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System and Methods for Analysis of Bacterial Transcriptomes

Award Number: R15GM102755
ORGANIZATION: NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES
OPDIV: NIH
AWARD CLASS: DISCRETIONARY
AWARD ACTIVITY TYPE: SCIENTIFIC/HEALTH RESEARCH (INCLUDES SURVEYS)
PERIOD OF PERFORMANCE START DATE: 06/03/2013
PERIOD OF PERFORMANCE END DATE: 02/28/2027

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System and Methods for Analysis of Bacterial Transcriptomes - PROJECT SUMMARY High-throughput sequencing technology enables, among other things, experiments that produce massive amounts of data about RNA transcripts in bacteria. These high-throughput sequencing experiments continue to advance our understanding of bacterial transcriptomes, including regulatory RNA genes, which pervade bacteria. However, processing the large resulting data sets from high-throughput sequencing experiments can be a bottleneck in biological and medical research studies, partly because existing methods are insufficient for analyzing these data sets from bacteria. This project aims to develop new methods for processing high-throughput bacterial sequencing data. A robust and user-friendly computational system will be implemented for end- to-end analysis of high-throughput bacterial sequencing data. As part of this system, a novel algorithm will be implemented to significantly reduce the time it takes for the most computationally expensive stage of processing bacterial sequencing data, which is aligning reads from sequencing experiments to a bacterial genome. While high-throughput bacterial sequencing experiments commonly are performed on large sets of cells in bulk, recent advances have made possible the effective use of these experiments on individual cells, enabling greater resolution of bacterial transcriptome studies. New methods will be developed to process high-throughput bacterial sequencing data from single-cell experiments. Further, a computational system will be designed for systematic annotation of transcripts evinced from bacterial sequencing data to aid biological and medical researchers in efficient and reliable interpretation of the massive data sets. Finally, since many RNA genes in bacteria act as regulators of other transcripts, novel approaches will be developed to identify the interactions between these noncoding RNAs and their regulatory targets. The methods developed will be applied and evaluated in different bacterial systems.


Issue Date FY	Funding FY	Legal Entity Name	Legal Entity Address	Legal Entity City	Legal Entity State	Legal Entity Zip Code	Legal Entity COUNTY	Legal Entity COUNTRY	Assistance Listing	Award Code	Budget Year	Action Date	Action Type	Action Amount

Issue Date FY: 2025 ( Subtotal = $0 )
2025	2024	WELLESLEY COLLEGE	106 CENTRAL ST	WELLESLEY HILLS	MA	02481	NORFOLK	USA	Biomedical Research and Research Training	001	4	10/23/2024	COMPETING CONTINUATION	$53,541
2025	2020	WELLESLEY COLLEGE	106 CENTRAL ST	WELLESLEY HILLS	MA	02481	NORFOLK	USA	Biomedical Research and Research Training	000	3	10/23/2024	COMPETING CONTINUATION	-$53,541
														Subtotal = $0

Issue Date FY: 2024 ( Subtotal = $394,295 )
2024	2024	WELLESLEY COLLEGE	106 CENTRAL ST	WELLESLEY HILLS	MA	02481	NORFOLK	USA	Biomedical Research and Research Training	001	4	2/21/2024	COMPETING CONTINUATION	$394,295
2024	2020	WELLESLEY COLLEGE	106 CENTRAL ST	WELLESLEY HILLS	MA	02481	NORFOLK	USA	Biomedical Research and Research Training	000	3	2/15/2024	COMPETING CONTINUATION	$0
														Subtotal = $394,295

Issue Date FY: 2023 ( Subtotal = $0 )
2023	2020	WELLESLEY COLLEGE	106 CENTRAL ST	WELLESLEY HILLS	MA	02481	NORFOLK	USA	Biomedical Research and Research Training	000	3	9/6/2023	COMPETING CONTINUATION	$0
														Subtotal = $0

Issue Date FY: 2022 ( Subtotal = $0 )
2022	2020	WELLESLEY COLLEGE	106 CENTRAL ST	WELLESLEY HILLS	MA	02481	NORFOLK	USA	Biomedical Research and Research Training	001	3	10/24/2021	COMPETING CONTINUATION	$75,393
2022	2017	WELLESLEY COLLEGE	106 CENTRAL ST	WELLESLEY HILLS	MA	02481	NORFOLK	USA	Biomedical Research and Research Training	000	2	10/24/2021	COMPETING CONTINUATION	-$75,393
														Subtotal = $0

Issue Date FY: 2020 ( Subtotal = $391,722 )
2020	2020	WELLESLEY COLLEGE	106 CENTRAL ST	WELLESLEY	MA	02481	NORFOLK	USA	Biomedical Research and Research Training	000	3	8/20/2020	COMPETING CONTINUATION	$391,722
														Subtotal = $391,722

Issue Date FY: 2018 ( Subtotal = $0 )
2018	2013	WELLESLEY COLLEGE	106 CENTRAL ST	WELLESLEY	MA	02481	NORFOLK	USA	Biomedical Research and Research Training	000	1	7/23/2018	NEW	$0
														Subtotal = $0

Issue Date FY: 2017 ( Subtotal = $395,974 )
2017	2017	WELLESLEY COLLEGE	106 CENTRAL ST	WELLESLEY	MA	02481	NORFOLK	USA	Biomedical Research and Research Training	001	2	5/1/2017	COMPETING CONTINUATION	$395,974
2017	2013	WELLESLEY COLLEGE	106 CENTRAL ST	WELLESLEY	MA	02481	NORFOLK	USA	Biomedical Research and Research Training	000	1	4/26/2017	NEW	$0
														Subtotal = $395,974

Issue Date FY: 2013 ( Subtotal = $294,954 )
2013	2013	WELLESLEY COLLEGE	GREEN HALL	WELLESLEY	MA	02181		USA	Biomedical Research and Research Training	000	1	6/2/2013	NEW	$294,954
														Subtotal = $294,954

Grand Total All Awards = $1,476,945

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System and Methods for Analysis of Bacterial Transcriptomes

Award Number: R15GM102755

ORGANIZATION: NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES

OPDIV: NIH

AWARD CLASS: DISCRETIONARY

AWARD ACTIVITY TYPE: SCIENTIFIC/HEALTH RESEARCH (INCLUDES SURVEYS)

PERIOD OF PERFORMANCE START DATE: 06/03/2013

PERIOD OF PERFORMANCE END DATE: 02/28/2027

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