Jordi Solana
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View article: Multimodal single cell analyses reveal gene networks of planarian stem cell differentiation
Multimodal single cell analyses reveal gene networks of planarian stem cell differentiation Open
Cell type identity is controlled by gene regulatory networks (GRNs), where transcription factors (TFs) regulate target genes (TGs) via open chromatin regions (OCRs), often specific to one or multiple cell types. Classic GRN discovery using…
View article: Evolutionarily conserved transcriptional regulators control monoaminergic neuron development
Evolutionarily conserved transcriptional regulators control monoaminergic neuron development Open
To what extent conserved developmental programs specify homologous cell types is a central question in biology. Here, we address this by focusing on reconstructing monoaminergic neuron development in Drosophila melanogaster embryo using ti…
View article: Allometry of cell types in planarians by single-cell transcriptomics
Allometry of cell types in planarians by single-cell transcriptomics Open
Allometry explores the relationship between an organism’s body size and its various components, offering insights into ecology, physiology, metabolism, and disease. The cell is the basic unit of biological systems, and yet the study of cel…
View article: The Hydractinia cell atlas reveals cellular and molecular principles of cnidarian coloniality
The Hydractinia cell atlas reveals cellular and molecular principles of cnidarian coloniality Open
Coloniality is a widespread growth form in cnidarians, tunicates, and bryozoans, among others. Colonies function as single physiological units despite their modular structure of zooids and supporting tissues. A key question is how structur…
View article: The Regulatory Logic of Planarian Stem Cell Differentiation
The Regulatory Logic of Planarian Stem Cell Differentiation Open
Cell type identity is determined by gene regulatory networks (GRNs), comprising the expression of specific transcription factors (TFs) regulating target genes (TGs) via binding to open chromatin regions (OCRs). The regulatory logic of diff…
View article: The<i>Hydractinia</i>cell atlas reveals cellular and molecular principles of cnidarian coloniality
The<i>Hydractinia</i>cell atlas reveals cellular and molecular principles of cnidarian coloniality Open
Coloniality is a widespread growth form in cnidarians, tunicates, and bryozoans, among others. Despite being modular, composed of multiple zooids and supporting tissues, colonies function as a single physiological unit. A major question in…
View article: An atlas of spider development at single-cell resolution provides new insights into arthropod embryogenesis
An atlas of spider development at single-cell resolution provides new insights into arthropod embryogenesis Open
View article: Annelid adult cell type diversity and their pluripotent cellular origins
Annelid adult cell type diversity and their pluripotent cellular origins Open
View article: Multiplex single-cell analysis of serotonergic neuron function in planarians reveals widespread effects in diverse cell types
Multiplex single-cell analysis of serotonergic neuron function in planarians reveals widespread effects in diverse cell types Open
Neurons function by interacting with each other and with other cell types, often exerting organism-wide regulation. Serotonergic neurons play a systemic role in processes such as appetite, sleep and motor control. Functional studies in the…
View article: Allometry of cell types in planarians by single cell transcriptomics
Allometry of cell types in planarians by single cell transcriptomics Open
Allometry explores the relationship between an organism’s body size and its various components, offering insights into ecology, physiology, metabolism, and disease. The cell is the basic unit of biological systems, and yet, the study of ce…
View article: Annelid adult cell type diversity and their pluripotent cellular origins
Annelid adult cell type diversity and their pluripotent cellular origins Open
Annelids are a broadly distributed, highly diverse, economically and environmentally important group of animals. Most species can regenerate missing body parts, and many are able to reproduce asexually. Therefore, many annelids can generat…
View article: Single-cell transcriptomics in planaria: new tools allow new insights into cellular and evolutionary features
Single-cell transcriptomics in planaria: new tools allow new insights into cellular and evolutionary features Open
Single-cell transcriptomics has revolutionised biology allowing the quantification of gene expression in individual cells. Since each single cell contains cell type specific mRNAs, these techniques enable the classification of cell identit…
View article: An atlas of spider development at single-cell resolution provides new insights into arthropod embryogenesis
An atlas of spider development at single-cell resolution provides new insights into arthropod embryogenesis Open
Spiders are a diverse order of chelicerates that diverged from other arthropods over 500 million years ago. Research on spider embryogenesis, particular studies using the common house spider Parasteatoda tepidariorum , has made important c…
View article: ACME dissociation: a versatile cell fixation-dissociation method for single-cell transcriptomics
ACME dissociation: a versatile cell fixation-dissociation method for single-cell transcriptomics Open
View article: Additional file 3 of ACME dissociation: a versatile cell fixation-dissociation method for single-cell transcriptomics
Additional file 3 of ACME dissociation: a versatile cell fixation-dissociation method for single-cell transcriptomics Open
Additional file 3: Table S2. Cell numbers by cluster and cell type groups.
View article: Additional file 4 of ACME dissociation: a versatile cell fixation-dissociation method for single-cell transcriptomics
Additional file 4 of ACME dissociation: a versatile cell fixation-dissociation method for single-cell transcriptomics Open
Additional file 4: Table S3. Top markers by cluster.
View article: Additional file 2 of ACME dissociation: a versatile cell fixation-dissociation method for single-cell transcriptomics
Additional file 2 of ACME dissociation: a versatile cell fixation-dissociation method for single-cell transcriptomics Open
Additional file 2: Table S1. List of barcodes.
View article: Additional file 5 of ACME dissociation: a versatile cell fixation-dissociation method for single-cell transcriptomics
Additional file 5 of ACME dissociation: a versatile cell fixation-dissociation method for single-cell transcriptomics Open
Additional file 5: Table S4. Cluster differential gene expression analysis.
View article: ACME dissociation: a versatile cell fixation-dissociation method for single-cell transcriptomics
ACME dissociation: a versatile cell fixation-dissociation method for single-cell transcriptomics Open
Single-cell sequencing technologies are revolutionizing biology, but are limited by the need to dissociate fresh samples that can only be fixed at later stages. We present ACME ( AC etic- ME thanol) dissociation, a cell dissociation approa…
View article: PAGA: graph abstraction reconciles clustering with trajectory inference through a topology preserving map of single cells
PAGA: graph abstraction reconciles clustering with trajectory inference through a topology preserving map of single cells Open
View article: The Integrator complex regulates differential snRNA processing and fate of adult stem cells in the highly regenerative planarian Schmidtea mediterranea
The Integrator complex regulates differential snRNA processing and fate of adult stem cells in the highly regenerative planarian Schmidtea mediterranea Open
In multicellular organisms, cell type diversity and fate depend on specific sets of transcript isoforms generated by post-transcriptional RNA processing. Here, we used Schmidtea mediterranea, a flatworm with extraordinary regenerative abil…
View article: Graph abstraction reconciles clustering with trajectory inference through a topology preserving map of single cells
Graph abstraction reconciles clustering with trajectory inference through a topology preserving map of single cells Open
Single-cell RNA-seq quantifies biological heterogeneity across both discrete cell types and continuous cell transitions. Partition-based graph abstraction (PAGA) provides an interpretable graph-like map of the arising data manifold, based …
View article: Conserved functional antagonism of CELF and MBNL proteins controls stem cell-specific alternative splicing in planarians
Conserved functional antagonism of CELF and MBNL proteins controls stem cell-specific alternative splicing in planarians Open
In contrast to transcriptional regulation, the function of alternative splicing (AS) in stem cells is poorly understood. In mammals, MBNL proteins negatively regulate an exon program specific of embryonic stem cells; however, little is kno…
View article: Author response: Conserved functional antagonism of CELF and MBNL proteins controls stem cell-specific alternative splicing in planarians
Author response: Conserved functional antagonism of CELF and MBNL proteins controls stem cell-specific alternative splicing in planarians Open
Full text Figures and data Side by side Abstract eLife digest Introduction Results Discussion Materials and methods Data availability References Decision letter Author response Article and author information Metrics Abstract In contrast to…