Browsing by Author "Sebé-Pedrós, Arnau"

Sort by: Order: Results:

  • A single-cell view on alga-virus interactions reveals sequential transcriptional programs and infection states
    Ku, Chuan; Sheyn, Uri; Sebé-Pedrós, Arnau; Ben-Dor, Shifra; Schatz, Daniella; Tanay, Amos; Rosenwasser, Shilo; Vardi, Assaf (American Association for the Advancement of Science (AAAS), 2020)
    The discovery of giant viruses infecting eukaryotes from diverse ecosystems has revolutionized our understanding of the evolution of viruses and their impact on protist biology, yet knowledge on their replication strategies ...
  • A stony coral cell atlas illuminates the molecular and cellular basis of coral symbiosis, calcification, and immunity
    Levy, Shani; Elek, Anamaria; Grau Bové, Xavier; Menéndez-Bravo, Simón; Iglesias, Marta; Tanay, Amos; Mass, Tali; Sebé-Pedrós, Arnau (Elsevier, 2021)
    Stony corals are colonial cnidarians that sustain the most biodiverse marine ecosystems on Earth: coral reefs. Despite their ecological importance, little is known about the cell types and molecular pathways that underpin ...
  • ACME dissociation: a versatile cell fixation-dissociation method for single-cell transcriptomics
    García-Castro, Helena; Kenny, Nathan J.; Iglesias, Marta; Álvarez Campos, Patricia; Mason, Vincent; Elek, Anamaria; Schönauer, Anna; Sleight, Victoria A.; Neiro, Jakke; Aboobaker, Aziz; Permanyer, Jon; Irimia, Manuel; Sebé-Pedrós, Arnau; Solana, Jordi (BioMed Central, 2021)
    Single-cell sequencing technologies are revolutionizing biology, but they are limited by the need to dissociate live samples. Here, we present ACME (ACetic-MEthanol), a dissociation approach for single-cell transcriptomics ...
  • cGLRs are a diverse family of pattern recognition receptors in innate immunity
    Li, Yao; Slavik, Kailey M.; Toyoda, Hunter C.; Morehouse, Benjamin R.; Oliveira Mann, Carina C. de; Elek, Anamaria; Levy, Shani; Wang, Zhenwei; Mears, Kepler S.; Liu, Jingjing; Kashin, Dmitry; Guo, Ximing; Mass, Tali; Sebé-Pedrós, Arnau; Schwede, Frank; Kranzusch, Philip J. (Elsevier, 2023)
    Cyclic GMP-AMP synthase (cGAS) is an enzyme in human cells that controls an immune response to cytosolic DNA. Upon binding DNA, cGAS synthesizes a nucleotide signal 2'3'-cGAMP that activates STING-dependent downstream ...
  • Evolutionary cell type mapping with single-cell genomics
    Tanay, Amos; Sebé-Pedrós, Arnau (Elsevier, 2021)
    A fundamental characteristic of animal multicellularity is the spatial coexistence of functionally specialized cell types that are all encoded by a single genome sequence. Cell type transcriptional programs are deployed ...
  • High-throughput proteomics reveals the unicellular roots of animal phosphosignaling and cell differentiation
    Sebé-Pedrós, Arnau; Peña Paz, Marcia I.; Capella Gutiérrez, Salvador Jesús, 1985-; Antó Subirats, Meritxell; Gabaldón Estevan, Juan Antonio, 1973-; Ruiz Trillo, Iñaki; Sabidó Aguadé, Eduard, 1981- (Elsevier, 2016)
    Cell-specific regulation of protein levels and activity is essential for the distribution of functions among multiple cell types in animals. The finding that many genes involved in these regulatory processes have a premetazoan ...
  • IL18 signaling promotes homing of mature Tregs into the thymus
    Peligero Cruz, Cristina, 1986-; Givony, Tal; Sebé-Pedrós, Arnau; Dobeš, Jan; Kadouri, Noam; Nevo, Shir; Roncato, Francesco; Alon, Ronen; Goldfarb, Yael; Abramson, Jakub (eLife, 2020)
    Foxp3+ regulatory T cells (Tregs) are potent suppressor cells, essential for the maintenance of immune homeostasis. Most Tregs develop in the thymus and are then released into the immune periphery. However, some Tregs ...
  • Origin and evolution of eukaryotic transcription factors
    de Mendoza, Alex; Sebé-Pedrós, Arnau (Elsevier, 2019)
    Transcription factors (TFs) have a central role in genome regulation directing gene transcription through binding specific DNA sequences. Eukaryotic genomes encode a large diversity of TF classes, each defined by unique ...
  • Orthology clusters from gene trees with possvm
    Grau Bové, Xavier; Sebé-Pedrós, Arnau (Oxford University Press, 2021)
    Possvm (Phylogenetic Ortholog Sorting with Species oVerlap and MCL [Markov clustering algorithm]) is a tool that automates the process of identifying clusters of orthologous genes from precomputed phylogenetic trees and ...
  • Pancreas agenesis mutations disrupt a lead enhancer controlling a developmental enhancer cluster
    Miguel Escalada, Irene; Maestro, Miguel Ángel; Balboa, Diego; Elek, Anamaria; Bernal, Aina; Bernardo, Edgar; Grau, Vanessa; García-Hurtado, Javier; Sebé-Pedrós, Arnau; Ferrer, Jorge (Elsevier, 2022)
    Sequence variants in cis-acting enhancers are important for polygenic disease, but their role in Mendelian disease is poorly understood. Redundancy between enhancers that regulate the same gene is thought to mitigate the ...
  • Systematic benchmarking of single-cell ATAC-sequencing protocols
    Rop, Florian V. de; Rafels-Ybern, Àlbert; Marchese, Domenica, 1986-; Caratù, Ginevra; Iglesias, Marta; Najle, Sebastián R.; Sebé-Pedrós, Arnau; Heyn, Holger (Nature Research, 2023)
    Single-cell assay for transposase-accessible chromatin by sequencing (scATAC-seq) has emerged as a powerful tool for dissecting regulatory landscapes and cellular heterogeneity. However, an exploration of systemic biases ...
  • The Dynamic Regulatory Genome of Capsaspora and the Origin of Animal Multicellularity
    Sebé-Pedrós, Arnau; Ballaré, Cecilia Julia; Parra-Acero, Helena; Chiva, Cristina; Tena, Juan J.; Sabidó Aguadé, Eduard, 1981-; Gómez Skarmeta, José Luis; Di Croce, Luciano; Ruíz Trillo, Iñaki (Elsevier, 2016)
    The unicellular ancestor of animals had a complex repertoire of genes linked to multicellular processes. This suggests that changes in the regulatory genome, rather than in gene innovation, were key to the origin of animals. ...
  • Using single-cell transcriptomics to understand functional states and interactions in microbial eukaryotes
    Ku, Chuan; Sebé-Pedrós, Arnau (Royal Society, 2019)
    Understanding the diversity and evolution of eukaryotic microorganisms remains one of the major challenges of modern biology. In recent years, we have advanced in the discovery and phylogenetic placement of new eukaryotic ...