Enablers and challenges of spatial omics, a melting pot of technologies

T Alexandrov, J Saez‐Rodriguez… - Molecular Systems …, 2023 - embopress.org
Spatial omics has emerged as a rapidly growing and fruitful field with hundreds of
publications presenting novel methods for obtaining spatially resolved information for any …

Three-dimensional chromatin packing and positioning of plant genomes

ES Doğan, C Liu - Nature plants, 2018 - nature.com
Abstract Information and function of a genome are not only decorated with epigenetic marks
in the linear DNA sequence but also in their non-random spatial organization in the nucleus …

Visualizing the genome in high resolution challenges our textbook understanding

M Lakadamyali, MP Cosma - Nature methods, 2020 - nature.com
The relationship between the 4D folding of the genome and its function is an outstanding
question in biology. A range of methods that probe the folding of the genome in space and …

Understanding 3D genome organization and its effect on transcriptional gene regulation under environmental stress in plant: a chromatin perspective

S Kumar, S Kaur, K Seem, S Kumar… - Frontiers in Cell and …, 2021 - frontiersin.org
The genome of a eukaryotic organism is comprised of a supra-molecular complex of
chromatin fibers and intricately folded three-dimensional (3D) structures. Chromosomal …

The dynamic role of cohesin in maintaining human genome architecture

A Agarwal, S Korsak, A Choudhury, D Plewczynski - BioEssays, 2023 - Wiley Online Library
Recent advances in genomic and imaging techniques have revealed the complex manner of
organizing billions of base pairs of DNA necessary for maintaining their functionality and …

Identification and requirements of enhancers that direct gene expression during zebrafish fin regeneration

JD Thompson, J Ou, N Lee, K Shin, V Cigliola… - …, 2020 - journals.biologists.com
To identify candidate tissue regeneration enhancer elements (TREEs) important for
zebrafish fin regeneration, we performed ATAC-seq from bulk tissue or purified fibroblasts of …

Shifting landscapes: the role of 3D genomic organizations in gene regulatory strategies

J Hehmeyer, F Spitz, H Marlow - Current Opinion in Genetics & …, 2023 - Elsevier
3D genome folding enables the physical storage of chromosomes into the compact volume
of a cell's nucleus, allows for the accurate segregation of chromatin to daughter cells, and …

TCF1 dosage determines cell fate during T cell development

A Verma, B Aylward, F Ma, CA Sherman, L Chopp… - Science …, 2024 - science.org
Loss-of-function studies have shown that transcription factor T cell factor-1 (TCF1), encoded
by the Tcf7 gene, is essential for T cell development in the thymus. We discovered that the …

Rare-variant studies to complement genome-wide association studies

A Sazonovs, JC Barrett - Annual review of genomics and human …, 2018 - annualreviews.org
Genome-wide association studies (GWASs) have revolutionized human disease genetics by
discovering tens of thousands of associations between common variants and complex …

From human cytogenetics to human chromosomics

T Liehr - International journal of molecular sciences, 2019 - mdpi.com
Background: The concept of “chromosomics” was introduced by Prof. Uwe Claussen in
2005. Herein, the growing insights into human chromosome structure finally lead to a …