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4. Histone H3.3 regulates mitotic progression in mouse embryonic fibroblasts

Author

Ors, Aysegul, Papin, Christophe, Favier, Bertrand, Roulland, Yohan, Dalkara, Defne, Ozturk, Mehmet, Hamiche, Ali, Dimitrov, Stefan, and Padmanabhan, Kiran

Subjects
Embryo -- Physiological aspects -- Genetic aspects, Histones -- Physiological aspects -- Genetic aspects, Mitosis -- Genetic aspects -- Physiological aspects, Fibroblasts -- Physiological aspects -- Genetic aspects, Genetic transcription -- Physiological aspects -- Genetic aspects, Biological sciences
Abstract

Abstract: H3.3 is a histone variant that marks transcription start sites as well as telomeres and heterochromatic sites on the genome. The presence of H3.3 is thought to positively correlate [...]

Published
2017
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5. Dual role of histone variant H3.3B in spermatogenesis: positive regulation of piRNA transcription and implication in X-chromosome inactivation

Author

Fontaine, Emeline, primary, Papin, Christophe, additional, Martinez, Guillaume, additional, Le Gras, Stéphanie, additional, Nahed, Roland Abi, additional, Héry, Patrick, additional, Buchou, Thierry, additional, Ouararhni, Khalid, additional, Favier, Bertrand, additional, Gautier, Thierry, additional, Sabir, Jamal S M, additional, Gerard, Matthieu, additional, Bednar, Jan, additional, Arnoult, Christophe, additional, Dimitrov, Stefan, additional, and Hamiche, Ali, additional

Published
2022
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7. ANP32E is a histone chaperone that removes H2A.Z from chromatin

Author

Obri, Arnaud, Ouararhni, Khalid, Papin, Christophe, Diebold, Marie-Laure, Padmanabhan, Kiran, Marek, Martin, Stoll, Isabelle, Roy, Ludovic, Reilly, Patrick T., Mak, Tak W., Dimitrov, Stefan, Romier, Christophe, and Hamiche, Ali

Subjects
Chromatin -- Physiological aspects, Histones -- Physiological aspects, Molecular chaperones -- Physiological aspects, Environmental issues, Science and technology, Zoology and wildlife conservation
Abstract

H2A.Z is an essential histone variant implicated in the regulation of key nuclear events. However, the metazoan chaperones responsible for H2A.Z deposition and its removal from chromatin remain unknown. Here we report the identification and characterization of the human protein ANP32E as a specific H2A.Z chaperone. We show that ANP32E is a member of the presumed H2A.Z histone-exchange complex p400/TIP60. ANP32E interacts with a short region of the docking domain of H2A.Z through a new motif termed H2A.Z interacting domain (ZID). The 1.48 Å resolution crystal structure of the complex formed between the ANP32E-ZID and the H2A.Z/H2B dimer and biochemical data support an underlying molecular mechanism for H2A.Z/H2B eviction from the nucleosome and its stabilization by ANP32E through a specific extension of the H2A.Z carboxy-terminal [alpha]-helix. Finally, analysis of H2A.Z localization in ANP32E.sup.-/- cells by chromatin immunoprecipitation followed by sequencing shows genome-wide enrichment, redistribution and accumulation of H2A.Z at specific chromatin control regions, in particular at enhancers and insulators. Human protein ANP32E is a histone chaperone that promotes removal of H2A.Z from chromatin. Chaperoning a histone variant The histone H2A.Z is a variant of histone H2A, one of the canonical histones present in the chromatin of eukaryotic cells. H2A.Z has important functions in transcription and other nuclear processes. Here, Ali Hamiche and colleagues identify the human protein ANP32E as an H2A.Z chaperone capable of promoting the removal of H2A.Z from chromatin. Biochemical and structural data indicate the molecular basis for H2A.Z recognition and eviction by ANP32E, and genome-wide mapping analyses reveal how ANP32E regulates H2A.Z occupancy at important regulatory regions of the genome., Author(s): Arnaud Obri [sup.1] , Khalid Ouararhni [sup.1] , Christophe Papin [sup.1] , Marie-Laure Diebold [sup.2] , Kiran Padmanabhan [sup.3] , Martin Marek [sup.2] , Isabelle Stoll [sup.1] , Ludovic [...]

Published
2014
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10. Towards extracting semantically meaningful key frames from personal video clips: from humans to computers

Author

Luo, Jiebo, Papin, Christophe, and Costello, Kathleen

Subjects
Image processing -- Methods, Digital video -- Properties, Motion perception (Vision) -- Technology application, Frames (Information theory) -- Properties, Digital video, Technology application, Business, Computers, Electronics, Electronics and electrical industries
Abstract

Extracting key frames from video is of great interest in many applications, such as video summary, video organization, video compression, and prints from video. Key frame extraction is not a new problem but existing literature has focused primarily on sports or news video. In the personal or consumer video space, the biggest challenges for key frame selection are the unconstrained content and lack of any pre-imposed structures. First, in a psycho-visual study, we conduct ground truth collection of key frames from video clips taken by digital cameras (as opposed to camcorders) using both first- and third-party judges. The goals of this study are to: 1) create a reference database of video clips reasonably representative of the consumer video space; 2) identify consensus key frames by which automated algorithms can be compared and judged for effectiveness, i.e., ground truth; and 3) uncover the criteria used by both first- and third-party human judges so these criteria can influence algorithm design. Next, we develop an automatic key frame extraction method dedicated to summarizing consumer video clips acquired from digital cameras. Analysis of spatio-temporal changes over time provides semantically meaningful information about the scene and the camera operator's general intents. In particular, camera and object motion are estimated and used to derive motion descriptors. A video clip is segmented into homogeneous parts based on major types of camera motion (e.g., pan, zoom, pause, steady). Dedicated rules are used to extract candidate key frames from each segment. In addition, confidence measures are computed for the candidates to enable ranking in semantic relevance. This method is scalable so that one can produce any desired number of key frames from the candidates. Finally, we demonstrate the effectiveness of our method by comparing the results with two alternative methods against the ground truth agreed by multiple judges. Index Terms--Camera motion, consumer video clips, digital video, ground truth, key frame extraction, object motion, scene analysis, video analysis, video summary.

Published
2009

11. CpG Islands Shape the Epigenome Landscape

Author

Papin, Christophe, primary, Le Gras, Stéphanie, additional, Ibrahim, Abdulkhaleg, additional, Salem, Hatem, additional, Karimi, Mohammad Mahdi, additional, Stoll, Isabelle, additional, Ugrinova, Iva, additional, Schröder, Maria, additional, Fontaine-Pelletier, Emeline, additional, Omran, Ziad, additional, Bronner, Christian, additional, Dimitrov, Stefan, additional, and Hamiche, Ali, additional

Published
2021
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14. Unsupervised segmentation of low clouds from infrared METEOSAT images based on a contextual spatio-temporal labeling approach

Author

Papin, Christophe, Bouthemy, Patrick, and Rochard, Guy

Subjects
Earth sciences -- Research, Clouds -- Photographs from space, Business, Earth sciences, Electronics and electrical industries
Abstract

The early and accurate segmentation of low clouds during the night-time is an important task for nowcasting. It requires that observations can be acquired at a sufficient time rate as provided by the geostationary METEOSAT satellite over Europe. However, the information supplied by the single infrared METEOSAT channel available by night is not sufficient to discriminate between low clouds and ground during night from a single image. To tackle this issue, we consider several sources of information extracted from an infrared image sequence. Indeed, we exploit both relevant local motion-based measurements, intensity images and thermal parameters estimated over blocks, along with local contextual information. A statistical contextual labeling process in two classes, involving 'low clouds' and 'clear sky,' is performed on the warmer pixels. It is formulated within a Bayesian estimation framework associated with Markov random field (MRF) models. This comes to minimize a global energy function comprising three terms: two data-driven terms (thermal and motion-based ones) and a regularization term expressing a priori knowledge on the label field (expected spatial contextual properties). We propose a progressive minimization procedure of this energy function starting from initial reliably labeled pixels and involving only local computation. Thermal parameters associated to each class are estimated according to an unsupervised learning scheme enabling the handling of spatiotemporal nonstationarities. Our method produces segmentation maps displaying temporal coherency along the image sequence. Experimental results on representative meteorological situations are reported and favorably compared with NOAA/AVHRR cloud classifications which serve as reference results. They demonstrate the accuracy and efficiency of the proposed approach. Index Terms--Contextual labeling, low clouds detection, Markov random field (MRF) models, METEOSAT satellite images, spatio-temporal image segmentation, thermal parameters estimation.

Published
2002

19. Thymoquinone challenges UHRF1 to commit auto-ubiquitination: a key event for apoptosis induction in cancer cells

Author

Ibrahim, Abdulkhaleg, primary, Alhosin, Mahmoud, additional, Papin, Christophe, additional, Ouararhni, Khalid, additional, Omran, Ziad, additional, Zamzami, Mazin A., additional, Al-Malki, Abdulrahman Labeed, additional, Choudhry, Hani, additional, Mély, Yves, additional, Hamiche, Ali, additional, Mousli, Marc, additional, and Bronner, Christian, additional

Published
2018
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20. H1–nucleosome interactions and their functional implications

Author

Sharma, Abhishek Bharadwaj, Van Dyck, Eric, Razvi, Syed Shoeb, Hasan, Mohammed Nihal, Hassan, Mohammed, Moselhy, Said Salama, Abualnaja, Khalid Omer, Kumosani, Taha Abduallah, Halwani, Majed, Asami, Tadao, Shukla, Manu, Soueidan, Lama, Noirclerc-Savoye, Marjolaine, Le Roy, Aline, Omran, Ziad, Zamzami, Mazin, Al-Malki, Abdulrahman Labeed, Choudhry, Hani, Andronov, Leonid, Michalon, Jonathan, Orlov, Igor, Vonesch, Jean-Luc, Klaholz, Bruno, Richert, Ludovic, Ashraf, Waseem, Alhosin, Mahmoud, Zaayter, Liliyana, Ahmad, Tanveer, Mély, Yves, Mousli, Marc, Garcia-Saez, Isabel, Cutter, Amber, Reymer, Anna, Syed, Sajad, Tonchev, Ognyan, Crucifix, Corinne, Lavery, Richard, Hayes, Jeffrey, Petosa, Carlo, Ibrahim, Abdulkhaleg, Gras, Stéphanie Le, VELT, Amandine, Jost, Bernard, Bronner, Christian, Fromental-Ramain, Catherine, Ramain, Philippe, Ors, Aysegul, Favier, Bertrand, Dalkara, Defne, Ozturk, Mehmet, Naidenov, Mladen, Ramos, Lorrie, Shuaib, Muhammad, Syed, Sajad Hussain, Lone, Imtiaz Nizar, Boopathi, Ramachandran, Fontaine, Emeline, Papai, Gabor, Tachiwana, Hiroaki, Gautier, Thierry, Skoufias, Dimitrios, Padmanabhan, Kiran, Kurumizaka, Hitoshi, Schultz, Patrick, Charles Richard, John Lalith, Shukla, Manu Shubhdarshan, Menoni, Hervé, Lone, Imtiaz Nisar, Roulland, Yohan, Ben Simon, Elsa, Kundu, Tapas, Angelov, Dimitar, Latrick, Chrysa, Marek, Martin, Ouararhni, Khalid, Papin, Christophe, Stoll, Isabelle, Ignatyeva, Maria, Obri, Arnaud, Ennifar, Eric, Romier, Christophe, Bednar, Jan, Hamiche, Ali, Dimitrov, Stefan, Institute for Advanced Biosciences / Institut pour l'Avancée des Biosciences (Grenoble) (IAB), Centre Hospitalier Universitaire [Grenoble] (CHU)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Etablissement français du sang - Auvergne-Rhône-Alpes (EFS)-Université Grenoble Alpes [2016-2019] (UGA [2016-2019]), Laboratoire de Biologie Moléculaire de la Cellule (LBMC), Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-École normale supérieure - Lyon (ENS Lyon)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon, Institut de biologie structurale (IBS - UMR 5075 ), Institut de Recherche Interdisciplinaire de Grenoble (IRIG), Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes [2016-2019] (UGA [2016-2019]), Institut de génétique et biologie moléculaire et cellulaire (IGBMC), Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Université Louis Pasteur - Strasbourg I, Fonctions et dysfonctions épithéliales - UFC (EA 4267) (FDE), Université de Franche-Comté (UFC), Université Bourgogne Franche-Comté [COMUE] (UBFC)-Université Bourgogne Franche-Comté [COMUE] (UBFC), Laboratoire de Bioimagerie et Pathologies (UMR 7021), Université de Strasbourg (UNISTRA), Laboratoire de Biophotonique et Pharmacologie - UMR 7213 (LBP), Réseau nanophotonique et optique, Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Centre National de la Recherche Scientifique (CNRS), Laboratoire de Bioimagerie et Pathologies (LBP), Université de Strasbourg (UNISTRA)-Centre National de la Recherche Scientifique (CNRS), Institut de biologie et chimie des protéines [Lyon] (IBCP), Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Centre National de la Recherche Scientifique (CNRS), Institute for advanced biosciences, Uiversité de Lyon, Institut de Génétique et de Biologie Moléculaire et Cellulaire (IGBMC), Université de Strasbourg (UNISTRA)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), Laboratoire de biochimie théorique [Paris] (LBT (UPR_9080)), Centre National de la Recherche Scientifique (CNRS)-Université Paris Diderot - Paris 7 (UPD7)-Institut de biologie physico-chimique (IBPC (FR_550)), Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS), Santé de la vigne et qualité du vin (SVQV), Université Louis Pasteur - Strasbourg I-Institut National de la Recherche Agronomique (INRA), Centre Léon Bérard [Lyon], Department of Medical Biology and Genetics, School of Medicine-Dokuz Eylul University, Institut d'oncologie/développement Albert Bonniot de Grenoble (INSERM U823), Institut National de la Santé et de la Recherche Médicale (INSERM)-EFS-CHU Grenoble-Université Joseph Fourier - Grenoble 1 (UJF), Institut cellule souche et cerveau (U846 Inserm - UCBL1), Université de Lyon-Université de Lyon-Institut National de la Santé et de la Recherche Médicale (INSERM), Université Paris sciences et lettres (PSL), Synchronous programming for the trusted component-based engineering of embedded systems and mission-critical systems (ESPRESSO), Institut de Recherche en Informatique et Systèmes Aléatoires (IRISA), Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-Institut National des Sciences Appliquées - Rennes (INSA Rennes), Institut National des Sciences Appliquées (INSA)-Université de Rennes (UNIV-RENNES)-Institut National des Sciences Appliquées (INSA)-Institut National de Recherche en Informatique et en Automatique (Inria)-Centre National de la Recherche Scientifique (CNRS)-Université de Rennes 1 (UR1), Institut National des Sciences Appliquées (INSA)-Université de Rennes (UNIV-RENNES)-Institut National des Sciences Appliquées (INSA)-Institut National de Recherche en Informatique et en Automatique (Inria)-Centre National de la Recherche Scientifique (CNRS)-Inria Rennes – Bretagne Atlantique, Institut National de Recherche en Informatique et en Automatique (Inria), Waseda University, Molecular Biology and Genetics Unit [Bangalore, India] (Transcription and Disease Laboratory), Jawaharlal Nehru Centre for Advanced Scientific Research (JNCASR)-Indian Institute of Science, Biologie moléculaire et cellulaire de la différenciation, Université Joseph Fourier - Grenoble 1 (UJF)-Institut Albert Bonniot-Institut National de la Santé et de la Recherche Médicale (INSERM), Laboratoire de biologie moléculaire eucaryote (LBME), Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Centre de Biologie Intégrative (CBI), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS), Architecture et réactivité de l'ARN (ARN), Université Louis Pasteur - Strasbourg I-Centre National de la Recherche Scientifique (CNRS), Laboratoire de Spectrométrie Physique (LSP), Université Joseph Fourier - Grenoble 1 (UJF)-Centre National de la Recherche Scientifique (CNRS), INSERM U823, équipe 4 (Chromatine et Epigénétique), Institut National de la Santé et de la Recherche Médicale (INSERM)-EFS-CHU Grenoble-Université Joseph Fourier - Grenoble 1 (UJF)-Institut National de la Santé et de la Recherche Médicale (INSERM)-EFS-CHU Grenoble-Université Joseph Fourier - Grenoble 1 (UJF), Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA), Centre Hospitalier Universitaire [Grenoble] (CHU)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Etablissement français du sang - Auvergne-Rhône-Alpes (EFS)-Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes [2016-2019] (UGA [2016-2019]), Université Grenoble Alpes [2016-2019] (UGA [2016-2019])-Institut de Recherche Interdisciplinaire de Grenoble (IRIG), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Centre National de la Recherche Scientifique (CNRS), Université Louis Pasteur - Strasbourg I-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), Centre National de la Recherche Scientifique (CNRS)-Réseau nanophotonique et optique, Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA)), Université Paris Diderot - Paris 7 (UPD7)-Centre National de la Recherche Scientifique (CNRS)-Institut de biologie physico-chimique (IBPC (FR_550)), Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)-Institut de Chimie du CNRS (INC), Institut National de la Recherche Agronomique (INRA)-Université de Strasbourg (UNISTRA), School of Medicine-Dokuz Eylül Üniversitesi = Dokuz Eylül University [Izmir] (DEÜ), Université Joseph Fourier - Grenoble 1 (UJF)-CHU Grenoble-EFS-Institut National de la Santé et de la Recherche Médicale (INSERM), Institut National de la Santé et de la Recherche Médicale (INSERM)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National de la Recherche Agronomique (INRA), Centre National de la Recherche Scientifique (CNRS)-Centre de Biologie Intégrative (CBI), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS), Centre National de la Recherche Scientifique (CNRS)-Université Louis Pasteur - Strasbourg I, Université Joseph Fourier - Grenoble 1 (UJF)-CHU Grenoble-EFS-Institut National de la Santé et de la Recherche Médicale (INSERM)-Université Joseph Fourier - Grenoble 1 (UJF)-CHU Grenoble-EFS-Institut National de la Santé et de la Recherche Médicale (INSERM), Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL), Centre National de la Recherche Scientifique (CNRS)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Sorbonne Université (SU)-Institut de Chimie du CNRS (INC), Institut National de la Recherche Agronomique (INRA)-Université Claude Bernard Lyon 1 (UCBL), Centre Hospitalier Universitaire [Grenoble] (CHU)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Etablissement français du sang - Auvergne-Rhône-Alpes (EFS)-Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes (UGA), École normale supérieure - Lyon (ENS Lyon)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), Institut de biologie structurale (IBS - UMR 5075), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Grenoble Alpes (UGA)-Centre National de la Recherche Scientifique (CNRS), Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Centre National de la Recherche Scientifique (CNRS), Laboratoire de Bioimagerie et Pathologie (LBP), Centre National de la Recherche Scientifique (CNRS)-Institut de biologie physico-chimique (IBPC), Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Diderot - Paris 7 (UPD7), Institut National de la Recherche Agronomique (INRA)-Université Louis Pasteur - Strasbourg I, Centre National de la Recherche Scientifique (CNRS), Institut cellule souche et cerveau / Stem Cell and Brain Research Institute (SBRI), PSL Research University (PSL), Université Paris Diderot - Paris 7 (UPD7)-Institut de biologie physico-chimique (IBPC), and Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)

Subjects
0301 basic medicine, Histone-modifying enzymes, Molecular Sequence Data, Biophysics, Biochemistry, Histones, 03 medical and health sciences, Structural Biology, [SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Genomics [q-bio.GN], Genetics, Animals, Humans, Nucleosome, Histone code, Amino Acid Sequence, Molecular Biology, ComputingMilieux_MISCELLANEOUS, Chromatin Fiber, 030102 biochemistry & molecular biology, biology, Chromatin Assembly and Disassembly, Linker DNA, Nucleosomes, Chromatin, 030104 developmental biology, Histone, Gene Expression Regulation, Chromatosome, biology.protein
Abstract

Linker histones are three domain proteins and consist of a structured (globular) domain, flanked by two likely non-structured NH2- and COOH-termini. The binding of the linker histones to the nucleosome was characterized by different methods in solution. Apparently, the globular domain interacts with the linker DNA and the nucleosome dyad, while the binding of the large and rich in lysines COOH-terminus results in "closing" the linker DNA of the nucleosome and the formation of the "stem" structure. What is the mode of binding of the linker histones within the chromatin fiber remains still elusive. Nonetheless, it is clear that linker histones are essential for both the assembly and maintenance of the condensed chromatin fiber. Interestingly, linker histones are post-translationally modified and how this affects both their binding to chromatin and functions is now beginning to emerge. In addition, linker histones are highly mobile in vivo, but not in vitro. No explanation of this finding is reported for the moment. The higher mobility of the linker histones should, however, have strong impact on their function. Linker histones plays an important role in gene expression regulation and other chromatin related process and their function is predominantly regulated by their posttranslational modifications. However, the detailed mechanism how the linker histones do function remains still not well understood despite numerous efforts. Here we will summarize and analyze the data on the linker histone binding to the nucleosome and the chromatin fiber and will discuss its functional consequences.

Published
2016
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21. Structure and Dynamics of a 197 bp Nucleosome in Complex with Linker Histone H1

Author

Bednar, Jan, primary, Garcia-Saez, Isabel, additional, Boopathi, Ramachandran, additional, Cutter, Amber R., additional, Papai, Gabor, additional, Reymer, Anna, additional, Syed, Sajad H., additional, Lone, Imtiaz Nisar, additional, Tonchev, Ognyan, additional, Crucifix, Corinne, additional, Menoni, Hervé, additional, Papin, Christophe, additional, Skoufias, Dimitrios A., additional, Kurumizaka, Hitoshi, additional, Lavery, Richard, additional, Hamiche, Ali, additional, Hayes, Jeffrey J., additional, Schultz, Patrick, additional, Angelov, Dimitar, additional, Petosa, Carlo, additional, and Dimitrov, Stefan, additional

Published
2017
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23. Combinatorial DNA methylation codes at repetitive elements

Author

Papin, Christophe, primary, Ibrahim, Abdulkhaleg, additional, Gras, Stéphanie Le, additional, Velt, Amandine, additional, Stoll, Isabelle, additional, Jost, Bernard, additional, Menoni, Hervé, additional, Bronner, Christian, additional, Dimitrov, Stefan, additional, and Hamiche, Ali, additional

Published
2017
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24. FACT Assists Base Excision Repair by Boosting the Remodeling Activity of RSC

Author

Charles Richard, John Lalith, primary, Shukla, Manu Shubhdarshan, additional, Menoni, Hervé, additional, Ouararhni, Khalid, additional, Lone, Imtiaz Nisar, additional, Roulland, Yohan, additional, Papin, Christophe, additional, Ben Simon, Elsa, additional, Kundu, Tapas, additional, Hamiche, Ali, additional, Angelov, Dimitar, additional, and Dimitrov, Stefan, additional

Published
2016
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27. Recherche-action pour apprécier l'utilité du concept de Business Model pour les jeunes dirigeants d'entreprise du bâtiment

Author

Verstraete, Thierry, primary, Jouison-Laffitte, Estèle, additional, Kremer, Florence, additional, Hlady, Martine, additional, Boncler, Jérome, additional, Boucher, Thomas, additional, Bousquet, François, additional, Dondi, Jean, additional, Meiar, Alain, additional, Papin, Christophe, additional, and Scipion, Fabrice, additional

Published
2012
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31. Towards Extracting Semantically Meaningful Key Frames From Personal Video Clips: From Humans to Computers.

Author

Jiebo Luo, Papin, Christophe, and Costello, Kathleen

Subjects
*VIDEO compression, *VIDEO recording, *VIDEO excerpts, *CAMCORDERS, *SCALABILITY, *DIGITAL video, *IMAGE compression, *DIGITAL cameras
Abstract

Extracting key frames from video is of great interest in many applications, such as video summary, video organization, video compression, and prints from video. Key frame extraction is not a new problem but existing literature has focused primarily on sports or news video. In the personal or consumer video space, the biggest challenges for key frame selection are the unconstrained content and lack of any pre-imposed structures. First, in a psycho- visual study, we conduct ground truth collection of key frames from video clips taken by digital cameras (as opposed to camcorders) using both first- and third-party judges. The goals of this study are to: 1) create a reference database of video clips reasonably representative of the consumer video space; 2) identify consensus key frames by which automated algorithms can be compared and judged for effectiveness, i.e., ground truth; and 3) uncover the criteria used by both first- and third-party human judges so these criteria can influence algorithm design. Next, we develop an automatic key frame extraction method dedicated to summarizing consumer video clips acquired from digital cameras. Analysis of spatio-temporal changes over time provides semantically meaningful information about the scene and the camera operator's general intents. In particular, camera and object motion are estimated and used to derive motion descriptors. A video clip is segmented into homogeneous parts based on major types of camera motion (eg., pan, zoom, pause, steady). Dedicated rules are used to extract candidate key frames from each segment. In addition, confidence measures are computed for the candidates to enable ranking in semantic relevance. This method is scalable so that one can produce any desired number of key frames from the candidates. Finally, we demonstrate the effectiveness of our method by comparing the results with two alternative methods against the ground truth agreed by multiple judges. [ABSTRACT FROM AUTHOR]

Published
2009
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