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Transcriptional Control During Erythropoiesis

红细胞生成过程中的转录控制

基本信息

批准号：
10200020
负责人：
Marjorie Carole Brand
金额：
$ 66.83万
依托单位：
INSTITUTE FOR SYSTEMS BIOLOGY
依托单位国家：
美国
项目类别：
财政年份：
2013
资助国家：
美国
起止时间：
2013-09-16 至 2025-04-30
项目状态：
未结题

来源：
https://reporter.nih.gov/project-details/10200020
关键词：
Adult Automobile Driving Benchmarking Binding Biological Assay Blood Cell Fate Control Cell model Cell physiology Cells Cellular Indexing of Transcriptomes and Epitopes by Sequencing ChIP-seq Chromatin Complex Computer Analysis Dancing Data Disease Erythrocytes Erythroid Erythroid Cells Erythropoiesis FLI1 gene Gene Expression Genes Genetic Transcription Genomics Goals Health Hematopoietic stem cells Hemoglobin Human Joints Knowledge Mass Spectrum Analysis Measurement Measures Messenger RNA Methodology Methods Mission Modeling Monitor Nature Outcome Patients Pharmacology Population Process Production Proteins Proteome Proteomics Proxy Public Health Reaction Regulation Research Role Specific qualifier value System Technology Testing Time Transcript Transcriptional Regulation Umbilical Cord Blood United States National Institutes of Health Validation Vision Work base beta Globin beta Thalassemia comparative design dosage experimental study fetal genome-wide human model improved in vivo innovation network models novel novel therapeutic intervention novel therapeutics progenitor programs temporal measurement transcription factor transcriptome transcriptomics

项目摘要

Erythropoiesis is a dynamic process governed by quantitative changes in the relative levels of transcription fac- tors (TFs). Due to the current paucity of quantitative data on the proteins that constitute the transcriptional regu- latory network (TRN), most models of erythropoiesis are based primarily on mRNA measurements and do not typically consider changes in the protein levels of specific TFs. This significantly limits the understanding of erythropoiesis and other transcriptionally regulated processes such as ß-globin expression, ultimately impinging on the capacity to correct hemoglobin disorders. The long-term goal is to decipher the TRN that controls eryth- ropoiesis in health and disease. The objective of this proposal is to significantly expand our TRN model for cell fate decision during erythropoiesis by integrating dynamic bulk and single cell TF protein abundance measure- ments with other transcription-relevant -omics data. The central hypothesis is that the relative protein levels of TFs are critical parameters in the establishment of proper gene expression programs during the continuum of differentiation, and that erythropoiesis is driven by graded changes in the relative amounts of specific combina- tions of TFs. The rationale is that integration of the dynamic and quantitative nature of the TF proteome into an expanded TRN of erythropoiesis will result in a model with improved predictive power which will serve as a benchmark for healthy erythropoiesis against which to compare erythroid-related disease states, and will facili- tate the identification of pharmacological agents to restore normal erythropoiesis. Three specific aims have been designed: 1) Absolute quantification of the TF proteome during erythropoiesis; 2) Determine how gradual changes in the abundance of multiple TFs in single cells initiate and progressively reinforce cell fate decisions along the erythroid trajectory; and 3) Computational analysis, modeling and validation of the erythropoiesis TRN. For the first aim, a high throughput quantitative mass spectrometry (MS) approach will be used to measure absolute levels of the TF proteome during ex vivo erythropoiesis of HSPCs derived from healthy donors. For the second aim, complementary CyTOF and targeted-MS proteomic approaches will be combined to estimate TF protein abundances in single cells, with other single cell –omics technologies to measure changes in gene ex- pression and TF genomic binding during ex vivo erythropoiesis. Under the third aim, TRN models of erythropoi- esis will be built utilizing measurements of TF protein abundances, and other transcription-relevant –omics data. Functional validation will be performed for TFs that have been implicated in transcriptional control during eryth- ropoiesis based on our recent results. The approach is innovative because it uses a novel combination of single cell and bulk proteomics methodologies to quantify large numbers of TFs during erythropoiesis in primary human cells and uses the data for integrative TRN modeling. The proposed research is significant because it will illumi- nate complex regulatory processes that control erythropoiesis. Ultimately, such knowledge has the potential to guide the design of new therapeutics to re-establish proper ß-globin expression in ß-thalassemic patients.

红细胞生成是一个动态过程，受转录因子相对水平的定量变化所支配