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Showing papers by "Max Planck Society published in 2007"


Journal ArticleDOI
TL;DR: In this article, the authors present the most common spectral clustering algorithms, and derive those algorithms from scratch by several different approaches, and discuss the advantages and disadvantages of these algorithms.
Abstract: In recent years, spectral clustering has become one of the most popular modern clustering algorithms. It is simple to implement, can be solved efficiently by standard linear algebra software, and very often outperforms traditional clustering algorithms such as the k-means algorithm. On the first glance spectral clustering appears slightly mysterious, and it is not obvious to see why it works at all and what it really does. The goal of this tutorial is to give some intuition on those questions. We describe different graph Laplacians and their basic properties, present the most common spectral clustering algorithms, and derive those algorithms from scratch by several different approaches. Advantages and disadvantages of the different spectral clustering algorithms are discussed.

9,141 citations


Journal ArticleDOI
TL;DR: This review focuses on the synthesis, protection, functionalization, and application of magnetic nanoparticles, as well as the magnetic properties of nanostructured systems.
Abstract: This review focuses on the synthesis, protection, functionalization, and application of magnetic nanoparticles, as well as the magnetic properties of nanostructured systems. Substantial progress in the size and shape control of magnetic nanoparticles has been made by developing methods such as co-precipitation, thermal decomposition and/or reduction, micelle synthesis, and hydrothermal synthesis. A major challenge still is protection against corrosion, and therefore suitable protection strategies will be emphasized, for example, surfactant/polymer coating, silica coating and carbon coating of magnetic nanoparticles or embedding them in a matrix/support. Properly protected magnetic nanoparticles can be used as building blocks for the fabrication of various functional systems, and their application in catalysis and biotechnology will be briefly reviewed. Finally, some future trends and perspectives in these research areas will be outlined.

5,956 citations


Journal ArticleDOI
TL;DR: SILVA (from Latin silva, forest), was implemented to provide a central comprehensive web resource for up to date, quality controlled databases of aligned rRNA sequences from the Bacteria, Archaea and Eukarya domains.
Abstract: Sequencing ribosomal RNA (rRNA) genes is currently the method of choice for phylogenetic reconstruction, nucleic acid based detection and quantification of microbial diversity. The ARB software suite with its corresponding rRNA datasets has been accepted by researchers worldwide as a standard tool for large scale rRNA analysis. However, the rapid increase of publicly available rRNA sequence data has recently hampered the maintenance of comprehensive and curated rRNA knowledge databases. A new system, SILVA (from Latin silva, forest), was implemented to provide a central comprehensive web resource for up to date, quality controlled databases of aligned rRNA sequences from the Bacteria, Archaea and Eukarya domains. All sequences are checked for anomalies, carry a rich set of sequence associated contextual information, have multiple taxonomic classifications, and the latest validly described nomenclature. Furthermore, two precompiled sequence datasets compatible with ARB are offered for download on the SILVA website: (i) the reference (Ref) datasets, comprising only high quality, nearly full length sequences suitable for in-depth phylogenetic analysis and probe design and (ii) the comprehensive Parc datasets with all publicly available rRNA sequences longer than 300 nucleotides suitable for biodiversity analyses. The latest publicly available database release 91 (August 2007) hosts 547 521 sequences split into 461 823 small subunit and 85 689 large subunit rRNAs.

5,733 citations


Journal ArticleDOI
Ed S. Lein1, Michael Hawrylycz1, Nancy Ao2, Mikael Ayres1, Amy Bensinger1, Amy Bernard1, Andrew F. Boe1, Mark S. Boguski1, Mark S. Boguski3, Kevin S. Brockway1, Emi J. Byrnes1, Lin Chen1, Li Chen2, Tsuey-Ming Chen2, Mei Chi Chin1, Jimmy Chong1, Brian E. Crook1, Aneta Czaplinska2, Chinh Dang1, Suvro Datta1, Nick Dee1, Aimee L. Desaki1, Tsega Desta1, Ellen Diep1, Tim A. Dolbeare1, Matthew J. Donelan1, Hong-Wei Dong1, Jennifer G. Dougherty1, Ben J. Duncan1, Amanda Ebbert1, Gregor Eichele4, Lili K. Estin1, Casey Faber1, Benjamin A.C. Facer1, Rick Fields2, Shanna R. Fischer1, Tim P. Fliss1, Cliff Frensley1, Sabrina N. Gates1, Katie J. Glattfelder1, Kevin R. Halverson1, Matthew R. Hart1, John G. Hohmann1, Maureen P. Howell1, Darren P. Jeung1, Rebecca A. Johnson1, Patrick T. Karr1, Reena Kawal1, Jolene Kidney1, Rachel H. Knapik1, Chihchau L. Kuan1, James H. Lake1, Annabel R. Laramee1, Kirk D. Larsen1, Christopher Lau1, Tracy Lemon1, Agnes J. Liang2, Ying Liu2, Lon T. Luong1, Jesse Michaels1, Judith J. Morgan1, Rebecca J. Morgan1, Marty Mortrud1, Nerick Mosqueda1, Lydia Ng1, Randy Ng1, Geralyn J. Orta1, Caroline C. Overly1, Tu H. Pak1, Sheana Parry1, Sayan Dev Pathak1, Owen C. Pearson1, Ralph B. Puchalski1, Zackery L. Riley1, Hannah R. Rockett1, Stephen A. Rowland1, Joshua J. Royall1, Marcos J. Ruiz2, Nadia R. Sarno1, Katherine Schaffnit1, Nadiya V. Shapovalova1, Taz Sivisay1, Clifford R. Slaughterbeck1, Simon Smith1, Kimberly A. Smith1, Bryan I. Smith1, Andy J. Sodt1, Nick N. Stewart1, Kenda-Ruth Stumpf1, Susan M. Sunkin1, Madhavi Sutram1, Angelene Tam2, Carey D. Teemer1, Christina Thaller2, Carol L. Thompson1, Lee R. Varnam1, Axel Visel5, Axel Visel4, Ray M. Whitlock1, Paul Wohnoutka1, Crissa K. Wolkey1, Victoria Y. Wong1, Matthew J.A. Wood2, Murat B. Yaylaoglu2, Rob Young1, Brian L. Youngstrom1, Xu Feng Yuan1, Bin Zhang2, Theresa A. Zwingman1, Allan R. Jones1 
11 Jan 2007-Nature
TL;DR: An anatomically comprehensive digital atlas containing the expression patterns of ∼20,000 genes in the adult mouse brain is described, providing an open, primary data resource for a wide variety of further studies concerning brain organization and function.
Abstract: Molecular approaches to understanding the functional circuitry of the nervous system promise new insights into the relationship between genes, brain and behaviour. The cellular diversity of the brain necessitates a cellular resolution approach towards understanding the functional genomics of the nervous system. We describe here an anatomically comprehensive digital atlas containing the expression patterns of approximately 20,000 genes in the adult mouse brain. Data were generated using automated high-throughput procedures for in situ hybridization and data acquisition, and are publicly accessible online. Newly developed image-based informatics tools allow global genome-scale structural analysis and cross-correlation, as well as identification of regionally enriched genes. Unbiased fine-resolution analysis has identified highly specific cellular markers as well as extensive evidence of cellular heterogeneity not evident in classical neuroanatomical atlases. This highly standardized atlas provides an open, primary data resource for a wide variety of further studies concerning brain organization and function.

4,944 citations


Journal ArticleDOI
01 Mar 2007-Nature
TL;DR: These studies by transmission electron microscopy reveal that individual graphene sheets freely suspended on a microfabricated scaffold in vacuum or air are not perfectly flat: they exhibit intrinsic microscopic roughening such that the surface normal varies by several degrees and out-of-plane deformations reach 1 nm.
Abstract: Graphene — a recently isolated one-atom-thick layered form of graphite — is a hot topic in the materials science and condensed matter physics communities, where it is proving to be a popular model system for investigation. An experiment involving individual graphene sheets suspended over a microscale scaffold has allowed structure determination using transmission electron microscopy and diffraction, perhaps paving the way towards an answer to the question of why graphene can exist at all. The 'two-dimensional' sheets, it seems, are not flat, but wavy. The undulations are less pronounced in a two-layer system, and disappear in multilayer samples. Learning more about this 'waviness' may reveal what makes these extremely thin carbon membranes so stable. Investigations of individual graphene sheets freely suspended on a microfabricated scaffold in vacuum or in air reveal that the membranes are not perfectly flat, but exhibit an intrinsic waviness, such that the surface normal varies by several degrees, and out-of-plane deformations reach 1 nm. The recent discovery of graphene has sparked much interest, thus far focused on the peculiar electronic structure of this material, in which charge carriers mimic massless relativistic particles1,2,3. However, the physical structure of graphene—a single layer of carbon atoms densely packed in a honeycomb crystal lattice—is also puzzling. On the one hand, graphene appears to be a strictly two-dimensional material, exhibiting such a high crystal quality that electrons can travel submicrometre distances without scattering. On the other hand, perfect two-dimensional crystals cannot exist in the free state, according to both theory and experiment4,5,6,7,8,9. This incompatibility can be avoided by arguing that all the graphene structures studied so far were an integral part of larger three-dimensional structures, either supported by a bulk substrate or embedded in a three-dimensional matrix1,2,3,9,10,11,12. Here we report on individual graphene sheets freely suspended on a microfabricated scaffold in vacuum or air. These membranes are only one atom thick, yet they still display long-range crystalline order. However, our studies by transmission electron microscopy also reveal that these suspended graphene sheets are not perfectly flat: they exhibit intrinsic microscopic roughening such that the surface normal varies by several degrees and out-of-plane deformations reach 1 nm. The atomically thin single-crystal membranes offer ample scope for fundamental research and new technologies, whereas the observed corrugations in the third dimension may provide subtle reasons for the stability of two-dimensional crystals13,14,15.

4,653 citations


Journal ArticleDOI

3,917 citations


Journal ArticleDOI
TL;DR: The super-diversity in Britain this article is defined by a dynamic interplay of variables among an increased number of new, small and scattered, multiple-origin, transnationally connected, socio-economically...
Abstract: Diversity in Britain is not what it used to be. Some thirty years of government policies, social service practices and public perceptions have been framed by a particular understanding of immigration and multicultural diversity. That is, Britain's immigrant and ethnic minority population has conventionally been characterized by large, well-organized African-Caribbean and South Asian communities of citizens originally from Commonwealth countries or formerly colonial territories. Policy frameworks and public understanding – and, indeed, many areas of social science – have not caught up with recently emergent demographic and social patterns. Britain can now be characterized by ‘super-diversity,’ a notion intended to underline a level and kind of complexity surpassing anything the country has previously experienced. Such a condition is distinguished by a dynamic interplay of variables among an increased number of new, small and scattered, multiple-origin, transnationally connected, socio-economically...

3,909 citations


Proceedings ArticleDOI
08 May 2007
TL;DR: YAGO as discussed by the authors is a light-weight and extensible ontology with high coverage and quality, which includes the Is-A hierarchy as well as non-taxonomic relations between entities (such as HASONEPRIZE).
Abstract: We present YAGO, a light-weight and extensible ontology with high coverage and quality. YAGO builds on entities and relations and currently contains more than 1 million entities and 5 million facts. This includes the Is-A hierarchy as well as non-taxonomic relations between entities (such as HASONEPRIZE). The facts have been automatically extracted from Wikipedia and unified with WordNet, using a carefully designed combination of rule-based and heuristic methods described in this paper. The resulting knowledge base is a major step beyond WordNet: in quality by adding knowledge about individuals like persons, organizations, products, etc. with their semantic relationships - and in quantity by increasing the number of facts by more than an order of magnitude. Our empirical evaluation of fact correctness shows an accuracy of about 95%. YAGO is based on a logically clean model, which is decidable, extensible, and compatible with RDFS. Finally, we show how YAGO can be further extended by state-of-the-art information extraction techniques.

3,710 citations


Journal ArticleDOI
TL;DR: StageTips are ordinary pipette tips containing very small disks made of beads with reversed phase, cation-exchange or anion-ex exchange surfaces embedded in a Teflon mesh that allow flexible combination of disks with different surfaces to obtain multi-functional tips.
Abstract: Mass spectrometry (MS)-based proteomics measures peptides derived from proteins by proteolytic cleavage. Before performing the analysis by matrix-assisted laser desorption/ionization-tandem mass spectrometry (MALDI-MS/MS), nanoelectrospray-MS/MS (NanoES-MS/MS) or liquid chromatography-MS/MS (LC-MS/MS), the peptide mixtures need to be cleaned, concentrated and often selectively enriched or pre-fractionated, for which we employ simple, self-made and extremely economical stop-and-go-extraction tips (StageTips). StageTips are ordinary pipette tips containing very small disks made of beads with reversed phase, cation-exchange or anion-exchange surfaces embedded in a Teflon mesh. The fixed nature of the beads allows flexible combination of disks with different surfaces to obtain multi-functional tips. Disks containing different surface functionalities and loose beads such as titania and zirconia for phosphopeptide enrichment can be combined. Incorporation into an automated workflow has also been demonstrated. Desalting and concentration takes approximately 5 min while fractionation or enrichment takes approximately 30 min.

3,515 citations


Journal ArticleDOI
TL;DR: This article proposes the minimum reporting standards related to the chemical analysis aspects of metabolomics experiments including: sample preparation, experimental analysis, quality control, metabolite identification, and data pre-processing.
Abstract: There is a general consensus that supports the need for standardized reporting of metadata or information describing large-scale metabolomics and other functional genomics data sets. Reporting of standard metadata provides a biological and empirical context for the data, facilitates experimental replication, and enables the re-interrogation and comparison of data by others. Accordingly, the Metabolomics Standards Initiative is building a general consensus concerning the minimum reporting standards for metabolomics experiments of which the Chemical Analysis Working Group (CAWG) is a member of this community effort. This article proposes the minimum reporting standards related to the chemical analysis aspects of metabolomics experiments including: sample preparation, experimental analysis, quality control, metabolite identification, and data pre-processing. These minimum standards currently focus mostly upon mass spectrometry and nuclear magnetic resonance spectroscopy due to the popularity of these techniques in metabolomics. However, additional input concerning other techniques is welcomed and can be provided via the CAWG on-line discussion forum at http://msi-workgroups.sourceforge.net/ or http://Msi-workgroups-feedback@lists.sourceforge.net. Further, community input related to this document can also be provided via this electronic forum.

3,301 citations


Proceedings ArticleDOI
24 Oct 2007
TL;DR: This paper examines data gathered from four popular online social networks: Flickr, YouTube, LiveJournal, and Orkut, and reports that the indegree of user nodes tends to match the outdegree; the networks contain a densely connected core of high-degree nodes; and that this core links small groups of strongly clustered, low-degree node at the fringes of the network.
Abstract: Online social networking sites like Orkut, YouTube, and Flickr are among the most popular sites on the Internet. Users of these sites form a social network, which provides a powerful means of sharing, organizing, and finding content and contacts. The popularity of these sites provides an opportunity to study the characteristics of online social network graphs at large scale. Understanding these graphs is important, both to improve current systems and to design new applications of online social networks.This paper presents a large-scale measurement study and analysis of the structure of multiple online social networks. We examine data gathered from four popular online social networks: Flickr, YouTube, LiveJournal, and Orkut. We crawled the publicly accessible user links on each site, obtaining a large portion of each social network's graph. Our data set contains over 11.3 million users and 328 million links. We believe that this is the first study to examine multiple online social networks at scale.Our results confirm the power-law, small-world, and scale-free properties of online social networks. We observe that the indegree of user nodes tends to match the outdegree; that the networks contain a densely connected core of high-degree nodes; and that this core links small groups of strongly clustered, low-degree nodes at the fringes of the network. Finally, we discuss the implications of these structural properties for the design of social network based systems.

Journal ArticleDOI
TL;DR: A review of metal hydrides on properties including hydrogen-storage capacity, kinetics, cyclic behavior, toxicity, pressure and thermal response is presented in this article, where a group of Mg-based hydride stand as promising candidate for competitive hydrogen storage with reversible hydrogen capacity up to 7.6 W% for on-board applications.

Journal ArticleDOI
25 May 2007-Science
TL;DR: Initial applications indicate that emergent far-field optical nanoscopy will have a strong impact in the life sciences and in other areas benefiting from nanoscale visualization.
Abstract: In 1873, Ernst Abbe discovered what was to become a well-known paradigm: the inability of a lens-based optical microscope to discern details that are closer together than half of the wavelength of light. However, for its most popular imaging mode, fluorescence microscopy, the diffraction barrier is crumbling. Here, I discuss the physical concepts that have pushed fluorescence microscopy to the nanoscale, once the prerogative of electron and scanning probe microscopes. Initial applications indicate that emergent far-field optical nanoscopy will have a strong impact in the life sciences and in other areas benefiting from nanoscale visualization.

Journal ArticleDOI
TL;DR: This work uses atmospheric carbon dioxide concentration as a single, simple indicator to track the progression of the Anthropocene, the current epoch in which humans and the authors' societies have become a global geophysical force.
Abstract: We explore the development of the Anthropocene, the current epoch in which humans and our societies have become a global geophysical force. The Anthropocene began around 1800 with the onset of industrialization, the central feature of which was the enormous expansion in the use of fossil fuels. We use atmospheric carbon dioxide concentration as a single, simple indicator to track the progression of the Anthropocene. From a preindustrial value of 270-275 ppm, atmospheric carbon dioxide had risen to about 310 ppm by 1950. Since then the human enterprise has experienced a remarkable explosion, the Great Acceleration, with significant consequences for Earth System functioning. Atmospheric CO2 concentration has risen from 310 to 380 ppm since 1950, with about half of the total rise since the preindustrial era occurring in just the last 30 years. The Great Acceleration is reaching criticality. Whatever unfolds, the next few decades will surely be a tipping point in the evolution of the Anthropocene.

Journal ArticleDOI
TL;DR: This novel ROS-dependent death allows neutrophils to fulfill their antimicrobial function, even beyond their lifespan.
Abstract: Neutrophil extracellular traps (NETs) are extracellular structures composed of chromatin and granule proteins that bind and kill microorganisms. We show that upon stimulation, the nuclei of neutrophils lose their shape, and the eu- and heterochromatin homogenize. Later, the nuclear envelope and the granule membranes disintegrate, allowing the mixing of NET components. Finally, the NETs are released as the cell membrane breaks. This cell death process is distinct from apoptosis and necrosis and depends on the generation of reactive oxygen species (ROS) by NADPH oxidase. Patients with chronic granulomatous disease carry mutations in NADPH oxidase and cannot activate this cell-death pathway or make NETs. This novel ROS-dependent death allows neutrophils to fulfill their antimicrobial function, even beyond their lifespan.

Journal ArticleDOI
TL;DR: In this article, the consequences of back-action of light confined in whispering-gallery dielectric micro-cavities, and presents a unified treatment of its two manifestations: namely the parametric instability (mechanical amplification and oscillation) and radiation pressure backaction cooling.
Abstract: The coupling of mechanical and optical degrees of freedom via radiation pressure has been a subject of early research in the context of gravitational wave detection. Recent experimental advances have allowed studying for the first time the modifications of mechanical dynamics provided by radiation pressure. This paper reviews the consequences of back-action of light confined in whispering-gallery dielectric micro-cavities, and presents a unified treatment of its two manifestations: notably the parametric instability (mechanical amplification and oscillation) and radiation pressure back-action cooling. Parametric instability offers a novel “photonic clock” which is driven purely by the pressure of light. In contrast, radiation pressure cooling can surpass existing cryogenic technologies and offers cooling to phonon occupancies below unity and provides a route towards cavity Quantum Optomechanics



Journal ArticleDOI
TL;DR: In this paper, the basic principles involved in designing hierarchical biological materials, such as cellular and composite architectures, adapative growth and as well as remodeling, are discussed, and examples that are found to utilize these strategies include wood, bone, tendon, and glass sponges.

Journal ArticleDOI
TL;DR: Recent molecular analyses have begun to shed light on the complex interaction of the checkpoint proteins with kinetochores — structures that mediate the binding of spindle microtubules to chromosomes in mitosis.
Abstract: The spindle-assembly checkpoint is a safety device that monitors the attachment of spindle microtubules to kinetochores and ensures the fidelity of chromosome segregation in mitosis. Molecular studies are finally starting to reveal the mechanisms of checkpoint activation and inactivation.

Journal ArticleDOI
TL;DR: In this article, organic aerosol data acquired by the AMS in 37 field campaigns were deconvolved into hydrocarbon-like OA (HOA) and several types of oxygenated OA components.
Abstract: Organic aerosol (OA) data acquired by the Aerosol Mass Spectrometer (AMS) in 37 field campaigns were deconvolved into hydrocarbon-like OA (HOA) and several types of oxygenated OA (OOA) components. HOA has been linked to primary combustion emissions (mainly from fossil fuel) and other primary sources such as meat cooking. OOA is ubiquitous in various atmospheric environments, on average accounting for 64%, 83% and 95% of the total OA in urban, urban downwind, and rural/remote sites, respectively. A case study analysis of a rural site shows that the OOA concentration is much greater than the advected HOA, indicating that HOA oxidation is not an important source of OOA, and that OOA increases are mainly due to SOA. Most global models lack an explicit representation of SOA which may lead to significant biases in the magnitude, spatial and temporal distributions of OA, and in aerosol hygroscopic properties.

Journal ArticleDOI
TL;DR: Results show that promoter sequence and gene function are major predictors of promoter methylation states and that inactive unmethylated CpG island promoters show elevated levels of dimethylation of Lys4 of histone H3, suggesting that this chromatin mark may protect DNA from methylation.
Abstract: To gain insight into the function of DNA methylation at cis-regulatory regions and its impact on gene expression, we measured methylation, RNA polymerase occupancy and histone modifications at 16,000 promoters in primary human somatic and germline cells. We find CpG-poor promoters hypermethylated in somatic cells, which does not preclude their activity. This methylation is present in male gametes and results in evolutionary loss of CpG dinucleotides, as measured by divergence between humans and primates. In contrast, strong CpG island promoters are mostly unmethylated, even when inactive. Weak CpG island promoters are distinct, as they are preferential targets for de novo methylation in somatic cells. Notably, most germline-specific genes are methylated in somatic cells, suggesting additional functional selection. These results show that promoter sequence and gene function are major predictors of promoter methylation states. Moreover, we observe that inactive unmethylated CpG island promoters show elevated levels of dimethylation of Lys4 of histone H3, suggesting that this chromatin mark may protect DNA from methylation.

Journal ArticleDOI
TL;DR: A comprehensive phylogenetic classification of the kingdom Fungi is proposed, with reference to recent molecular phylogenetic analyses, and with input from diverse members of the fungal taxonomic community.

Journal ArticleDOI
20 Dec 2007-Nature
TL;DR: This work reports a substantially different approach to comb generation, in which equally spaced frequency markers are produced by the interaction between a continuous-wave pump laser of a known frequency with the modes of a monolithic ultra-high-Q microresonator via the Kerr nonlinearity.
Abstract: Optical frequency combs provide equidistant frequency markers in the infrared, visible and ultraviolet, and can be used to link an unknown optical frequency to a radio or microwave frequency reference. Since their inception, frequency combs have triggered substantial advances in optical frequency metrology and precision measurements and in applications such as broadband laser-based gas sensing and molecular fingerprinting. Early work generated frequency combs by intra-cavity phase modulation; subsequently, frequency combs have been generated using the comb-like mode structure of mode-locked lasers, whose repetition rate and carrier envelope phase can be stabilized. Here we report a substantially different approach to comb generation, in which equally spaced frequency markers are produced by the interaction between a continuous-wave pump laser of a known frequency with the modes of a monolithic ultra-high-Q microresonator via the Kerr nonlinearity. The intrinsically broadband nature of parametric gain makes it possible to generate discrete comb modes over a 500-nm-wide span (approximately 70 THz) around 1,550 nm without relying on any external spectral broadening. Optical-heterodyne-based measurements reveal that cascaded parametric interactions give rise to an optical frequency comb, overcoming passive cavity dispersion. The uniformity of the mode spacing has been verified to within a relative experimental precision of 7.3 x 10(-18). In contrast to femtosecond mode-locked lasers, this work represents a step towards a monolithic optical frequency comb generator, allowing considerable reduction in size, complexity and power consumption. Moreover, the approach can operate at previously unattainable repetition rates, exceeding 100 GHz, which are useful in applications where access to individual comb modes is required, such as optical waveform synthesis, high capacity telecommunications or astrophysical spectrometer calibration.

Journal ArticleDOI
TL;DR: The ability of platinum and gold catalysts to effect powerful atom-economic transformations has led to a marked increase in their utilization and the application of platinum- and gold-catalyzed transformations in natural product synthesis is discussed.
Abstract: The ability of platinum and gold catalysts to effect powerful atom-economic transformations has led to a marked increase in their utilization. The quite remarkable correlation of their catalytic behavior with the available structural data, coordination chemistry, and organometallic reactivity patterns, including relativistic effects, allows the underlying principles of catalytic carbophilic activation by π acids to be formulated. The spectrum of reactivity extends beyond their utility as catalytic and benign alternatives to conventional stoichiometric π acids. The resulting reactivity profile allows this entire field of catalysis to be rationalized, and brings together the apparently disparate electrophilic metal carbene and nonclassical carbocation explanations. The advances in coupling, cycloisomerization, and structural reorganization—from the design of new transformations to the improvement to known reactions—are highlighted in this Review. The application of platinum- and gold-catalyzed transformations in natural product synthesis is also discussed.

Journal ArticleDOI
TL;DR: In this paper, the authors analyzed star formation as a function of stellar mass (M☉) and redshift z in the All-Wavelength Extended Groth Strip International Survey.
Abstract: We analyze star formation (SF) as a function of stellar mass (M☉) and redshift z in the All-Wavelength Extended Groth Strip International Survey. For 2905 field galaxies, complete to 10^10(10^10.8 )M at z < 0.7(1), with Keck spectroscopic redshifts out to z = 1.1, we compile SF rates (SFRs) from emission lines, GALEX, and Spitzer MIPS 24 µm photometry, optical-NIR M* measurements, and HST morphologies. Galaxies with reliable signs of SF form a distinct “main sequence” (MS), with a limited range of SFRs at a given M* and z (1 σ ≾ ±0.3 dex), and log (SFR) approximately proportional to log M*. The range of log (SFR) remains constant to z > 1, while the MS as a whole moves to higher SFR as z increases. The range of the SFR along the MS constrains the amplitude of episodic variations of SF and the effect of mergers on the SFR. Typical galaxies spend ∼67%(95%) of their lifetime since z = 1 within a factor of ≾2(4) of their average SFR at a given M* and z. The dominant mode of the evolution of SF since z ∼ 1 is apparently a gradual decline of the average SFR in most individual galaxies, not a decreasing frequency of starburst episodes, or a decreasing factor by which SFRs are enhanced in starbursts. LIRGs at z ∼ 1 seem to mostly reflect the high SFR typical for massive galaxies at that epoch. The smooth MS may reflect that the same set of few physical processes governs SF prior to additional quenching processes. A gradual process like gas exhaustion may play a dominant role.

Journal ArticleDOI
TL;DR: Data suggest that the underlying biological process may be specific to Crohn disease, and that marker rs2241880, a coding SNP (T300A), carries virtually all the disease risk exerted by the ATG16L1 locus.
Abstract: We performed a genome-wide association study of 19,779 nonsynonymous SNPs in 735 individuals with Crohn disease and 368 controls. A total of 7,159 of these SNPs were informative. We followed up on all 72 SNPs with P 0.4), these data suggest that the underlying biological process may be specific to Crohn disease.

Journal ArticleDOI
TL;DR: The Cosmic Evolution Survey (COSMOS) as mentioned in this paper is designed to probe the correlated evolution of galaxies, star formation, active galactic nuclei (AGNs), and dark matter (DM) with large-scale structure (LSS) over the redshift range z > 0.5-6.
Abstract: The Cosmic Evolution Survey (COSMOS) is designed to probe the correlated evolution of galaxies, star formation, active galactic nuclei (AGNs), and dark matter (DM) with large-scale structure (LSS) over the redshift range z > 0.5-6. The survey includes multiwavelength imaging and spectroscopy from X-ray-to-radio wavelengths covering a 2 deg^2 area, including HST imaging. Given the very high sensitivity and resolution of these data sets, COSMOS also provides unprecedented samples of objects at high redshift with greatly reduced cosmic variance, compared to earlier surveys. Here we provide a brief overview of the survey strategy, the characteristics of the major COSMOS data sets, and a summary the science goals.

Journal ArticleDOI
18 May 2007-Science
TL;DR: It is concluded that FT protein acts as a long-distance signal that induces Arabidopsis flowering, and evidence that FT does not activate an intermediate messenger in leaves is provided.
Abstract: In plants, seasonal changes in day length are perceived in leaves, which initiate long-distance signaling that induces flowering at the shoot apex. The identity of the long-distance signal has yet to be determined. In Arabidopsis, activation of FLOWERING LOCUS T (FT) transcription in leaf vascular tissue (phloem) induces flowering. We found that FT messenger RNA is required only transiently in the leaf. In addition, FT fusion proteins expressed specifically in phloem cells move to the apex and move long distances between grafted plants. Finally, we provide evidence that FT does not activate an intermediate messenger in leaves. We conclude that FT protein acts as a long-distance signal that induces Arabidopsis flowering.

Journal ArticleDOI
TL;DR: An R library for genome-wide association (GWA) analysis that implements effective storage and handling of GWA data, fast procedures for genetic data quality control, testing of association of single nucleotide polymorphisms with binary or quantitative traits, visualization of results and also provides easy interfaces to standard statistical and graphical procedures.
Abstract: Here we describe an R library for genome-wide association (GWA) analysis. It implements effective storage and handling of GWA data, fast procedures for genetic data quality control, testing of association of single nucleotide polymorphisms with binary or quantitative traits, visualization of results and also provides easy interfaces to standard statistical and graphical procedures implemented in base R and special R libraries for genetic analysis. We evaluated GenABEL using one simulated and two real data sets. We conclude that GenABEL enables the analysis of GWA data on desktop computers. Availability: http://cran.r-project.org Contact: i.aoultchenko@erasmusmc.nl