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Browsing Articles (Center for Genomic Regulation (CRG)) by Title

Browsing Articles (Center for Genomic Regulation (CRG)) by Title

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  • Gemmell, Neil J.; Santesmasses Ruiz, Didac, 1978-; Mariotti, Marco, 1984-; Guigó Serra, Roderic; Ngatiwai Trust Board (Nature Research, 2020)
    An amendment to this paper has been published and can be accessed via a link at the top of the paper.
  • Matsuo, Yuzy; Maurer, Sebastian; Surrey, Thomas; Toda, Takashi (Elsevier, 2017)
    The Ndc80 complex is a conserved outer kinetochore protein complex consisting of Ndc80 (Hec1), Nuf2, Spc24 and Spc25. This complex comprises a major, if not the sole, platform with which the plus ends of the spindle ...
  • Carballar, Reyes; Canyelles, Maria de Lluc; Fernández, Claudia; Martí, Yasmina; Bonnin, Sarah; Castaño, Esther; Montanya, Eduard; Téllez, Noèlia (Nature Publishing Group, 2017)
    β-cell proliferation is a rare event in adult pancreatic islets. To study the replication-related β-cell biology we designed a replicating β-cells sorting system for gene expression experiments. Replicating β-cells were ...
  • Favreau, Emeline; Cini, Alessandro; Taylor, Daisy; Câmara Ferreira, Francisco; Bentley, Michael A.; Cappa, Federico; Cervo, Rita; Privman, Eyal; Schneider, Jadesada; Thiéry, Denis; Mashoodh, Rahia; Wyatt, Christopher Douglas Robert, 1988-; Brown, Robert L.; Bodrug-Schepers, Alexandrina; Stralis-Pavese, Nancy; Dohm, Juliane C.; Mead, Daniel; Himmelbauer, Heinz; Guigó Serra, Roderic; Sumner, Seirian (Nature Research, 2023)
    Hornets are the largest of the social wasps, and are important regulators of insect populations in their native ranges. Hornets are also very successful as invasive species, with often devastating economic, ecological and ...
  • 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 ...
  • Muñoz-Aguirre, Manuel; Ntasis, Vasilis F.; Rojas, Santiago; Guigó Serra, Roderic (Public Library of Science (PLoS), 2020)
    The development of increasingly sophisticated methods to acquire high-resolution images has led to the generation of large collections of biomedical imaging data, including images of tissues and organs. Many of the current ...
  • Althammer, Sonja Daniela; González-Vallinas Rostes, Juan, 1983-; Ballaré, Cecilia Julia; Beato, Miguel; Eyras Jiménez, Eduardo (Oxford University Press, 2011)
    MOTIVATION: High-throughput sequencing (HTS) has revolutionized gene regulation studies and is now fundamental for the detection of protein-DNA and protein-RNA binding, as well as for measuring RNA expression. With increasing ...
  • Hansen, Peter; Hecht, Jochen; Ibn-Salem, Jonas; Menkuec, Benjamin S.; Roskosch, Sebastian; Truss, Matthias; Robinson, Peter N. (BioMed Central, 2016)
    Background: ChIP-nexus, an extension of the ChIP-exo protocol, can be used to map the borders of protein-bound DNA sequences at nucleotide resolution, requires less input DNA and enables selective PCR duplicate removal ...
  • Olivella, Roger; Chiva, Cristina; Serret, Marc; Mancera, Daniel; Cozzuto, Luca; Hermoso Pulido, Antonio; Borràs, Eva; Espadas, Guadalupe; Morales Sanfrutos, Julia; Pastor, Olga; Solé, Amanda; Ponomarenko, Julia; Sabidó Aguadé, Eduard, 1981- (American Chemical Society (ACS), 2021)
    QCloud is a cloud-based system to support proteomics laboratories in daily quality assessment using a user-friendly interface, easy setup, and automated data processing. Since its release, QCloud has facilitated automated ...
  • Chiva, Cristina; Olivella, Roger; Borràs, Eva; Espadas, Guadalupe; Pastor, Olga; Solé, Amanda; Sabidó Aguadé, Eduard, 1981- (Public Library of Science (PLoS), 2018)
    The increasing number of biomedical and translational applications in mass spectrometry-based proteomics poses new analytical challenges and raises the need for automated quality control systems. Despite previous efforts ...
  • Natarajan, Nivedita; Foresti, Ombretta; Wendrich, Kim; Stein, Alexander; Carvalho, Pedro C. (Elsevier, 2020)
    The inner nuclear membrane (INM) is continuous with the endoplasmic reticulum (ER) but harbors a distinctive proteome essential for nuclear functions. In yeast, the Asi1/Asi2/Asi3 ubiquitin ligase complex safeguards the ...
  • Chiva, Cristina; Mendes Maja, Teresa; Panse, Christian; Stejskal, Karel; Douché, Thibaut; Matondo, Mariette; Loew, Darmarys; Helm, Dominic; Rettel, Mandy; Mechtler, Karl; Impens, Francis; Nanni, Paolo; Shevchenko, Anna; Sabidó Aguadé, Eduard, 1981- (EMBO Press, 2021)
    Proteomics research infrastructures and core facilities within the Core for Life alliance advocate for community policies for quality control to ensure high standards in proteomics services.
  • Martínez Abadías, Neus; Mateu-Estivill, Roger; Sastre-Tomas, Jaume; Motch Perrine, Susan; Yoon, Melissa; Robert Moreno, Alexandre; Swoger, Jim; Russo, Lucia; Kawasaki, Kazuhiko (eLife, 2018)
    The earliest developmental origins of dysmorphologies are poorly understood in many congenital diseases. They often remain elusive because the first signs of genetic misregulation may initiate as subtle changes in gene ...
  • Pablo Fontecha, Verónica; Hernández-Illán, Eva; Reparaz, Andrea; Asensio Juan, Elena; Morata, Jordi; Tonda, Raúl; Lahoz, Sara; Parra, Carolina; Lozano, Juan José; García-Heredia, Anabel; Martínez-Roca, Alejandro; Beltran, Sergi; Balaguer, Francesc; Jover, Rodrigo; Castells, Antoni; Trullàs, Ramón; Podlesniy, Petar; Camps-Puchadas, Jordi (Nature Research, 2023)
    Somatic single-nucleotide variants (SNVs) occur every time a cell divides, appearing even in healthy tissues at low frequencies. These mutations may accumulate as neutral variants during aging, or eventually, promote the ...
  • Fineberg, Adam; Surrey, Thomas; Kukura, Philipp (Elsevier, 2020)
    The αβ-tubulin heterodimer is the fundamental building block of microtubules, making it central to several cellular processes. Despite the apparent simplicity of heterodimerisation, the associated energetics and kinetics ...
  • Lucas, Morghan C.; Pryszcz, Leszek Piotr, 1985-; Medina, Rebeca; Milenkovic, Ivan; Camacho, Noelia; Marchand, Virginie; Motorin, Yuri; Ribas de Pouplana, Lluís; Novoa, Eva Maria (Nature Research, 2024)
    Transfer RNAs (tRNAs) play a central role in protein translation. Studying them has been difficult in part because a simple method to simultaneously quantify their abundance and chemical modifications is lacking. Here we ...
  • Janssens, Hilde; Siggens, Ken; Cicin Sain, Damjan; Jiménez Guri, Eva; Musy, Marco; Akam, Michael; Jaeger, Johannes, 1973- (BioMed Central, 2014)
    Background: Comparative studies of developmental processes are one of the main approaches to evolutionary developmental biology (evo-devo). Over recent years, there has been a shift of focus from the comparative study of ...
  • Mayer, Jürgen, 1977-; Swoger, Jim; Ozga, Aleksandra J.; Stein, Jens V.; Sharpe, James (Hindawi, 2012)
    Deep tissue imaging has become state of the art in biology, but now the problem is to quantify spatial information in a global, organ-wide context. Although access to the raw data is no longer a limitation, the computational ...
  • Begik, Oguzhan; Lucas, Morghan C.; Pryszcz, Leszek Piotr, 1985-; Ramirez, Jose Miguel; Medina, Rebeca; Milenkovic, Ivan; Cruciani, Sonia; Liu, Huanle; Santos Vieira, Helaine Graziele; Sas Chen, Aldema; Mattick, John S.; Schwartz, Schraga; Novoa, Eva Maria (Nature Research, 2021)
    Nanopore RNA sequencing shows promise as a method for discriminating and identifying different RNA modifications in native RNA. Expanding on the ability of nanopore sequencing to detect N6-methyladenosine, we show that ...
  • Karl R., Wotton; Jiménez Guri, Eva; Crombach, Anton; Janssens, Hilde; Alcaine Colet, Anna, 1992-; Lemke, Steffen; Schmidt Ott, Urs; Jaeger, Johannes, 1973- (eLife, 2015)
    The segmentation gene network in insects can produce equivalent phenotypic outputs despite differences in upstream regulatory inputs between species. We investigate the mechanistic basis of this phenomenon through a ...

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