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  • 1
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    Reciprocal binding of PARP-1 and histone H1 at promoters specifies transcriptional outcomes (2008)
    American Association for the Advancement of Science (AAAS)
    Details
    Publication Date: 2008-02-09
    Description: Nucleosome-binding proteins act to modulate the promoter chromatin architecture and transcription of target genes. We used genomic and gene-specific approaches to show that two such factors, histone H1 and poly(ADP-ribose) polymerase-1 (PARP-1), exhibit a reciprocal pattern of chromatin binding at many RNA polymerase II-transcribed promoters. PARP-1 was enriched and H1 was depleted at these promoters. This pattern of binding was associated with actively transcribed genes. Furthermore, we showed that PARP-1 acts to exclude H1 from a subset of PARP-1-stimulated promoters, suggesting a functional interplay between PARP-1 and H1 at the level of nucleosome binding. Thus, although H1 and PARP-1 have similar nucleosome-binding properties and effects on chromatin structure in vitro, they have distinct roles in determining gene expression outcomes in vivo.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Krishnakumar, Raga -- Gamble, Matthew J -- Frizzell, Kristine M -- Berrocal, Jhoanna G -- Kininis, Miltiadis -- Kraus, W Lee -- DK058110/DK/NIDDK NIH HHS/ -- DK069710/DK/NIDDK NIH HHS/ -- R01 DK069710/DK/NIDDK NIH HHS/ -- New York, N.Y. -- Science. 2008 Feb 8;319(5864):819-21. doi: 10.1126/science.1149250.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14853, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/18258916" target="_blank"〉PubMed〈/a〉
    Keywords: Cell Line, Tumor ; Chromatin/*metabolism ; Chromatin Immunoprecipitation ; *Gene Expression Regulation ; Histones/*metabolism ; Humans ; Nucleosomes/metabolism ; Oligonucleotide Array Sequence Analysis ; Poly(ADP-ribose) Polymerases/genetics/*metabolism ; *Promoter Regions, Genetic ; Protein Binding ; RNA Polymerase II/metabolism ; *Transcription, Genetic
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
    Published by American Association for the Advancement of Science (AAAS)
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  • 2
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    Creation of a bacterial cell controlled by a chemically synthesized genome (2010)
    American Association for the Advancement of Science (AAAS)
    Details
    Publication Date: 2010-05-22
    Description: We report the design, synthesis, and assembly of the 1.08-mega-base pair Mycoplasma mycoides JCVI-syn1.0 genome starting from digitized genome sequence information and its transplantation into a M. capricolum recipient cell to create new M. mycoides cells that are controlled only by the synthetic chromosome. The only DNA in the cells is the designed synthetic DNA sequence, including "watermark" sequences and other designed gene deletions and polymorphisms, and mutations acquired during the building process. The new cells have expected phenotypic properties and are capable of continuous self-replication.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Gibson, Daniel G -- Glass, John I -- Lartigue, Carole -- Noskov, Vladimir N -- Chuang, Ray-Yuan -- Algire, Mikkel A -- Benders, Gwynedd A -- Montague, Michael G -- Ma, Li -- Moodie, Monzia M -- Merryman, Chuck -- Vashee, Sanjay -- Krishnakumar, Radha -- Assad-Garcia, Nacyra -- Andrews-Pfannkoch, Cynthia -- Denisova, Evgeniya A -- Young, Lei -- Qi, Zhi-Qing -- Segall-Shapiro, Thomas H -- Calvey, Christopher H -- Parmar, Prashanth P -- Hutchison, Clyde A 3rd -- Smith, Hamilton O -- Venter, J Craig -- New York, N.Y. -- Science. 2010 Jul 2;329(5987):52-6. doi: 10.1126/science.1190719. Epub 2010 May 20.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉The J. Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/20488990" target="_blank"〉PubMed〈/a〉
    Keywords: Bacterial Proteins/analysis ; Base Sequence ; *Bioengineering ; Cloning, Molecular ; DNA, Bacterial/chemical synthesis/genetics ; Escherichia coli/genetics ; Gene Deletion ; Genes, Bacterial ; *Genetic Engineering ; *Genome, Bacterial ; Molecular Sequence Data ; Mycoplasma capricolum/*genetics ; Mycoplasma mycoides/*genetics/growth & development/physiology/ultrastructure ; Phenotype ; Plasmids ; Polymerase Chain Reaction ; Polymorphism, Genetic ; Saccharomyces cerevisiae/genetics ; Transformation, Bacterial
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
    Published by American Association for the Advancement of Science (AAAS)
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  • 3
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    Measurement noise 100 times lower than the quantum-projection limit using entangled atoms (2016)
    Nature Publishing Group (NPG)
    Details
    Publication Date: 2016-01-12
    Description: Quantum metrology uses quantum entanglement--correlations in the properties of microscopic systems--to improve the statistical precision of physical measurements. When measuring a signal, such as the phase shift of a light beam or an atomic state, a prominent limitation to achievable precision arises from the noise associated with the counting of uncorrelated probe particles. This noise, commonly referred to as shot noise or projection noise, gives rise to the standard quantum limit (SQL) to phase resolution. However, it can be mitigated down to the fundamental Heisenberg limit by entangling the probe particles. Despite considerable experimental progress in a variety of physical systems, a question that persists is whether these methods can achieve performance levels that compare favourably with optimized conventional (non-entangled) systems. Here we demonstrate an approach that achieves unprecedented levels of metrological improvement using half a million (87)Rb atoms in their 'clock' states. The ensemble is 20.1 +/- 0.3 decibels (100-fold) spin-squeezed via an optical-cavity-based measurement. We directly resolve small microwave-induced rotations 18.5 +/- 0.3 decibels (70-fold) beyond the SQL. The single-shot phase resolution of 147 microradians achieved by the apparatus is better than that achieved by the best engineered cold atom sensors despite lower atom numbers. We infer entanglement of more than 680 +/- 35 particles in the atomic ensemble. Applications include atomic clocks, inertial sensors, and fundamental physics experiments such as tests of general relativity or searches for electron electric dipole moment. To this end, we demonstrate an atomic clock measurement with a quantum enhancement of 10.5 +/- 0.3 decibels (11-fold), limited by the phase noise of our microwave source.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Hosten, Onur -- Engelsen, Nils J -- Krishnakumar, Rajiv -- Kasevich, Mark A -- England -- Nature. 2016 Jan 28;529(7587):505-8. doi: 10.1038/nature16176. Epub 2016 Jan 11.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Physics, Stanford University, Stanford, California 94305, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/26751056" target="_blank"〉PubMed〈/a〉
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
    Published by Nature Publishing Group (NPG)
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  • 4
    Electronic Resource
    Electronic Resource
    Racemic 1-Acetyl-5-phenyl-3-styryl-2-pyrazoline (1998)
    Oxford [u.a.] : International Union of Crystallography (IUCr)
    Acta crystallographica 54 (1998), S. 976-978 
    Details
    ISSN: 1600-5759
    Source: Crystallography Journals Online : IUCR Backfile Archive 1948-2001
    Topics: Chemistry and Pharmacology , Geosciences , Physics
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1107/S0108270198000146
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  • 5
    Electronic Resource
    Electronic Resource
    Sarcosinium Oxalate Monohydrate (1998)
    Oxford [u.a.] : International Union of Crystallography (IUCr)
    Acta crystallographica 54 (1998), S. 0-0 
    Details
    ISSN: 1600-5759
    Source: Crystallography Journals Online : IUCR Backfile Archive 1948-2001
    Topics: Chemistry and Pharmacology , Geosciences , Physics
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1107/S0108270198099144
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  • 6
    Electronic Resource
    Electronic Resource
    1-Acetyl-5-(4-methoxyphenyl)-3-(4-methoxystyryl)-2-pyrazoline and 1-acetyl-5-(2-chlorophenyl)-3-(2-chlorostyryl)-2-pyrazoline (1999)
    Oxford [u.a.] : International Union of Crystallography (IUCr)
    Acta crystallographica 55 (1999), S. 987-990 
    Details
    ISSN: 1600-5759
    Source: Crystallography Journals Online : IUCR Backfile Archive 1948-2001
    Topics: Chemistry and Pharmacology , Geosciences , Physics
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1107/S0108270199000712
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  • 7
    Electronic Resource
    Electronic Resource
    DL-Alaninium oxalate (2001)
    Copenhagen : International Union of Crystallography (IUCr)
    Acta crystallographica 57 (2001), S. o666-o668 
    Details
    ISSN: 1600-5368
    Source: Crystallography Journals Online : IUCR Backfile Archive 1948-2001
    Topics: Chemistry and Pharmacology , Geosciences , Physics
    Notes: In the title compound, C3H8NO2+·C2HO4−, the alanine molecule exists in the protonated cationic form and the oxalic acid molecule in the mono-ionized state. The alanine molecules dimerize across inversion centres through head-to-tail N—H...O hydrogen bonds. The semi-oxalate ions aggregate into hydrogen-bonded strings along the shortest cell axis. The crystal structure is also characterized by the presence of a C—H...O hydrogen bond and a short C...O contact between amino acids.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1107/S1600536801010558
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  • 8
    Electronic Resource
    Electronic Resource
    DL-Threoninium oxalate (2001)
    Copenhagen : International Union of Crystallography (IUCr)
    Acta crystallographica 57 (2001), S. o769-o771 
    Details
    ISSN: 1600-5368
    Source: Crystallography Journals Online : IUCR Backfile Archive 1948-2001
    Topics: Chemistry and Pharmacology , Geosciences , Physics
    Notes: In the title compound, C4H10NO3+.C2HO4−, the DL-threonine molecule exists as a cation and the oxalic acid molecule in the mono-ionized state. The molecules aggregate into infinite parallel layers which extend along the diagonal of the ac plane. These layers have no hydrogen-bonded interactions between them, only van der Waals interactions. The semi-oxalate ion deviates far from planarity. No classic head-to-tail hydrogen bonds are observed.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1107/S1600536801012193
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  • 9
    Electronic Resource
    Electronic Resource
    Dichlorobis(DL-valine)zinc(II) (2001)
    Copenhagen : International Union of Crystallography (IUCr)
    Acta crystallographica 57 (2001), S. m498-m500 
    Details
    ISSN: 1600-5368
    Source: Crystallography Journals Online : IUCR Backfile Archive 1948-2001
    Topics: Chemistry and Pharmacology , Geosciences , Physics
    Notes: In the title compound, [ZnCl2(C5H11NO2)2], the Zn atom lies on the twofold axis within the unit cell, with two symmetrically related valine molecules coordinating to it as ligands. The observed asymmetry of the carboxylate group is most likely a result of the participation of only one of the carboxyl O atoms in the coordination environment. Zinc has a distorted tetrahedral environment with twofold-related Cl atoms and two carboxyl O atoms, one each from the twofold-related valine molecules in the asymmetric unit.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1107/S1600536801016099
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  • 10
    Electronic Resource
    Electronic Resource
    Glycine sodium nitrate (2001)
    Oxford [u.a.] : International Union of Crystallography (IUCr)
    Acta crystallographica 57 (2001), S. 1149-1150 
    Details
    ISSN: 1600-5759
    Source: Crystallography Journals Online : IUCR Backfile Archive 1948-2001
    Topics: Chemistry and Pharmacology , Geosciences , Physics
    Notes: The glycine molecule in the title compound, Na(NO3)·C2H5NO2, exists in the zwitterionic form. The Na atom exhibits eightfold coordination and the polyhedron may be visualized as a distorted hexagonal bipyramid. The glycine molecules are linked through head-to-tail hydrogen bonds and are found `sandwiched' between the Na(NO3) layers.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1107/S0108270101011520
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