Gene expression

Analyze gene expression within tissue using imaging-based and sequencing-based spatial transcriptomics. Guided R/Bioconductor labs cover cell segmentation, quality control, interactive exploration and integration with single-cell datasets. Downstream analyses characterize cellular niches, neighbourhoods and cell–cell communication. The course concludes with project design and a team hackathon using participant or public data, connecting computational outputs to biological interpretation. 2026-12-14–2026-12-18, 14:00–18:00 daily, Europe/Berlin (CET, UTC+01:00). Online course; fee €530. Designe

This conference examines how chromatin and epigenetic regulation shape gene expression, development and disease. It covers DNA methylation, histone and RNA modifications, non-coding RNAs, heterochromatin, nucleosome structure and nuclear architecture. Researchers will connect transcriptional control with developmental processes and disease mechanisms, using single-cell genomics and advanced microscopy alongside molecular approaches. The programme also considers how ageing, environmental exposures and lifestyle influence epigenetic states. The meeting brings together researchers working across

Develop sequence-based deep-learning models of gene regulation and aging. Research predicts gene expression and chromatin accessibility from DNA, interprets genetic variation and connects model predictions with experiments, causal mechanisms and possible intervention points.

Jennifer Brophy presents two methods for programming when and where genes are expressed in plants and their associated microbes. One creates a chemical signal using the noncanonical amino acid O-methyl-L-tyrosine. Engineered Arabidopsis, tomato and poplar produce the signal, while engineered Bacillus subtilis and soil bacteria respond by activating gene expression. Restricting signal production to selected plant tissues allows local control of microbial activity. The second approach builds a genetic circuit that counts successive branching events in roots. It produces different expression pat

…types and tissue-dependent patterns of gene expression.

…bind transcription factors and control gene expression. It introduces computational approaches, including neural networks, for recognising regulatory DNA and potentially designing synthetic elements. It also compares recurring arrangements of enhancers around genes important in mammalian development.

…and discuss two topics: (i) the use of gene editing as an approach to therapy and (ii) the role of MECP2 in gene expression (i) The mutation of the X-linked MECP2 gene is causative for the disease. In a female patient, every cell has a wt copy that is, however, in 50% of the cells located on the inactive X chromosome. We have used epigenetic gene editing tools to activate the wt MECP2 allele on the inactive X

…In this talk, I will present new optogenetic reagents and an experimental pipeline for creating designer Nodal signaling patterns in live zebrafish embryos. Our improved optoNodal reagents eliminate dark activity and improve response kineti

Joint exploration of behavior, genes and brain structure holds the promise to provide a better understanding of neural circuits than unimodal data analyses. Several consortia provide extensive data resources of different modalities. However, analyses of heteromodal data require the expertise of computer scientists for fusing the different resources into a common space. To tackle this limitation, we extended BrainTrawler, our web-based visual analytics frame work for exploration of neurobiological data of human and mice, with a selection of publicly available gene expression and connectivity da

…Currently available tools like optogenetics and chemogenetics affect the entire astrocytic population, making it difficult to target specific subsets. This lack of specificity hinders our understanding of the role of astrocytes in behavior.We present a tool to translate the activity-mediated calcium signals of astrocytes into gene expression in a light-dependent manner, i.e. AstroLight. Using AstroLigh

MicroRNAs (miRNAs) are small non-coding RNAs that regulate gene expression at a post-transcriptional level. Their tissue-specific expression patterns, high stability in blood, and ability to cross the blood-brain barrier make them promising biomarker candidates for diagnosing central nervous system (CNS) disorders. However, further characterization of miRNA biomarkers is needed to identify key factors for diagnosing CNS disorders. In this study, we aimed to detect and characterize a differentially expressed miRNA as a biomarker for Major Depressive Disorder (MDD). We performed RNA sequencing o

In 2019, a report by world stroke organisation (WSO) states that there are 12.2 million new cases of ischaemic stroke per year with 6.5 million people dying annually. Stroke is the third nationally and second globally highest in terms of mortality and third highest worldwide in terms of Disability Adjusted Life Years (DALYs). Chronic ischaemia, constituting 62% of all stroke cases; and cognitive impairment are reported to be 50% associated in patients younger than 50 years, foisting a huge burden on their families. Post stroke cognitive impairment (PSCI) includes the damages caused to the cogn

…the potential involvement of the PME genes in the process of aging. A recent study conducted by our group has shown that the expression of PME genes shows an inverse association with age in the normal brain. Since the

The human brain is an extremely complex network of ~80 billion neurons, and it underpins all thoughts and emotions through coordinated neural activity. The underlying network changes with age and environment, and it is vulnerable to perturbations. Our goal is to understand both normal and pathological neural networks at the level of individual neurons, and how human illnesses affect them.Studying human neurodevelopmental disorders is often challenging using animal models. By using cerebral organoids from induced pluripotent stem cells (iPS), we can investigate these conditions in sophisticated

…axis) modulator, and studied gene expression profiles under control conditions and how ELS affects these long-term, and how sex and ELS impact the acute stress response.Mice underwent ELS by limited bedding and nesting from postnatal day (P) 2-9, then a

Schizophrenia (SZ) is a heterogeneous neuropsychiatric disorder whose complexity has hampered the identification of biomarkers that are actually useful in the clinical practice. Our study is based on the hypothesis that first-episode psychosis (FEP) patients present altered gene expression in blood that correlates with changes in neurons. We have analyzed the expression of genes (associated with SZ in genomic studies) through real-time PCR in peripheral blood from 63 FEP patients and 83 controls. We observed that TOX gene was significantly altered in male patients when compared to male control

Neuronal networks derived from human induced pluripotent stem cells (hiPSCs) have gained attention for their potential use in in vitro modeling of epilepsy and seizure-like electrophysiological activity. Similar to in vivo animal models, seizure-like activity can be induced in these neuronal cultures using kainic acid (KA), direct agonist of the glutamate receptors. However, to establish more relevant in vitro model using KA, better understanding of KA mediated acute and prolonged effects on human neuronal networks is required. In this study, we investigated both acute and long-term KA concent

…on specific behavioral processes and gene expression in the prefrontal cortex of RHA versus RLA rats. Additionally, we explored associations between gene expression and behavioral responses. Male rats from both the RLA and RHA strains received NH or were left untreated (controls). Two different age groups were considered: adolescent and adults. The assessment encompassed exploratory behavior, social behavior, sensorimotor gating (PPI), and the analysis of gene expression associated with s

OBJECTIVE: Alzheimer's disease (AD) stands as the prevalent neurodegenerative condition globally, characterized by symptoms such as memory loss, language difficulties, disorientation, diminished motivation, self-neglect, mood fluctuations, and behavioral challenges. Despite its widespread impact, the precise cellular mechanisms underlying the onset of AD remain elusive. This study aims to uncover potential pathophysiological contributors to AD by analyzing gene expression levels through bioinformatics approaches. METHODS: GSE129296 dataset downloaded from Gene Expression Omnibus (GEO) database

…a critical role in the regulation of gene expression and the maintenance of genomic stability. During differentiation, chromosomes acquire their unique topology depending on the cell type that should be kept for a lifetime, but this may deteriorate as we age. However, the effects of aging on the chromatin 3D structure of neurons remain largely unknown. By combining chromosome conformation capture (Hi-C) and microscopy techniq

…data modalities have been conducted to generate cell type taxonomies. To make these datasets more accessible to the scientific community and general public, we have created open, browser-based tools for anyone to interact with the data; they are available on brain-map.org. Three of these tools are: Cell Type Kno

…Here, we tracked gene expression in a 2-week semantic-like memory paradigm in mice across the whole-brain spatial memory network. Absolute gene expression was driven by first experiences and later learning led to smaller changes, highlighting that multiple episodic memories are not encoded and then consolidated to create semantic-memories, instead already by the second experience semantic-memories

…we investigated changes in gene expression following acute sleep deprivation in female mice at different estrous stages. Following one week of individual housing and pre-han

…study aims to identify changes in the gene expression after a single oral dose of IBO in different brain areas. Male and female C57BL/6 mice were treated with 60 mg/kg of IBO by gavage. Four hours post-administration frontal cortex samples of three males and three females were obtained to perform