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Visualitza Departament de Medicina i Ciències de la Vida per matèria "Biologia molecular"

Ara mostrant els elements 1-13 de 13

A protocol to quantify chromatin compaction with confocal and super-resolution microscopy in cultured cells

Martin, Laura; Vicario, Chiara; Castells García, Àlvaro, 1991-; Lakadamyali, Melike; Neguembor, Maria Victoria; Cosma, Maria Pia (Elsevier, 2021)

Here, we describe three complementary microscopy-based approaches to quantify morphological changes of chromatin organization in cultured adherent cells: the analysis of the coefficient of variation of DNA, the measurement ...
Clustering of aromatic residues in prion-like domains can tune the formation, state, and organization of biomolecular condensates

Holehouse, Alex S.; Ginell, Garret M.; Griffith, Daniel; Böke, Elvan (American Chemical Society (ACS), 2021)

In immature oocytes, Balbiani bodies are conserved membraneless condensates implicated in oocyte polarization, the organization of mitochondria, and long-term organelle and RNA storage. In Xenopus laevis, Balbiani body ...
EGASP: Introduction

Reese, Martin G.; Guigó Serra, Roderic (BioMed Central, 2006)
EGASP: the human ENCODE Genome Annotation Assessment Project

Guigó Serra, Roderic; Flicek, Paul; Abril Ferrando, Josep Francesc; Reymond, Alexandre; Lagarde, Julien; Denoeud, France; Antonarakis, Stylianos E.; Ashburner, Michael; Bajic, Vladimir B.; Birney, Ewan; Castelo Valdueza, Robert; Eyras Jiménez, Eduardo; Ucla, Catherine; Gingeras, Thomas R.; Harrow, Jennifer; Hubbard, Tim J.; Lewis, Suzanna E.; Reese, Martin G. (BioMed Central, 2006)

Background: We present the results of EGASP, a community experiment to assess the state-ofthe-/nart in genome annotation within the ENCODE regions, which span 1% of the human genome/nsequence. The experiment had two major ...
Identification of genetic variants associated with alternative splicing using sQTLseekeR

Monlong, Jean; Calvo, Miquel (Calvo Llorca); Ferreira, Pedro G.; Guigó Serra, Roderic (Nature Publishing Group, 2014)

Identification of genetic variants affecting splicing in RNA sequencing population studies is still in its infancy. Splicing phenotype is more complex than gene expression and ought to be treated as a multivariate phenotype ...
Integrative pathway enrichment analysis of multivariate omics data

Paczkowska, Marta; Barenboim, Jonathan; Sintupisut, Nardnisa; Fox, Natalie S.; Zhu, Helen; Abd-Rabbo, Diala; Mee, Miles W.; Boutros, Paul C.; PCAWG Drivers and Functional Interpretation Working Group; Reimand, Jüri; PCAWG Consortium; Deu-Pons, Jordi; González Pérez, Abel; Gut, Ivo Glynne; Muiños, Ferran; Mularoni, Loris; Pich, Oriol; Rubio Pérez, Carlota; Sabarinathan, Radhakrishnan; Tamborero Noguera, David (Nature Research, 2020)

Multi-omics datasets represent distinct aspects of the central dogma of molecular biology. Such high-dimensional molecular profiles pose challenges to data interpretation and hypothesis generation. ActivePathways is an ...
Limiting replication stress during somatic cell reprogramming reduces genomic instability in induced pluripotent stem cells

Ruiz, Sergio; Lopez Contreras, Andres J.; Gabut, Mathieu; Marion, Rosa M.; Gutiérrez Martínez, Paula; Bua, Sabela; Ramírez, Oscar; Olalde Marquínez, Íñigo, 1987-; Rodrigo Perez, Sara; Li, Han; Marquès i Bonet, Tomàs, 1975-; Serrano, Manuel; Blasco, Maria A.; Batada, Nizar N.; Fernández Capetillo, Oscar (Nature Publishing Group, 2015)

The generation of induced pluripotent stem cells (iPSC) from adult somatic cells is one of the most remarkable discoveries in recent decades. However, several works have reported evidence of genomic instability in iPSC, ...
Mutation patterns of amino acid tandem repeats in the human proteome

Mularoni, Loris; Guigó Serra, Roderic; Albà Soler, Mar (BioMed Central, 2006)

Background: Amino acid tandem repeats are found in nearly one-fifth of human proteins. Abnormal expansion of these regions is associated with several human disorders. To gain further insight into the mutational mechanisms ...
pyFoldX: enabling biomolecular analysis and engineering along structural ensembles

Radusky, Leandro; Serrano Pubull, Luis, 1982- (Oxford University Press, 2022)

Recent years have seen an increase in the number of structures available, not only for new proteins but also for the same protein crystallized with different molecules and proteins. While protein design software have proven ...
SelenoDB 1.0 : a database of selenoprotein genes, proteins and SECIS elements

Castellano Hereza, Sergi; Gladyshev, Vadim N.; Guigó Serra, Roderic; Berry, Marla J. (Oxford University Press, 2008)

Selenoproteins are a diverse group of proteins/nusually misidentified and misannotated in sequence/ndatabases. The presence of an in-frame UGA (stop)/ncodon in the coding sequence of selenoprotein/ngenes precludes their ...
Tandem chimeric transcription as a means to increase protein diversity in the human genome

Parra Farré, Genís; Reymond, Alexandre; Dabbouseh, Noura; Dermitzakis, Emmanuouil T.; Thomson, Timothy M.; Antonarakis, Stylianos E.; Guigó Serra, Roderic (Cold Spring Harbor Laboratory Press-CSHL Press, 2006)

The “one-gene, one-protein” rule, coined by Beadle and Tatum, has been fundamental to molecular biology. The rule implies that the genetic complexity of an organism depends essentially on its gene number. The discovery, ...
Transcription factor map alignment of promoter regions

Blanco, Enrique; Messeguer, Xavier; Smith, Temple F.; Guigó Serra, Roderic (Public Library of Science (PLoS), 2006)

We address the problem of comparing and characterizing the promoter regions of genes with similar expression patterns. This remains a challenging problem in sequence analysis, because often the promoter regions of co-expressed ...
Update on metabolomic findings in COPD patients

Gea Guiral, Joaquim; Enríquez-Rodríguez, César J.; Agranovich, Bella; Pascual Guàrdia, Sergi, 1979- (European Respiratory Society, 2023)

COPD is a heterogeneous disorder that shows diverse clinical presentations (phenotypes and "treatable traits") and biological mechanisms (endotypes). This heterogeneity implies that to carry out a more personalised clinical ...