2,568 research outputs found
GC-FID data of biocatalytic esterification reactions & NMR data of lignin characterization
No full textTabulated chromatographic data (GC-FID) from butyl butyrate esterification reactions. 13C and 31P NMR data from pine kraft lignin (BIOPIVA 100) and cationic pine kraft lignin. A list of sample code identifiers with their descriptions is available upon request from the author.<br
DNA triple helix formation at target sites containing several pyrimidine interruptions: stabilization by protonated cytosine or 5-(1-propargylamino)dU.
No full textDNase I footprinting has been used to study the formation of parallel triplexes at oligopurine target sequences which are interrupted by pyrimidines at regular intervals. TA interruptions are targeted with third strand oligonucleotides containing guanine, generating G x TA triplets, while CG base pairs are targeted with thymine, forming T x CG triplets. We have attempted to optimize the stability of these complexes by varying the base composition and sequence arrangement of the target sites, and by replacing the third strand thymines with the positively charged analogue 5-(1-propargylamino)dU (U(P)). For the target sequence (AAAT)(5)AA, in which pyrimidines are positioned at every fourth residue, triplex formation with TG-containing oligonucleotides is only detected in the presence of a triplex-binding ligand, though stable triplexes were detected at the target site (AAAAAT)(3)AAAA. Triplex stability at targets containing pyrimidines at every fourth residue is increased by introducing guanines into the duplex repeat unit using the targets (AGAT)(5)AA and (ATGA)(5)AA. In contrast, placing C(+) x GC triplets on the 5'-side of G x TA, using the target (AGTA)(5)TT, produces complexes of lower stability. We have attempted further to increase the stability of these complexes by using the positively charged thymine base analogue U(P), and have shown that (TU(P)TG)(5)TT forms a more stable complex with target (AAAT)(5)AA than the unmodified third strand, generating a footprint in the absence of a triplex-binding ligand. Triplex formation at (AGTA)(5)AA is improved by using the modified oligonucleotide (TCGU(P))(5)TT, generating a complex in which the charged triplets C(+) x GC and U(P) x AT alternate with uncharged triplets. In contrast, placing U(P) x AT triplets adjacent to C(+) x GC, using the third strand oligonucleotide (U(P)CGT)(5)TT, reduces triplex formation, while the third strand with both substitutions, (U(P)CGU(P))(5)TT, produces a complex with intermediate stability. It appears that, although adjacent U(P) x AT triplets form stable triplexes, placing U(P) x AT adjacent to C(+) x GC is unfavorable. Similar results were obtained with fragments containing CG inversions within the oligopurine tract, though triplexes at (AAAAAC)(3)AA were only detected in the presence of a triplex-binding ligand. Placing C(+) x GC on the 5'-side of T x CG triplets also reduces triplex formation, while a 3'-C(+) x GC produces complexes with increased stability
Molecular Dynamics Investigations of Structural Conversions in Transformer Proteins
No full textMultifunctional proteins that undergo major structural changes to perform different functions are known as “Transformer Proteins”, which is a recently identified class of proteins. One such protein that shows a remarkable structural plasticity and has two distinct functions is the transcription antiterminator, RfaH. Depending on the interactions between its N-terminal domain and its C-terminal domain, the RfaH CTD exists as either an all-α-helix bundle or all-β-barrel structure. Another example of a transformer protein is the Ebola virus protein VP40 (eVP40), which exists in different conformations and oligomeric states (dimer, hexamer, and octamer), depending on the required function.I performed Molecular Dynamics (MD) computations to investigate the structural conversion of RfaH-CTD from its all-a to all-b form. I used various structural and statistical mechanics tools to identify important residues involved in controlling the conformational changes. In the full-length RfaH, the interdomain interactions were found to present the major barrier in the structural conversion of RfaH-CTD from all-a to all-b form. I mapped the energy landscape for the conformational changes by calculating the potential of mean force using the Adaptive Biasing Force and Jarzynski Equality methods. Similarly, the interdomain salt-bridges in the eVP40 protomer were found to play a critical role in domain association and plasma membrane (PM) assembly. This molecular dynamic simulation study is supported by virus like particle budding assays investigated by using live cell imaging that highlighted the important role of these saltbridges. I also investigated the plasma membrane association of the eVP40 dimer in various PM compositions and found that the eVP40 dimer readily associates with the PM containing POPS and PIP2 lipids. Also, the CTD helices were observed to be important in stabilizing the dimer-membrane complex. Coarse-grained MD simulations of the eVP40 hexamer and PM system revealed that the hexamer enhances the PIP2 lipid clustering at the lower leaflet of the PM. These results provide insight on the critical steps in the Ebola virus life cycle
Meetresultaten Kunststof GC-elementen: Project C2: Oever- en Bodembescherming met GC
No full textAnome BV en het Innovatie Test Centrum van Rijkswaterstaat-DWW zijn samen met verschillende partners aan het onderzoeken in hoeverre Ground Consolidators (GC\u92s) interessant zouden kunnen zijn voor gebruik in Oever- en bodembescherming. De eerste fase van het onderzoek is afgerond en er is besloten om verdergaand onderzoek te doen. In verband met duurzaamheid van het materiaal, is ervoor gekozen om verder onderzoek te verrichten naar GC-elementen van kunststof. Dit onderzoek is gedaan door een drietal studenten van de TU Delft aan de faculteit Civiele Techniek. Voorliggend document bevat de meetresultaten van de kwali- en kwantitatieve experimenten die zijn uitgevoerd om de eigenschappen van kunststoffen GC\u92s en een pakket GC\u92s te bepalen
Meetresultaten Kunststof GC-elementen: Versie 4
No full textAnome BV en het Innovatie Test Centrum van Rijkswaterstaat-DWW zijn samen met verschillende partners aan het onderzoeken in hoeverre Ground Consilidators (GC\u92s) interessant zouden kunnen zijn voor gebruik in Oever- en bodembescherming. De eerste fase van het onderzoek is afgerond en er is besloten om verdergaand onderzoek te doen. In verband met duurzaamheid van het materiaal, is ervoor gekozen om verder onderzoek te verrichten naar GC-elementen van kunststof. Dit onderzoek is gedaan door een drietal studenten van de TU Delft aan de faculteit Civiele Techniek. Voorliggend document bevat de meetresultaten van de kwali- en kwantitatieve experimenten die zijn uitgevoerd om de eigenschappen van kunststoffen GC\u92s en een pakket GC\u92s te bepalen
The Private Cost of Long-Term Care in Canada: Where You Live Matters
No full textCanadians expect the same access to health care whether they are rich or poor, and wherever they live, often without direct charge at the point of service. However, we find that the private cost of long-term care differs greatly across the country, and within provinces, we find substantial variation, depending on income level, marital status, and, in Quebec alone, on assets owned. A non-married person with average income would pay more than twice as much in the Atlantic provinces as in Quebec, while a couple with one in care would pay almost four times as much in Newfoundland as in Alberta.long-term care, private cost
Meetresultaten \u93extra proef\u94 Kunststof GC-elementen: Stabiliteit, soortelijk gewicht en elasticiteit
No full textDit rapport is een aanvulling op het eindverslag van het onderzoek naar het gedrag van kunststof GC elementen voor oever- en bodembescherming. Conclusies van dat (schaal-) onderzoek waren dat een structuur van GC elementen verrassend sterke hydraulische eigenschappen bezit en daarmee interessant is als erosiebeschermer bij bodem en oeverconstructies. Beperking in het gebruik lag bij \u93stabiliteit\u94. Onder sterke stroming of golfslag was het pakket onvoldoende stabiel. Zo werden er onder zeer sterke stroming flarden uit getrokken, of bewoog het pakket enigszins onder golfslag op een talud. Er werden verschillende kunststoffen gebruikt, met verschillende soortelijke gewichten. Uit extrapolatie en precieze bestudering van het bezwijken kon verwacht worden dat gebruik van sterkere GC\u92s (minder elastisch) en zwaardere GC\u92s (stabieler) het bereik waarin de GC gebruikt kan worden aanzienlijk zou moeten kunnen vergroten
Oblique derivative problems for second order equations of mixed type in multiply connected domains
No full textIn this paper, oblique derivative boundary value problems for second order equations of mixed (elliptic-hyperbolic) type in multiply connected domains is discussed. Firstly the representation of solutions for the above boundary value problem is given, afterwards the uniqueness and existence of solutions of the above problem are stated. In book [1], the author proposed the Dirichlet boundary value problem (Tricomi problem) for second order equations of mixed type in multiply connected domains. In [2, 3], the author only discussed the Dirichlet problem (Tricomi T-2 for the equation u(xx) + sgny u(yy) = 0 in a special doubly connected domain. Up to now we have not seen that other authors have solved it in multiply connected domains. In the present paper, we try to discuss the oblique derivative problem for second order equations of mixed type in multiply connected domains, which includes the Dirichlet problem (Problem T-2) as a special case.http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000169505000164&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=8e1609b174ce4e31116a60747a720701Mathematics, AppliedMathematicsCPCI-S(ISTP)
Semi-automated non-target processing in GC × GC–MS metabolomics analysis: applicability for biomedical studies
No full textDue to the complexity of typical metabolomics samples and the many steps required to obtain quantitative data in GC × GC-MS consisting of deconvolution, peak picking, peak merging, and integration, the unbiased non-target quantification of GC × GC-MS data still poses a major challenge in metabolomics analysis. The feasibility of using commercially available software for non-target processing of GC × GC-MS data was assessed. For this purpose a set of mouse liver samples (24 study samples and five quality control (QC) samples prepared from the study samples) were measured with GC × GC-MS and GC-MS to study the development and progression of insulin resistance, a primary characteristic of diabetes type 2. A total of 170 and 691 peaks were quantified in, respectively, the GC-MS and GC × GC-MS data for all study and QC samples. The quantitative results for the QC samples were compared to assess the quality of semi-automated GC × GC-MS processing compared to targeted GC-MS processing which involved time-consuming manual correction of all wrongly integrated metabolites and was considered as golden standard. The relative standard deviations (RSDs) obtained with GC × GC-MS were somewhat higher than with GC-MS, due to less accurate processing. Still, the biological information in the study samples was preserved and the added value of GC × GC-MS was demonstrated; many additional candidate biomarkers were found with GC × GC-MS compared to GC-MS. © 2010 The Author(s)
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