@article{BullerLaschewskyWischerhoff2013, author = {Buller, Jens and Laschewsky, Andr{\´e} and Wischerhoff, Erik}, title = {Photoreactive oligoethylene glycol polymers - versatile compounds for surface modification by thin hydrogel films}, series = {Soft matter}, volume = {9}, journal = {Soft matter}, number = {3}, publisher = {Royal Society of Chemistry}, address = {Cambridge}, issn = {1744-683X}, doi = {10.1039/c2sm26879e}, pages = {929 -- 937}, year = {2013}, abstract = {Solid surfaces are modified using photo-crosslinkable copolymers based on oligo(ethylene glycol) methacrylate (OEGMA) bearing 2-(4-benzoylphenoxy) ethyl methacrylate (BPEM) as a photosensitive crosslinking unit. Thin films of about 100 nm are formed by spin-coating these a priori highly biocompatible copolymers onto silicon substrates. Subsequent UV-irradiation assures immobilization and crosslinking of the hydrogel films. Their stability is controlled by the number of crosslinker units per chain and the molar mass of the copolymers. The swelling of the hydrogel layers, as investigated by ellipsometry, can be tuned by the crosslinker content in the copolymer. If films are built from the ternary copolymers of OEGMA, BPEM and 2-(2-methoxyethoxy) ethyl methacrylate (MEO(2)MA), the hydrogel films exhibit a swelling/deswelling transition of the lower critical solution temperature (LCST) type. The observed thermally induced hydrogel collapse is fully reversible and the onset temperature of the transition can be tuned at will by the copolymer composition. Different from analogously prepared thermo-responsive hydrogel films of photocrosslinked poly(N-isopropylacrylamide), the swelling-deswelling transition occurs more gradually, but shows no hysteresis.}, language = {en} } @article{AdelsbergerGrilloKulkarnietal.2013, author = {Adelsberger, Joseph and Grillo, Isabelle and Kulkarni, Amit and Sharp, Melissa and Bivigou Koumba, Achille Mayelle and Laschewsky, Andr{\´e} and M{\"u}ller-Buschbaum, Peter and Papadakis, Christine M.}, title = {Kinetics of aggregation in micellar solutions of thermoresponsive triblock copolymers - influence of concentration, start and target temperatures}, series = {Soft matter}, volume = {9}, journal = {Soft matter}, number = {5}, publisher = {Royal Society of Chemistry}, address = {Cambridge}, issn = {1744-683X}, doi = {10.1039/c2sm27152d}, pages = {1685 -- 1699}, year = {2013}, abstract = {In aqueous solution, symmetric triblock copolymers with a thermoresponsive middle block and hydrophobic end blocks form flower-like core-shell micelles which collapse and aggregate upon heating through the cloud point (CP). The collapse of the micellar shell and the intermicellar aggregation are followed in situ and in real-time using time-resolved small-angle neutron scattering (SANS), while heating micellar solutions of a poly((styrene-d(8))-b-(N-isopropyl acrylamide)-b-(styrene-d(8))) triblock copolymer in D2O rapidly through their CP. The influence of polymer concentration as well as of the start and target temperatures is addressed. In all cases, the micellar collapse is very fast. The collapsed micelles immediately form small clusters which contain voids. They densify which slows down or even stops their growth. For low concentrations and target temperatures just above the CP, i.e. shallow temperature jumps, the subsequent growth of the clusters is described by diffusion-limited aggregation. In contrast, for higher concentrations and/or higher target temperatures, i.e. deep temperature jumps, intermicellar bridges dominate the growth. Eventually, in all cases, the clusters coagulate which results in macroscopic phase separation. For shallow temperature jumps, the cluster surfaces stay rough; whereas for deep temperature jumps, a concentration gradient develops at late stages. These results are important for the development of conditions for thermal switching in applications, e.g. for the use of thermoresponsive micellar systems for transport and delivery purposes.}, language = {en} } @article{WessigMatthes2013, author = {Wessig, Pablo and Matthes, Annika}, title = {Photochemical synthesis and properties of 1,6- and 1,8-Naphthalenophanes}, series = {Molecules}, volume = {18}, journal = {Molecules}, number = {1}, publisher = {MDPI}, address = {Basel}, issn = {1420-3049}, doi = {10.3390/molecules18011314}, pages = {1314 -- 1324}, year = {2013}, abstract = {Various 1,6- and 1,8-naphthalenophanes were synthesized by using the Photo-Dehydro-Diels-Alder (PDDA) reaction of bis-ynones. These compounds are easily accessible from omega-(3-iodophenyl)carboxylic acids in three steps. The obtained naphthalenophanes are axially chiral and the activation barrier for the atropisomerization could be determined in some cases by means of dynamic NMR (DNMR) and/or dynamic HPLC (DHPLC) experiments.}, language = {en} } @article{vonCzapiewskiKreyeMutluetal.2013, author = {von Czapiewski, Marc and Kreye, Oliver and Mutlu, Hatice and Meier, Michael A. R.}, title = {Cross-metathesis versus palladium-catalyzed C-H activation acetoxy ester functionalization of unsaturated fatty acid methyl esters}, series = {European journal of lipid science and technology}, volume = {115}, journal = {European journal of lipid science and technology}, number = {1}, publisher = {Wiley-Blackwell}, address = {Hoboken}, issn = {1438-7697}, doi = {10.1002/ejlt.201200196}, pages = {76 -- 85}, year = {2013}, abstract = {Two synthetic approaches to functionalize plant oil derived platform chemicals were investigated. For this purpose, methyl 10-undecenoate, which can be obtained by pyrolysis of castor oil, was used in olefin cross-metathesis under neat conditions forming an unsaturated a,?-acetoxy ester. A catalyst screening with 11 different ruthenium-based metathesis catalysts was performed, revealing that well-suited catalysts allow for full conversion and very good cross-metathesis selectivity at a loading of only 0.5?mol\%. An alternative possibility to the aforementioned synthetic method is a palladium-catalyzed reaction of methyl 10-undecenoate with acetic acid in the presence of dimethyl sulfoxide. Here, the formation of linear and branched unsaturated acetoxy esters as well as a ketone was observed. The conversion as well as the selectivity of this procedure was studied under different reaction conditions and compared to the cross-metathesis results. Based on the successful functionalization of methyl 10-undecenoate, methyl oleate was investigated in this palladium-catalyzed C?H activation reaction. Due to the lower reactivity of the internal double bond the desired acetoxy ester was only obtained in moderate conversion in this case. In summary, this study clearly shows that palladium-catalyzed functionalization of unsaturated fatty compounds via C?H activation is an attractive alternative to the well-established olefin cross-metathesis procedure.}, language = {en} } @article{HerderUtechtManickeetal.2013, author = {Herder, Martin and Utecht, Manuel Martin and Manicke, Nicole and Grubert, Lutz and P{\"a}tzel, Michael and Saalfrank, Peter and Hecht, Stefan}, title = {Switching with orthogonal stimuli electrochemical ring-closure and photochemical ring-opening of bis(thiazolyl) maleimides}, series = {Chemical science}, volume = {4}, journal = {Chemical science}, number = {3}, publisher = {Royal Society of Chemistry}, address = {Cambridge}, issn = {2041-6520}, doi = {10.1039/c2sc21681g}, pages = {1028 -- 1040}, year = {2013}, abstract = {The photochemistry as well as electrochemistry of novel donor-acceptor bis(morpholinothiazolyl)maleimides has been investigated. Proper substitution of these diarylethene-type molecular switches leads to the unique situation in which their ring-closure can only be accomplished electrochemically, while ring-opening can only be achieved photochemically. Hence, these switches operate with orthogonal stimuli, i.e. redox potential and light, respectively. The switch system could be optimized by introducing trifluoromethyl groups at the reactive carbon atoms in order to avoid by-product formation during oxidative ring closure. Both photochemical and electrochemical pathways were investigated for methylated, trifluoromethylated, and nonsymmetrical bis(morpholinothiazolyl) maleimides as well as the bis(morpholinothiazolyl) cyclopentene reference compound. With the aid of the nonsymmetrical "mixed" derivative, the mechanism of electrochemically driven ring closure could be elucidated and seems to proceed via a dicationic intermediate generated by two-fold oxidation. All experimental work has been complemented by density functional theory that provides detailed insights into the thermodynamics of the ring-open and closed forms, the nature of their excited states, and the reactivity of their neutral as well as ionized species in different electronic configurations. The particular diarylethene systems described herein could serve in multifunctional (logic) devices operated by different stimuli (inputs) and may pave the way to converting light into electrical energy via photoinduced "pumping" of redox-active meta-stable states.}, language = {en} } @article{TomczykSobolewskaNagyetal.2013, author = {Tomczyk, Jaroslaw and Sobolewska, Anna and Nagy, Zsuzsanna T. and Guillon, Daniel and Donnio, Bertrand and Stumpe, Joachim}, title = {Photo- and thermal-processing of azobenzene-containing star-shaped liquid crystals}, series = {Journal of materials chemistry : C, Materials for optical and electronic devices}, volume = {1}, journal = {Journal of materials chemistry : C, Materials for optical and electronic devices}, number = {5}, publisher = {Royal Society of Chemistry}, address = {Cambridge}, issn = {2050-7526}, doi = {10.1039/c2tc00627h}, pages = {924 -- 932}, year = {2013}, abstract = {A new class of star-shaped, liquid crystalline, low-molecular weight compounds functionalized with photochromic azobenzene and mesogenic groups was investigated in terms of light-induced anisotropy. The behaviour of the materials under the action of light with simultaneous or subsequent thermal treatment was examined with respect to the induction of anisotropy. The unconventional UV light treatment prior to the irradiation with linearly polarized light allowed induction of very high values of anisotropy (D = 0.77) at room temperature. Moreover, the simultaneous action of light and temperature led to the induction of higher values of dichroism in comparison with anisotropy generated by the standard procedure. Subsequent thermal treatment led to dewetting and the formation of 3D macroscopic stripe- and dome-like structures for one of the investigated compounds. Despite photoinduction of anisotropy by a single beam, the formation of polarization and surface relief gratings by two-beam interference pattern was also investigated.}, language = {en} } @article{ThielZehbeRoeseretal.2013, author = {Thiel, Kerstin and Zehbe, Rolf and R{\"o}ser, Jerome and Strauch, Peter and Enthaler, Stephan and Thomas, Arne}, title = {A polymer analogous reaction for the formation of imidazolium and NHC based porous polymer networks}, series = {Polymer Chemistry}, volume = {4}, journal = {Polymer Chemistry}, number = {6}, publisher = {Royal Society of Chemistry}, address = {Cambridge}, issn = {1759-9954}, doi = {10.1039/c2py20947k}, pages = {1848 -- 1856}, year = {2013}, abstract = {A polymer analogous reaction was carried out to generate a porous polymeric network with N-heterocyclic carbenes (NHC) in the polymer backbone. Using a stepwise approach, first a polyimine network is formed by polymerization of the tetrafunctional amine tetrakis(4-aminophenyl)methane. This polyimine network is converted in the second step into polyimidazolium chloride and finally to a polyNHC network. Furthermore a porous Cu(II)-coordinated polyNHC network can be generated. Supercritical drying generates polymer networks with high permanent surface areas and porosities which can be applied for different catalytic reactions. The catalytic properties were demonstrated for example in the activation of CO2 or in the deoxygenation of sulfoxides to the corresponding sulfides.}, language = {en} } @article{ChechkinZaidLomholtetal.2013, author = {Chechkin, Aleksei V. and Zaid, I. M. and Lomholt, M. A. and Sokolov, Igor M. and Metzler, Ralf}, title = {Bulk-mediated surface diffusion on a cylinder in the fast exchange limit}, series = {Mathematical modelling of natural phenomena}, volume = {8}, journal = {Mathematical modelling of natural phenomena}, number = {2}, publisher = {EDP Sciences}, address = {Les Ulis}, issn = {0973-5348}, doi = {10.1051/mmnp/20138208}, pages = {114 -- 126}, year = {2013}, abstract = {In various biological systems and small scale technological applications particles transiently bind to a cylindrical surface. Upon unbinding the particles diffuse in the vicinal bulk before rebinding to the surface. Such bulk-mediated excursions give rise to an effective surface translation, for which we here derive and discuss the dynamic equations, including additional surface diffusion. We discuss the time evolution of the number of surface-bound particles, the effective surface mean squared displacement, and the surface propagator. In particular, we observe sub- and superdiffusive regimes. A plateau of the surface mean-squared displacement reflects a stalling of the surface diffusion at longer times. Finally, the corresponding first passage problem for the cylindrical geometry is analysed.}, language = {en} } @article{SchmidtElizarovBergeretal.2013, author = {Schmidt, Bernd and Elizarov, Nelli and Berger, Ren{\´e} and Hoelter, Frank}, title = {Scope and limitations of the Heck-Matsuda-coupling of phenol diazonium salts and styrenes a protecting-group economic synthesis of phenolic stilbenes}, series = {Organic \& biomolecular chemistry : an international journal of synthetic, physical and biomolecular organic chemistry}, volume = {11}, journal = {Organic \& biomolecular chemistry : an international journal of synthetic, physical and biomolecular organic chemistry}, number = {22}, publisher = {Royal Society of Chemistry}, address = {Cambridge}, issn = {1477-0520}, doi = {10.1039/c3ob40420j}, pages = {3674 -- 3691}, year = {2013}, abstract = {4-Phenol diazonium salts undergo Pd-catalyzed Heck reactions with various styrenes to 4'-hydroxy stilbenes. In almost all cases higher yields and fewer side products were observed, compared to the analogous 4-methoxy benzene diazonium salts. In contrast, the reaction fails completely with 2- and 3-phenol diazonium salts. For these substitution patterns the methoxy-substituted derivatives are superior.}, language = {en} } @article{TentschertDraudeJungnickeletal.2013, author = {Tentschert, J. and Draude, F. and Jungnickel, H. and Haase, A. and Mantion, Alexandre and Galla, S. and Thuenemann, Andreas F. and Taubert, Andreas and Luch, A. and Arlinghaus, H. F.}, title = {TOF-SIMS analysis of cell membrane changes in functional impaired human macrophages upon nanosilver treatment}, series = {Surface and interface analysis : an international journal devoted to the development and application of techniques for the analysis surfaces, interfaces and thin films}, volume = {45}, journal = {Surface and interface analysis : an international journal devoted to the development and application of techniques for the analysis surfaces, interfaces and thin films}, number = {1}, publisher = {Wiley-Blackwell}, address = {Hoboken}, issn = {0142-2421}, doi = {10.1002/sia.5155}, pages = {483 -- 485}, year = {2013}, abstract = {Silver nanoparticles (SNP) are among the most commercialized nanoparticles. Here, we show that peptide-coated SNP cause functional impairment of human macrophages. A dose-dependent inhibition of phagocytosis is observed after nanoparticle treatment, and pretreatment of cells with N-acetyl cysteine (NAC) can counteract the phagocytosis disturbances caused by SNP. Using the surface-sensitive mode of time-of-flight secondary ion mass spectrometry, in combination with multivariate statistical methods, we studied the composition of cell membranes in human macrophages upon exposure to SNP with and without NAC preconditioning. This method revealed characteristic changes in the lipid pattern of the cellular membrane outer leaflet in those cells challenged by SNP. Statistical analyses resulted in 19 characteristic ions, which can be used to distinguish between NAC pretreated and untreated macrophages. The present study discusses the assignments of surface cell membrane phospholipids for the identified ions and the resulting changes in the phospholipid pattern of treated cells. We conclude that the adverse effects in human macrophages caused by SNP can be partially reversed through NAC administration. Some alterations, however, remained.}, language = {en} } @article{DraudeGallaPelsteretal.2013, author = {Draude, F. and Galla, S. and Pelster, Axel and Tentschert, J. and Jungnickel, H. and Haase, Alfred and Mantion, Alexandre and Thuenemann, Andreas F. and Taubert, Andreas and Luch, A. and Arlinghaus, H. F.}, title = {ToF-SIMS and Laser-SNMS analysis of macrophages after exposure to silver nanoparticles}, series = {Surface and interface analysis : an international journal devoted to the development and application of techniques for the analysis surfaces, interfaces and thin films}, volume = {45}, journal = {Surface and interface analysis : an international journal devoted to the development and application of techniques for the analysis surfaces, interfaces and thin films}, number = {1}, publisher = {Wiley-Blackwell}, address = {Hoboken}, issn = {0142-2421}, doi = {10.1002/sia.4902}, pages = {286 -- 289}, year = {2013}, abstract = {Silver nanoparticles (SNPs) are among the most commercialized nanoparticles because of their antibacterial effects. Besides being employed, e. g. as a coatingmaterial for sterile surfaces in household articles and appliances, the particles are also used in a broad range of medical applications. Their antibacterial properties make SNPs especially useful for wound disinfection or as a coating material for prostheses and surgical instruments. Because of their optical characteristics, the particles are of increasing interest in biodetection as well. Despite the widespread use of SNPs, there is little knowledge of their toxicity. Time-of-flight secondary ion mass spectrometry (ToF-SIMS) and laser post-ionization secondary neutral mass spectrometry (Laser-SNMS) were used to investigate the effects of SNPs on human macrophages derived from THP-1 cells in vitro. For this purpose, macrophages were exposed to SNPs. The SNP concentration ranges were chosen with regard to functional impairments of the macrophages. To optimize the analysis of the macrophages, a special silicon wafer sandwich preparation technique was employed; ToF-SIMS was employed to characterize fragments originating from macrophage cell membranes. With the use of this optimized sample preparation method, the SNP-exposed macrophages were analyzed with ToF-SIMS and with Laser-SNMS. With Laser-SNMS, the three-dimensional distribution of SNPs in cells could be readily detected with very high efficiency, sensitivity, and submicron lateral resolution. We found an accumulation of SNPs directly beneath the cell membrane in a nanoparticular state as well as agglomerations of SNPs inside the cells.}, language = {en} } @article{SchmidtHauke2013, author = {Schmidt, Bernd and Hauke, Sylvia}, title = {Cross metathesis of allyl alcohols how to suppress and how to promote double bond isomerization}, series = {Organic \& biomolecular chemistry : an international journal of synthetic, physical and biomolecular organic chemistry}, volume = {11}, journal = {Organic \& biomolecular chemistry : an international journal of synthetic, physical and biomolecular organic chemistry}, number = {25}, publisher = {Royal Society of Chemistry}, address = {Cambridge}, issn = {1477-0520}, doi = {10.1039/c3ob40167g}, pages = {4194 -- 4206}, year = {2013}, abstract = {Under standard conditions the cross metathesis of allyl alcohols and methyl acrylate is accompanied by the formation of ketones, resulting from uncontrolled and undesired double bond isomerization. By conducting the CM in the presence of phenol, the catalyst loading and the reaction time required for quantiative conversion can be reduced, and isomerization can be suppressed. On the other hand, consecutive isomerization can be deliberately promoted by evaporating excess methyl acrylate after completing cross metathesis and by adding a base or silane as chemical triggers.}, language = {en} } @article{JungingerKuebelSchacheretal.2013, author = {Junginger, Mathias and K{\"u}bel, Christian and Schacher, Felix H. and M{\"u}ller, Axel H. E. and Taubert, Andreas}, title = {Crystal structure and chemical composition of biomimetic calcium phosphate nanofibers}, series = {RSC Advances}, volume = {3}, journal = {RSC Advances}, number = {28}, publisher = {Royal Society of Chemistry}, address = {Cambridge}, issn = {2046-2069}, doi = {10.1039/c3ra23348k}, pages = {11301 -- 11308}, year = {2013}, abstract = {Calcium phosphate nanofibers with a diameter of only a few nanometers and a cotton-ball-like aggregate morphology have been reported several times in the literature. Although fiber formation seems reproducible in a variety of conditions, the crystal structure and chemical composition of the fibers have been elusive. Using scanning transmission electron microscopy, low dose electron (nano) diffraction, energy-dispersive X-ray spectroscopy, and energy-filtered transmission electron microscopy, we have assigned crystal structures and chemical compositions to the fibers. Moreover, we demonstrate that the mineralization process yields true polymer/calcium phosphate hybrid materials where the block copolymer template is closely associated with the calcium phosphate.}, language = {en} } @article{TheteRojasNeumeyeretal.2013, author = {Thete, Aniket and Rojas, Oscar and Neumeyer, David and Koetz, Joachim and Dujardin, Erik}, title = {Ionic liquid-assisted morphosynthesis of gold nanorods using polyethyleneimine-capped seeds}, series = {RSC Advances}, volume = {3}, journal = {RSC Advances}, number = {34}, publisher = {Royal Society of Chemistry}, address = {Cambridge}, issn = {2046-2069}, doi = {10.1039/c3ra22112a}, pages = {14294 -- 14298}, year = {2013}, abstract = {Seed-mediated gold nanorods with tunable lengths are prepared using new polyethyleneimine-capped gold nanoparticles synthesized in ionic liquid. The effect of polyethyleneimine and ionic liquid during nanorod growth is investigated and shows a marked effect on their final aspect ratio.}, language = {en} } @article{MondalBhuniaBaburinetal.2013, author = {Mondal, Suvendu Sekhar and Bhunia, Asamanjoy and Baburin, Igor A. and J{\"a}ger, Christian and Kelling, Alexandra and Schilde, Uwe and Seifert, Gotthard and Janiak, Christoph and Holdt, Hans-J{\"u}rgen}, title = {Gate effects in a hexagonal zinc-imidazolate-4-amide-5-imidate framework with flexible methoxy substituents and CO2 selectivity}, series = {Chemical communications}, volume = {49}, journal = {Chemical communications}, number = {69}, publisher = {Royal Society of Chemistry}, address = {Cambridge}, issn = {1359-7345}, doi = {10.1039/c3cc42156b}, pages = {7599 -- 7601}, year = {2013}, abstract = {A new imidazolate-4-amide-5-imidate based MOF, IFP-7, is generated, having flexible methoxy groups, which act as molecular gates for guest molecules. This allows highly selective CO2 sorption over N-2 and CH4 gases.}, language = {en} } @article{MenSiebenbuergerQiuetal.2013, author = {Men, Yongjun and Siebenb{\"u}rger, Miriam and Qiu, Xunlin and Antonietti, Markus and Yuan, Jiayin}, title = {Low fractions of ionic liquid or poly(ionic liquid) can activate polysaccharide biomass into shaped, flexible and fire-retardant porous carbons}, series = {Journal of materials chemistry : A, Materials for energy and sustainability}, volume = {1}, journal = {Journal of materials chemistry : A, Materials for energy and sustainability}, number = {38}, publisher = {Royal Society of Chemistry}, address = {Cambridge}, issn = {2050-7488}, doi = {10.1039/c3ta12302b}, pages = {11887 -- 11893}, year = {2013}, abstract = {Sugar-based molecules and polysaccharide biomass can be turned into porous functional carbonaceous products at comparably low temperatures of 400 degrees C under a nitrogen atmosphere in the presence of an ionic liquid (IL) or a poly(ionic liquid) (PIL). The IL and PIL act as "activation agents" with own structural contribution, and effectively promote the conversion and pore generation in the biomaterials even at a rather low doping ratio (7 wt\%). In addition, this "induced carbonization" and pore forming phenomenon enables the preservation of the biotemplate shape to the highest extent and was employed to fabricate shaped porous carbonaceous materials from carbohydrate-based biotemplates, exemplified here with cellulose filter membranes, coffee filter paper and natural cotton. These carbonized hybrids exhibit comparably good mechanical properties, such as bendability of membranes or shape recovery of foams. Moreover, the nitrogen atoms incorporated in the final products from the IL/PIL precursors further improve the oxidation stability in the fire-retardant tests.}, language = {en} } @article{MondalDeyBaburinetal.2013, author = {Mondal, Suvendu Sekhar and Dey, Subarna and Baburin, Igor A. and Kelling, Alexandra and Schilde, Uwe and Seifert, Gotthard and Janiak, Christoph and Holdt, Hans-J{\"u}rgen}, title = {Syntheses of two imidazolate-4-amide-5-imidate linker-based hexagonal metal-organic frameworks with flexible ethoxy substituent}, series = {CrystEngComm}, volume = {15}, journal = {CrystEngComm}, number = {45}, publisher = {Royal Society of Chemistry}, address = {Cambridge}, issn = {1466-8033}, doi = {10.1039/c3ce41632a}, pages = {9394 -- 9399}, year = {2013}, abstract = {A rare example of in situ linker generation with the formation of soft porous Zn- and Co-MOFs (IFP-9 and -10, respectively) is reported. The flexible ethoxy groups of IFP-9 and -10 protrude into the 1D hexagonal channels. The gas-sorption behavior of both materials for H-2, CO2 and CH4 showed wide hysteretic isotherms, typical for MOFs having a flexible substituent which can give rise to a gate effect.}, language = {en} } @article{VanBelProostVanNesteetal.2013, author = {Van Bel, Michiel and Proost, Sebastian and Van Neste, Christophe and Deforce, Dieter and Van de Peer, Yves and Vandepoele, Klaas}, title = {TRAPID - an efficient online tool for the functional and comparative analysis of de novo RNA-Seq transcriptomes}, series = {Genome biology : biology for the post-genomic era}, volume = {14}, journal = {Genome biology : biology for the post-genomic era}, number = {12}, publisher = {BioMed Central}, address = {London}, issn = {1465-6906}, doi = {10.1186/gb-2013-14-12-r134}, pages = {10}, year = {2013}, abstract = {Transcriptome analysis through next-generation sequencing technologies allows the generation of detailed gene catalogs for non-model species, at the cost of new challenges with regards to computational requirements and bioinformatics expertise. Here, we present TRAPID, an online tool for the fast and efficient processing of assembled RNA-Seq transcriptome data, developed to mitigate these challenges. TRAPID offers high-throughput open reading frame detection, frameshift correction and includes a functional, comparative and phylogenetic toolbox, making use of 175 reference proteomes. Benchmarking and comparison against state-of-the-art transcript analysis tools reveals the efficiency and unique features of the TRAPID system.}, language = {en} } @article{MoskalikShainyanAstakhovaetal.2013, author = {Moskalik, Mikhail Yu and Shainyan, Bagrat A. and Astakhova, Vera V. and Schilde, Uwe}, title = {Oxidative addition of trifluoromethanesulfonamide to cycloalkadienes}, series = {Tetrahedron}, volume = {69}, journal = {Tetrahedron}, number = {2}, publisher = {Elsevier}, address = {Oxford}, issn = {0040-4020}, doi = {10.1016/j.tet.2012.10.099}, pages = {705 -- 711}, year = {2013}, abstract = {In the oxidative system (t-BuOCl+NaI) trifluoromethanesulfonamide is regio- and stereoselectively added to only one double bond of cyclopentadiene and 1,3-cyclohexadiene giving rise to 1,1,1-trifluoro-N-(5-iodocyclopent-2-en-1-yl)methanesulfonamide 7 and trans-N,N'-cyclohex-3-en-1,2-diylbis(1,1,1-trifluoromethanesulfonamide) 8. The structure of 7 and 8 was determined by X-ray, NMR, and MS. With 1,4-cyclohexadiene, addition to both double bonds occurs with the formation of N,N'-(4-chloro-5-iodocyclohexan-1,2-diyl)bis(1,1,1-trifluoromethanesulfonamide) 9. Under the action of sodium iodide in acetone, the latter product undergoes halogenophilic attack with the reduction of the CHI group and elimination of HCl to give trans-N,N'-cyclohex-4-en-1,2-diylbis(1,1,1-trifluoromethanesulfonamide) 10, whose structure was also determined by X-ray analysis. 1,3,5-Cycloheptatriene under these conditions is oxidized to benzaldehyde and does not react with trifluoromethanesulfonamide.}, language = {en} } @article{UnuabonahOluOwolabiTaubertetal.2013, author = {Unuabonah, Emmanuel I. and Olu-Owolabi, Bamidele I. and Taubert, Andreas and Omolehin, Elizabeth B. and Adebowale, Kayode O.}, title = {SAPK a novel composite resin for water treatment with very high Zn2+, Cd2+, and Pb2+ adsorption capacity}, series = {Industrial \& engineering chemistry research}, volume = {52}, journal = {Industrial \& engineering chemistry research}, number = {2}, publisher = {American Chemical Society}, address = {Washington}, issn = {0888-5885}, doi = {10.1021/ie3024577}, pages = {578 -- 585}, year = {2013}, abstract = {A new sulfonated aniline-modified poly(vinyl alcohol)/K-feldspar (SAPK) composite was prepared. The cation-exchange capacity of the composite was found to be S times that of neat feldspar. The specific surface area and point of zero charge also changed significantly upon modification, from 15.6 +/- 0.1 m(2)/g and 2.20 (K-feldspar) to 73.6 +/- 0.3 m(2)/g and 1.91 (SAPK). Zn2+, Cd2+, and Pb2+ adsorption was found to be largely independent of pH, and the metal adsorption rate on SAPK was higher than that on neat feldspar. This particularly applies to the initial adsorption rates. The adsorption process involves both film and pore diffusion; film diffusion initially controls the adsorption. The Freundlich and Langmuir models were found to fit metal-ion adsorption on SAPK most accurately. Adsorption on neat feldspar was best fitted with a Langmuir model, indicating the formation of adsorbate monolayers. Both pure feldspar and SAPK showed better selectivity for Pb2+ than for Cd2+ or Zn2+.}, language = {en} }