| 1. |
- Zamora, Juan Carlos, et al.
(author)
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Considerations and consequences of allowing DNA sequence data as types of fungal taxa
- 2018
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In: IMA Fungus. - : INT MYCOLOGICAL ASSOC. - 2210-6340 .- 2210-6359. ; 9:1, s. 167-185
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Journal article (peer-reviewed)abstract
- Nomenclatural type definitions are one of the most important concepts in biological nomenclature. Being physical objects that can be re-studied by other researchers, types permanently link taxonomy (an artificial agreement to classify biological diversity) with nomenclature (an artificial agreement to name biological diversity). Two proposals to amend the International Code of Nomenclature for algae, fungi, and plants (ICN), allowing DNA sequences alone (of any region and extent) to serve as types of taxon names for voucherless fungi (mainly putative taxa from environmental DNA sequences), have been submitted to be voted on at the 11th International Mycological Congress (Puerto Rico, July 2018). We consider various genetic processes affecting the distribution of alleles among taxa and find that alleles may not consistently and uniquely represent the species within which they are contained. Should the proposals be accepted, the meaning of nomenclatural types would change in a fundamental way from physical objects as sources of data to the data themselves. Such changes are conducive to irreproducible science, the potential typification on artefactual data, and massive creation of names with low information content, ultimately causing nomenclatural instability and unnecessary work for future researchers that would stall future explorations of fungal diversity. We conclude that the acceptance of DNA sequences alone as types of names of taxa, under the terms used in the current proposals, is unnecessary and would not solve the problem of naming putative taxa known only from DNA sequences in a scientifically defensible way. As an alternative, we highlight the use of formulas for naming putative taxa (candidate taxa) that do not require any modification of the ICN.
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| 2. |
- Guaita, Lucia, et al.
(author)
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The Lyman alpha reference sample IV. Morphology at low and high redshift
- 2015
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In: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 576
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Journal article (peer-reviewed)abstract
- Context. The transport of Ly alpha photons in galaxies is a complex process and the conditions under which Ly alpha photons manage to escape from certain galaxies is still under investigation. The Lyman alpha reference sample (LARS) is a sample of 14 local star-forming galaxies, designed to study Ly alpha in detail and relate it to rest-frame UV and optical emission. Aims. With the aim of identifying rest-frame UV and optical properties, which are typical of Ly alpha emitters (LAEs, galaxies with EW(Ly alpha) > 20 angstrom) at both low and high redshift, we investigated the morphological properties of the LARS galaxies, in particular the ones that exhibit intense Ly alpha radiation. Methods. We measured sizes and morphological parameters in the continuum, Ly alpha, and Ha images. We studied morphology by using the Gini coefficient vs. M20 and asymmetry vs. concentration diagrams. We then simulated LARS galaxies at z similar to 2 and 5.7, performing the same morphological measurements. We also investigated the detectability of LARS galaxies in current deep field observations. The subsample of LAEs within LARS (LARS-LAEs) was stacked to provide a comparison to stacking studies performed at high redshift. Results. LARS galaxies have continuum size, stellar mass, and rest-frame absolute magnitude typical of Lyman break analogues in the local Universe and also similar to 2 < z < 3 star-forming galaxies and massive LAEs. LARS optical morphology is consistent with the one of merging systems, and irregular or starburst galaxies. For the first time we quantify the morphology in Ly alpha images: even if a variety of intrinsic conditions of the interstellar medium can favour the escape of Ly alpha photons, LARS-LAEs appear small in the continuum, and their Ly alpha is compact. LARS galaxies tend to be more extended in Ly alpha than in the rest-frame UV. It means that Ly alpha photons escape by forming haloes around HII regions of LARS galaxies. Conclusions. The stack of LARS-LAE Ly alpha images is peaked in the centre, indicating that the conditions, which make a galaxy an LAE, tend to produce a concentrated surface brightness profile. On the other hand, the stack of all LARS galaxies is shallower and more extended. This can be caused by the variety of dust and HI amount and distribution, which produces a more complex, patchy, and extended profile, like the one observed for Lyman break galaxies that can contribute to the stack. We cannot identify a single morphological property that controls whether a galaxy emits a net positive Ly alpha flux. However, the LARS-LAEs have continuum properties consistent with merging systems.
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| 3. |
- Bagga-Gupta, Sangeeta, 1962-, et al.
(author)
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Preface
- 2019
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In: Reconceptualizing connections between language, literacy and learning. - : Springer. - 9783030269937 ; , s. v-vi
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Book chapter (other academic/artistic)
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| 4. |
- Galea, V. P., et al.
(author)
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Evaluation of in vivo wear of vitamin E-diffused highly crosslinked polyethylene at five years
- 2018
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In: Bone and Joint Journal. - 2049-4394. ; 100B100-B:12, s. 1592-1599
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Journal article (peer-reviewed)abstract
- Aims The primary aim of this study was to compare the wear properties of vitamin E-diffused, highly crosslinked polyethylene (VEPE) and one formulation of moderately crosslinked and mechanically annealed ultra-high molecular weight polyethylene (ModXLPE) in patients five years after primary total hip arthroplasty (THA). The secondary aim was to assess the clinical results of patients treated with VEPE by evaluating patient-reported outcome measures (PROMs), radiological evidence of fixation, and the incidence of mechanical failure. Patients and Methods A total of 208 patients (221 THAs) from four international centres were recruited into a prospective study involving radiostereometric analysis (RSA) and the assessment of clinical outcomes. A total of 193 hips (87%) were reviewed at the five-year follow-up. Of these, 136 (70%) received VEPE (vs ModXLPE) liners and 68 (35%) received ceramic (vs metal) femoral heads. PROMs and radiographs were collected preoperatively and at one, two, and five years postoperatively. In addition, RSA images were collected to measure PE wear postoperatively and at one, two, and five years after surgery. Results We observed similar bedding in one year postoperatively and wear two years postoperatively between the two types of liner. However, there was significantly more penetration of the femoral head in the ModXLPE cohort compared with the VEPE cohort five years postoperatively (p < 0.001). The only variables independently predictive of increased wear were ModXLPE (vs VEPE) liner type (β = 0.22, p = 0.010) and metal (vs ceramic) femoral head (β = 0.21, p = 0.013). There was no association between increased wear and the development of radiolucency (p = 0.866) or PROMs. No patient had evidence of osteolysis. Conclusion Five years postoperatively, patients with VEPE (vs ModXLPE) and ceramic (vs metal) femoral heads had decreased wear. The rates of wear for both liners were very low and have not led to any osteolysis or implant failure due to aseptic loosening. ©2018 The British Editorial Society of Bone & Joint Surgery.
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| 5. |
- Langeback, A, et al.
(author)
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CETSA-based target engagement of taxanes as biomarkers for efficacy and resistance
- 2019
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In: Scientific reports. - : Springer Science and Business Media LLC. - 2045-2322. ; 9:1, s. 19384-
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Journal article (peer-reviewed)abstract
- The use of taxanes has for decades been crucial for treatment of several cancers. A major limitation of these therapies is inherent or acquired drug resistance. A key to improved outcome of taxane-based therapies is to develop tools to predict and monitor drug efficacy and resistance in the clinical setting allowing for treatment and dose stratification for individual patients. To assess treatment efficacy up to the level of drug target engagement, we have established several formats of tubulin-specific Cellular Thermal Shift Assays (CETSAs). This technique was evaluated in breast and prostate cancer models and in a cohort of breast cancer patients. Here we show that taxanes induce significant CETSA shifts in cell lines as well as in animal models including patient-derived xenograft (PDX) models. Furthermore, isothermal dose response CETSA measurements allowed for drugs to be rapidly ranked according to their reported potency. Using multidrug resistant cancer cell lines and taxane-resistant PDX models we demonstrate that CETSA can identify taxane resistance up to the level of target engagement. An imaging-based CETSA format was also established, which in principle allows for taxane target engagement to be accessed in specific cell types in complex cell mixtures. Using a highly sensitive implementation of CETSA, we measured target engagement in fine needle aspirates from breast cancer patients, revealing a range of different sensitivities. Together, our data support that CETSA is a robust tool for assessing taxane target engagement in preclinical models and clinical material and therefore should be evaluated as a prognostic tool during taxane-based therapies.
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