The architecture of the brain is too complex to be intuitively surveyable
without the use of compressed representations that project its variation into a
compact, navigable space. The task is especially challenging with
high-dimensional data, such as gene expression, where the joint complexity of
anatomical and transcriptional patterns demands maximum compression.
Established practice is to use standard principal component analysis (PCA),
whose computational felicity is offset by limited expressivity, especially at
great compression ratios. Employing whole-brain, voxel-wise Allen Brain Atlas
transcription data, here we systematically compare compressed representations
based on the most widely supported linear and non-linear methods-PCA, kernel
PCA, non-negative matrix factorization (NMF), t-stochastic neighbour embedding
(t-SNE), uniform manifold approximation and projection (UMAP), and deep
auto-encoding-quantifying reconstruction fidelity, anatomical coherence, and
predictive utility with respect to signalling, microstructural, and metabolic
targets. We show that deep auto-encoders yield superior representations across
all metrics of performance and target domains, supporting their use as the
reference standard for representing transcription patterns in the human brain.

脑的体系结构过于复杂，需要使用压缩表示来将其变化投影到一个紧凑且可导航的空间中。通过比较基于线性和非线性方法的压缩表示，我们发现深度自编码器在性能和目标领域的各个指标上都表现出卓越的性能，从而支持将其用作代表人脑转录模式的参考标准。

脑基因转录的压缩表示

Compressed representation of brain genetic transcription

Recent characterisations of self-organising systems depend upon the presence
of a Markov blanket: a statistical boundary that mediates the interactions
between what is inside of and outside of a system. We leverage this idea to
provide an analysis of partitions in neuronal systems. This is applicable to
brain architectures at multiple scales, enabling partitions into single
neurons, brain regions, and brain-wide networks. This treatment is based upon
the canonical micro-circuitry used in empirical studies of effective
connectivity, so as to speak directly to practical applications. This depends
upon the dynamic coupling between functional units, whose form recapitulates
that of a Markov blanket at each level. The nuance afforded by partitioning
neural systems in this way highlights certain limitations of modular
perspectives of brain function that only consider a single level of
description.

基于马尔可夫毯概念，对神经元系统的分区进行分析，凸显模块化认知的限制。