从空间转录学中发现了细胞类型组成的膜调节剂,使用SPER
1Institute of Systems Genetics, New York University Grossman School of Medicine, New York, NY, 10016, United States.
Bioinformatics advances
|February 16, 2026
概括
我们开发了空间配对表达比率 (SPER),这是一种新的计算方法,用于在空间转录学数据中找到影响细胞组成的细胞间调节因素. SPER 识别了组织中细胞变化的膜驱动因素.
科学领域:
- 计算生物学 计算生物学
- 基因组学就是基因组学.
- 系统生物学 系统生物学
背景情况:
- 组织细胞类型的组成对功能至关重要,并且偏差与疾病有关.
- 空间转录学允许同时进行基因表达和细胞类型分析.
- 确定影响细胞组成的细胞间调节因素仍然是一个挑战.
研究的目的:
- 开发一种计算方法,从空间转录学数据中识别细胞间调节因子.
- 评估转录丰富度和细胞类型比例之间的空间依赖.
- 为了发现细胞组成变化的膜驱动因素.
主要方法:
- 空间配对表达比率 (SPER) 的开发,一种计算方法.
- 使用模拟数据对SPER进行评估,以检测膜驱动因素.
- 将SPER应用于小鼠大脑和人类肺部的空间转录学数据.
主要成果:
- 在模拟数据中,SPER准确地检测到细胞丰度的膜驱动因素.
- 通过SPER识别的基因被丰富为细胞外分泌.
- 被SPER识别的基因参与已知的受体-连接体相互作用,这表明它们具有调节作用.
结论:
- SPER是一种新的计算方法,用于从空间转录组学中发现细胞组成的膜驱动因素.
- 该方法有助于识别细胞间调节因子.
- SPER提供了对组织平衡和疾病机制的洞察.
相关概念视频
Combinatorial Gene Control
9.7K
Combinatorial gene control is the synergistic action of several transcriptional factors to regulate the expression of a single gene. The absence of one or more of these factors may lead to a significant difference in the level of gene expression or repression.
The expression of more than 30,000 genes is controlled by approximately 2000-3000 transcription factors. This is possible because a single transcription factor can recognize more than one regulatory sequence. The specificity in gene...
The expression of more than 30,000 genes is controlled by approximately 2000-3000 transcription factors. This is possible because a single transcription factor can recognize more than one regulatory sequence. The specificity in gene...
9.7K
Cell Specific Gene Expression
16.7K
Multicellular organisms contain a variety of structurally and functionally distinct cell types, but the DNA in all the cells originated from the same parent cells. The differences in the cells can be attributed to the differential gene expression. Liver cells, whose functions include detoxification of blood, production of bile to metabolize fats, and synthesis of proteins essential for metabolism, must express a specific set of genes to perform their functions. Gene expression also varies with...
16.7K
Cell Specific Gene Expression
5.6K
5.6K
Somatic to iPS Cell Reprogramming
2.7K
Reprogramming alters the gene expression in somatic cells, transforming them into induced pluripotent stem (iPS) cells over several generations. Scientists can reprogram cells by introducing genes for four transcription factors—Oct4, Sox2, Klf4, and c-Myc (OSKM) by viral or non-viral methods. These factors are also known as Yamanaka factors after Shinya Yamanaka, who first generated iPS cells using mouse skin cells. Yamanaka was awarded the Nobel Prize in Physiology or Medicine in 2012...
2.7K
Gene Regulation During Sporulation
532
Sporulation is a complex developmental process that allows certain Gram-positive bacteria, such as Bacillus subtilis and Clostridium species, to survive extreme environmental conditions. This process is tightly regulated by a series of signaling cascades and transcriptional controls, ensuring the formation of a highly resistant endospore.Sporulation is triggered by unfavorable conditions, such as nutrient depletion, and is governed by a phosphorelay system. One of the sensor kinases, such as...
532
Paracrine Signaling
59.7K
Paracrine signaling allows cells to communicate with their immediate neighbors via secretion of signaling molecules. Such a signal can only trigger a response in nearby target cells because the signal molecules degrade quickly or are inactivated if not taken up. Prominent examples of paracrine signaling include nitric oxide signaling in blood vessels, synaptic signaling of neurons, the blood clotting system, tissue repair/wound healing, and local allergic skin reactions. Nitric oxide as a...
59.7K


