biology knowledge, such as gene expression patterns and regulatory networks, directly into statistical models used to map genes, predict traits, and simulate changes in the genotype-to-phenotype relationships. The research will be conducted using simulated...
This National Science Foundation (NSF) Project Grant award under the Biological Sciences program (CFDA 47.074) provides $522,131.00 to New York University (NYU) from August 1, 2023 to July 31, 2026. The funded research aims to understand the relationship between RNA sequence features and splicing outcomes, as well as the role that nuclear speckles play in RNA splicing decisions. The project will leverage high-throughput assays and interpretable machine learning to identify sequence-encoded...
This $1,220,400 Project Grant awarded by the National Science Foundation (NSF) Division of Molecular and Cellular Biosciences supports a collaborative research project between investigators in the U.S. and U.K. to better understand the regulatory mechanisms controlling mammalian gene expression. The project, funded through NSF's Biological Sciences program (CFDA 47.074), aims to define the roles of different DNA regulatory elements and how they work together to precisely control gene expression....