674 research outputs found
The Higher-Order Singular Value Decomposition Theory and an Application
No full textTensor modeling and algorithms for computing various tensor decompositions (the Tucker/HOSVD and CP decompositions, as discussed here, most notably) constitute a very active research area in mathematics. Most of this research has been driven by applications. There is also much software available, including MATLAB toolboxes [4]. The objective of this lecture has been to provide an accessible introduction to state of the art in the field, written for a signal processing audience. We believe that there is good potential to find further applications of tensor modeling techniques in the signal processing field.©2009 IEEE. Personal use of this material is permitted. However, permission to reprint/republish this material for advertising or promotional purposes or for creating new collective works for resale or redistribution to servers or lists, or to reuse any copyrighted component of this work in other works must be obtained from the IEEE.:Göran Bergqvist and Erik G. Larsson, Higher-Order Singular Value Decomposition: Theory and an Application, 2010, IEEE SIGNAL PROCESSING MAGAZINE, (27)3, 151-154
Near Infrared Spectroscopy in Monitoring the Activation of the Olfactory Cortex in Newborn Infants
No full textHER2 and TP53 in human breast cancer : studies of methods and prognostic value
No full textPrognostic and predictive factors are needed for tailored therapy strategies, aimed at reducing breast cancer relapse and improving survival. The present arsenal of such factors is insufficient.The aims of this thesis were to study the TP53 gene, and the human epidermal growth factor receptor 2 (HER2), also known as c-erbB-2 and HER2/neu, in human breast cancer, especially in relation to outcome after tamoxifen therapy. In order to make the best out of the biological markers prognostic and predictive values, optimal methods for their determinations are required, and this is also addressed in the thesis.We found mutated TP53 to be associated with worse outcome after adjuvant chemotherapy (CMF), but to be of no statistically significant importance with regard to the outcome of adjuvant tamoxifen. However, in the total patient population, women with wild type TP53 tumours had better survival compared with women whose tumours were TP53 mutated. We used sequenced-based methodology for analysis of all TP53 exons, based on indications that this method is superior to immunohistochemistry (IHC) in prognostication of breast cancer relapse and survival.The monoclonal antibody trastuzumab, directed against HER2, is one of many examples of emerging targeting therapies, of which tamoxifen was the first. We describe the first patients in Sweden who received trastuzumab on a named patient basis, all with advanced breast cancer failing on conventional therapy. The previously demonstrated efficacy and acceptable toxicity in randomised studies were confirmed in our small population-based patient cohort.Endocrine therapy with tamoxifen, mediating both anti-oestrogen, and oestrogen-like effects, has been used for more than three decades. Subsequently, tamoxifen resistance is a problem for a large cohort of breast cancer patients. Preclinical as well as clinical studies have hypothesised HER2 to be involved in tamoxifen resistance through cross-talk signalling with the oestrogen receptor, via the mitogen activated protein kinase, extra cellular regulated kinases 1 and 2 (ERK1/2) pathway. We confirmed HER2 to be associated with worse outcome after tamoxifen therapy while, in contrast to other studies, we found that activated ERK1/2 immunohistochemical staining, prognosticate better outcome.The increasing number of patients eligible for trastuzumab therapy requires reproducible, cost-effective, and high throughput assays for HER2 determinations. Immunohistochemistry and fluorescence in situ hybridisation are the most frequently used methods for evaluation of HER2 status. We demonstrate quantitative real-time PCR and an RNA expression-based methodology to generate high-quality HER2 assessments with equivalent, and in some aspects improved results, compared with immunohistochemistry and fluorescence in situ hybridisation/chromogenic in situ hybridisation.List of scientific papersI. Andersson J, Larsson L, Klaar S, Holmberg L, Nilsson J, Inganas M, Carlsson G, Ohd J, Rudenstam CM, Gustavsson B, Bergh J (2005). Worse survival for TP53 (p53)-mutated breast cancer patients receiving adjuvant CMF. Ann Oncol. 16(5): 743-8. https://doi.org/10.1093/annonc/mdi150 II. Andersson J, Linderholm B, Greim G, Lindh B, Lindman H, Tennvall J, Tennvall-Nittby L, Pettersson-Skold D, Sverrisdottir A, Soderberg M, Klaar S, Bergh J (2002). A population-based study on the first forty-eight breast cancer patients receiving trastuzumab (Herceptin) on a named patient basis in Sweden. Acta Oncol. 41(3): 276-81. https://pubmed.ncbi.nlm.nih.gov/12195747 III. Bergqvist J, Elmberger G, Ohd J, Linderholm B, Bjohle J, Hellborg H, Nordgren H, Borg AL, Skoog L, Bergh J (2006). Activated ERK1/2 and phosphorylated oestrogen receptor alpha are associated with improved breast cancer survival in women treated with tamoxifen. [Accepted] https://doi.org/10.1016/j.ejca.2006.01.028 IV. Bergqvist J, Ohd J, Smeds J, Klaar S, Isola J, Tanner M, Nordgren H, Elmberger G, Hellborg H, Borg AL, Skoog L, Bergh J (2006). HER2 in primary breast cancer evaluated with quantitative real time PCR and micro array based RNA expression in relation to outcome. [Manuscript]</p
Nutritional status and development of congenital glaucoma patients.Preliminary observations.
No full textParalogous SSTR-gene bearing chromosome regions in the stickleback and zebrafish genomes
No full text<p>Published in: Ocampo Daza D, Sundström G, Bergqvist CA, Larhammar D. The evolution of vertebrate somatostatin receptors and their gene regions involves extensive chromosomal rearrangements. BMC Evolutionary Biology 2012, 12:231 doi:10.1186/1471-2148-12-231. Please refer to this article if using this figure.</p>
<p><strong>Figure 7 Continued from Figure 6.</strong> Paralogous chromosome regions in the stickleback and<br>zebrafish genomes. More rearrangements could be identified in the zebrafish genome than in<br>the stickleback or medaka genomes.</p>
<p> </p
Phylogenetic Maximum Likelihood tree of the GRIN2 gene family
No full text<p>Published in: Ocampo Daza D, Sundström G, Bergqvist CA, Larhammar D. The evolution of vertebrate somatostatin receptors and their gene regions involves extensive chromosomal rearrangements. BMC Evolutionary Biology 2012, 12:231 doi:10.1186/1471-2148-12-231. Please refer to this article if using this figure.</p>
<p><strong>Figure 3 Phylogenetic Maximum Likelihood tree of the GRIN2 gene family.</strong> The<br>ionotropic glutamate receptor 2 (GRIN2) gene family is a neighboring family of the <em>SSTR2, -</em><br><em>3</em> and -<em>5</em> chromosomal regions. Phylogenetic methods, monophyletic clusters and leaf names<br>as in Figure 2.</p
Figure 10 in The axial biomechanics of Trigonosaurus pricei (Neosauropoda: Titanosauria) and the importance of the cervical-dorsal region to sauropod high-browser feeding strategy
No full textFigure 10. Dorsal cartilaginous neutral posture: neutral pose of the dorsal region with percentages of soft-tissue thickness as follows: A, 2.5%; B, 5%; C, 10%; D, 15%; E, 15%; F, 25%. No scale.Vidal, L. S., Bergqvist, L. P., Candeiro, C. R. A., Bandeira, K. L. N., Tavares, S., Brusatte, S. L., & Pereira, P. V. L. G. C. (2024). Figure 10 in The axial biomechanics of Trigonosaurus pricei (Neosauropoda: Titanosauria) and the importance of the cervical-dorsal region to sauropod high-browser feeding strategy. In Zoological Journal of the Linnean Society (Vol. 201, Number 3, pp. 1–33). Zenodo. https://doi.org/10.5281/zenodo.1383594
Subcutaneous depot medroxyprogesterone acetate versus leuprolide acetate in the treatment of endometriosis-associated pain
No full textBACKGROUND: A clinical study compared efficacy and safety of depot medroxyprogesterone acetate (DMPA) with leuprolide for endometriosis-associated pain. METHODS: This multicentre, 18 month, evaluator-blinded, comparator-controlled trial randomized 300 women with laparoscopically diagnosed endometriosis to 6 month treatment with subcutaneous injection of 104 mg/0.65 ml DMPA (DMPA-SC 104) every 3 months or leuprolide (3.75 mg monthly or 11.25 mg every 3 months), with 12 months post-treatment follow-up. Endpoints included patient response to treatment in five signs/symptoms (dysmenorrhoea, dyspareunia, pelvic pain, pelvic tenderness, induration) and changes in bone mineral density (BMD) and productivity at 6 and 18 months. RESULTS: DMPA-SC 104 and leuprolide produced equivalent (P < 0.02) reductions in at least four pain categories and significant (P < 0.001) improvements in composite score at months 6 and 18. At month 6, reductions in total hip and lumbar spine BMD were significantly less (P < 0.001) with DMPA-SC 104 versus leuprolide. BMD returned to pre-treatment levels 12 months post-treatment in the DMPA-SC 104 but not the leuprolide group. Total productivity also significantly (P0.05) improved in both groups at 6 and 18 months. CONCLUSIONS: DMPA-SC 104 reduces endometriosis-associated pain as effectively as leuprolide and improves productivity with significantly less BMD decline
Phylogenetic Maximum Likelihood trees of the FNG and FSCN gene families
No full text<p>Published in: Ocampo Daza D, Sundström G, Bergqvist CA, Larhammar D. The evolution of vertebrate somatostatin receptors and their gene regions involves extensive chromosomal rearrangements. BMC Evolutionary Biology 2012, 12:231 doi:10.1186/1471-2148-12-231. Please refer to this article if using this figure.</p>
<p><strong>Figure 4 Phylogenetic Maximum Likelihood trees of the FNG and FSCN gene families.</strong> The fringe homolog (FNG) and fascin homolog 1 and 2 (FSCN) gene families are neighboring gene families of the SSTR2, -3 and -5 chromosomal regions. Phylogenetic methods, monophyletic clusters and leaf names as in Figure 2. All neighboring gene family trees for the SSTR2, -3 and -5-bearing regions, including NJ analyses and all branch support values, are shown in Figure S21-S50 (see Additional file 6).</p
- …
