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Rolling vs. seasonal PMF : real-world multi-site and synthetic dataset comparison
Marta Via, Gang Chen, Francesco Canonaco, Kaspar Rudolf Daellenbach, Benjamin Chazeau, Hasna Chebaicheb, Jianhui Jiang, Hannes Keernik, Chunshui Lin, Nicolas Marchand, 2022, original scientific article

Abstract: Abstract. Particulate matter (PM) has become a major concern in terms of human health and climate impact. In particular, the source apportionment (SA) of organic aerosols (OA) present in submicron particles (PM1) has gained relevance as an atmospheric research field due to the diversity and complexity of its primary sources and secondary formation processes. Moreover, relatively simple but robust instruments such as the Aerosol Chemical Speciation Monitor (ACSM) are now widely available for the near-real-time online determination of the composition of the non-refractory PM1. One of the most used tools for SA purposes is the source-receptor positive matrix factorisation (PMF) model. Even though the recently developed rolling PMF technique has already been used for OA SA on ACSM datasets, no study has assessed its added value compared to the more common seasonal PMF method using a practical approach yet. In this paper, both techniques were applied to a synthetic dataset and to nine European ACSM datasets in order to spot the main output discrepancies between methods. The main advantage of the synthetic dataset approach was that the methods' outputs could be compared to the expected “true” values, i.e. the original synthetic dataset values. This approach revealed similar apportionment results amongst methods, although the rolling PMF profile's adaptability feature proved to be advantageous, as it generated output profiles that moved nearer to the truth points. Nevertheless, these results highlighted the impact of the profile anchor on the solution, as the use of a different anchor with respect to the truth led to significantly different results in both methods. In the multi-site study, while differences were generally not significant when considering year-long periods, their importance grew towards shorter time spans, as in intra-month or intra-day cycles. As far as correlation with external measurements is concerned, rolling PMF performed better than seasonal PMF globally for the ambient datasets investigated here, especially in periods between seasons. The results of this multi-site comparison coincide with the synthetic dataset in terms of rolling–seasonal similarity and rolling PMF reporting moderate improvements. Altogether, the results of this study provide solid evidence of the robustness of both methods and of the overall efficiency of the recently proposed rolling PMF approach.
Keywords: particulate matter, synthetic dataset comparison, source apportionment, organic aerosols
Published in RUNG: 10.05.2024; Views: 391; Downloads: 4
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Covalent organic frameworks for fluorescent imaging of hypoxia
Tina Škorjanc, Dinesh Shetty, Gregor Mali, Damjan Makuc, Martina Bergant Marušič, Matjaž Valant, 2023, published scientific conference contribution abstract

Keywords: hypoxia, covalent organic frameworks, imaging, fluorescence, post-synthetic modification
Published in RUNG: 06.06.2023; Views: 1421; Downloads: 2
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Merohedral twinning in protein crystals revealed a new synthetic three helix bundle motif
S. Geremia, Matteo De March, 2012, complete scientific database of research data

Keywords: crystal structures, de novo protein, synthetic construct
Published in RUNG: 16.03.2021; Views: 2158; Downloads: 10
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Development of encapsulation techniques for the production and conservation of synthetic seeds in ornamental plants
Yelda Ozden-Tokatli, Anna De Carlo, Fusun Gumusel, Sara Pignattelli, Maurizio Lambardi, 2008, original scientific article

Abstract: The synthetic seed ("synseed") technology, initially developed through the encapsulation of somatic embryos, is now available for the use with non-embryogenic in vitro-derived explants, such as buds and nodal segments. For ornamental plants, to date there are few reports dealing with the production and the conservation of synseeds. Hence, the present study was conducted to develop an efficient encapsulation protocol for apical and axillary buds from various ornamental shrubs, i.e., oleander (Nerium oleander L.), photinia (Photinia fraseri Dress.), and lilac (Syringa vulgaris L.). For encapsulation, apical and axillary buds were excised, directly immersed in a Na-alginate solution, and then released dropwise in 100 mM CaCl2 center dot 2H(2)O for bead hardening. With photinia, best results were achieved when the synseeds were prepared using 3% Na-alginate, beads hardened for 30 min and germinated on hormone-free or BA-containing gelled MS medium. Thus, up to 92% of synseeds germinated and converted to shoots in a period of 10-11 days. The synthetic seeds of lilac, containing apical buds, showed a shorter germination time when 10-30 g 1(-1) sucrose was included in their "artificial endosperm". Successful medium-term conservation was then achieved with the storage of synthetic seeds at 4 degrees C in the dark on gelled MS medium, where up to 75% (oleander) and and 9 1 % (photinia) synseeds still germinated after 2 or 3 months of cold storage, respectively. Moreover, promising results have been obtained with the cryopreservation of photinia apical buds by means of the technique of "encapsulation-dehydration".
Keywords: conservation, cryopreservation, encapsulation, ornamentals, synthetic seeds
Published in RUNG: 20.04.2020; Views: 3082; Downloads: 0
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NaLi-H1: A universal synthetic library of humanized nanobodies providing highly functional antibodies and intrabodies
Sandrine Moutel, Nicolas Bery, Virginie Bernard, Laura Keller, Emilie Lemesre, Ario De Marco, Laetitia Ligat, Jean-Christophe Rain, Gilles Fevre, Aurelien Olichon, Franck Perez, 2016, original scientific article

Abstract: In vitro selection of antibodies allows to obtain highly functional binders, rapidly and at lower cost. Here, we describe the first fully synthetic phage display library of humanized llama single domain antibody (NaLi-H1: Nanobody Library Humanized 1). Based on a humanized synthetic single domain antibody (hs2dAb) scaffold optimized for intracellular stability, the highly diverse library provides high affinity binders without animal immunization. NaLi-H1 was screened following several selection schemes against various targets (Fluorescent proteins, actin, tubulin, p53, HP1). Conformation antibodies against active RHO GTPase were also obtained. Selected hs2dAb were used in various immunoassays and were often found to be functional intrabodies, enabling tracking or inhibition of endogenous targets. Functionalization of intrabodies allowed specific protein knockdown in living cells. Finally, direct selection against the surface of tumor cells produced hs2dAb directed against tumor-specific antigens further highlighting the potential use of this library for therapeutic applications.
Keywords: nanobodies, synthetic phage display library, in vitro panning
Published in RUNG: 17.08.2016; Views: 5599; Downloads: 243
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