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	Author	Intrigila, Benedetto; Melatti, Igor; Tofani, Alberto; Macchiarelli, Guido
	Title	Computational models of myocardial endomysial collagen arrangement			Type	Journal Article
	Year	2007	Publication	Computer Methods and Programs in Biomedicine	Abbreviated Journal
	Volume	86	Issue	3	Pages	232-244
	Keywords
	Abstract	Collagen extracellular matrix is one of the factors related to high passive stiffness of cardiac muscle. However, the architecture and the mechanical aspects of the cardiac collagen matrix are not completely known. In particular, endomysial collagen contribution to the passive mechanics of cardiac muscle as well as its micro anatomical arrangement is still a matter of debate. In order to investigate mechanical and structural properties of endomysial collagen, we consider two alternative computational models of some specific aspects of the cardiac muscle. These two models represent two different views of endomysial collagen distribution: (1) the traditional view and (2) a new view suggested by the data obtained from scanning electron microscopy (SEM) in NaOH macerated samples (a method for isolating collagen from the other tissue). We model the myocardial tissue as a net of spring elements representing the cardiomyocytes together with the endomysial collagen distribution. Each element is a viscous elastic spring, characterized by an elastic and a viscous constant. We connect these springs to imitate the interconnections between collagen fibers. Then we apply to the net of springs some external forces of suitable magnitude and direction, obtaining an extension of the net itself. In our setting, the ratio forces magnitude /net extension is intended to model the stress /strain ratio of a microscopical portion of the myocardial tissue. To solve the problem of the correct identification of the values of the different parameters involved, we use an artificial neural network approach. In particular, we use this technique to learn, given a distribution of external forces, the elastic constants of the springs needed to obtain a desired extension as an equilibrium position. Our experimental findings show that, in the model of collagen distribution structured according to the new view, a given stress /strain ratio (of the net of springs, in the sense specified above) is obtained with much smaller (w.r.t. the other model, corresponding to the traditional view) elasticity constants of the springs. This seems to indicate that by an appropriate structure, a given stiffness of the myocardial tissue can be obtained with endomysial collagen fibers of much smaller size.
	Address
	Corporate Author				Thesis
	Publisher	Elsevier North-Holland, Inc.	Place of Publication	New York, NY, USA	Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	0169-2607	ISBN		Medium
	Area		Expedition		Conference
	Notes				Approved	yes
	Call Number	Sapienza @ mari @ Imtm07			Serial	82
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	Author	Intrigila, Benedetto; Salvo, Ivano; Sorgi, Stefano
	Title	A characterization of weakly Church-Rosser abstract reduction systems that are not Church-Rosser			Type	Journal Article
	Year	2001	Publication	Information and Computation	Abbreviated Journal
	Volume	171	Issue	2	Pages	137-155
	Keywords
	Abstract	Basic properties of rewriting systems can be stated in the framework of abstract reduction systems (ARS). Properties like confluence (or Church-Rosser, CR) and weak confluence (or weak Church-Rosser, WCR) and their relationships can be studied in this setting: as a matter of fact, well-known counterexamples to the implication WCR CR have been formulated as ARS. In this paper, starting from the observation that such counterexamples are structurally similar, we set out a graph-theoretic characterization of WCR ARS that is not CR in terms of a suitable class of reduction graphs, such that in every WCR not CR ARS, we can embed at least one element of this class. Moreover, we give a tighter characterization for a restricted class of ARS enjoying a suitable regularity condition. Finally, as a consequence of our approach, we prove some interesting results about ARS using the mathematical tools developed. In particular, we prove an extension of the NewmanÃ¢â‚¬â„¢s lemma and we find out conditions that, once assumed together with WCR property, ensure the unique normal form property. The Appendix treats two interesting examples, both generated by graph-rewriting rules, with specific combinatorial properties.
	Address
	Corporate Author				Thesis
	Publisher	Academic Press, Inc.	Place of Publication	Duluth, MN, USA	Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	0890-5401	ISBN		Medium
	Area		Expedition		Conference
	Notes				Approved	yes
	Call Number	Sapienza @ mari @ Intrigila-Salvo-Sorgi:01			Serial	68
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	Author	Kuijpers, Ed; Carotenuto, Luigi; Malapert, Jean-Cristophe; Markov-Vetter, Daniela; Melatti, Igor; Orlandini, Andrea; Pinchuk, Ranni
	Title	Collaboration on ISS Experiment Data and Knowledge Representation			Type	Conference Article
	Year	2012	Publication	Proc. of IAC 2012	Abbreviated Journal
	Volume	D.5.11	Issue		Pages
	Keywords
	Abstract
	Address
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN		ISBN		Medium
	Area		Expedition		Conference
	Notes				Approved	yes
	Call Number	Sapienza @ melatti @			Serial	107
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	Author	Lanotte, Ruggero; Maggiolo-Schettini, Andrea; Tini, Simone; Troina, Angelo; Tronci, Enrico
	Title	Automatic Analysis of the NRL Pump			Type	Journal Article
	Year	2004	Publication	Electr. Notes Theor. Comput. Sci.	Abbreviated Journal
	Volume	99	Issue		Pages	245-266
	Keywords
	Abstract	We define a probabilistic model for the NRL Pump and using FHP-mur$\varphi$ show experimentally that there exists a probabilistic covert channel whose capacity depends on various NRL Pump parameters (e.g. buffer size, number of samples in the moving average, etc).
	Address
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN		ISBN		Medium
	Area		Expedition		Conference
	Notes				Approved	yes
	Call Number	Sapienza @ mari @ entcs04			Serial	36
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	Author	Lanotte, Ruggero; Maggiolo-Schettini, Andrea; Tini, Simone; Troina, Angelo; Tronci, Enrico
	Title	Automatic Covert Channel Analysis of a Multilevel Secure Component			Type	Conference Article
	Year	2004	Publication	Information and Communications Security, 6th International Conference, ICICS 2004, Malaga, Spain, October 27-29, 2004, Proceedings	Abbreviated Journal
	Volume		Issue		Pages	249-261
	Keywords
	Abstract	The NRL Pump protocol defines a multilevel secure component whose goal is to minimize leaks of information from high level systems to lower level systems, without degrading average time performances. We define a probabilistic model for the NRL Pump and show how a probabilistic model checker (FHP-mur$\varphi$) can be used to estimate the capacity of a probabilistic covert channel in the NRL Pump. We are able to compute the probability of a security violation as a function of time for various configurations of the system parameters (e.g. buffer sizes, moving average size, etc). Because of the model complexity, our results cannot be obtained using an analytical approach and, because of the low probabilities involved, it can be hard to obtain them using a simulator.
	Address
	Corporate Author				Thesis
	Publisher	Springer	Place of Publication		Editor	Lopez, J.; Qing, S.; Okamoto, E.
	Language		Summary Language		Original Title
	Series Editor		Series Title	Lecture Notes in Computer Science	Abbreviated Series Title
	Series Volume	3269	Series Issue		Edition
	ISSN		ISBN		Medium
	Area		Expedition		Conference
	Notes				Approved	yes
	Call Number	Sapienza @ mari @ icics04			Serial	34
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	Author	Leeners, B.; Krueger, T.; Geraedts, K.; Tronci, E.; Mancini, T.; Ille, F.; Egli, M.; Roeblitz, S.; Wunder, D.; Saleh, L.; Schippert, C.; Hengartner, M.P.
	Title	Cognitive function in association with high estradiol levels resulting from fertility treatment			Type	Journal Article
	Year	2021	Publication	Hormones and Behavior	Abbreviated Journal
	Volume	130	Issue		Pages	104951
	Keywords	Cognition, Estrogen, Estradiol, Fertility treatment, Attention, Cognitive bias
	Abstract	The putative association between hormones and cognitive performance is controversial. While there is evidence that estradiol plays a neuroprotective role, hormone treatment has not been shown to improve cognitive performance. Current research is flawed by the evaluation of combined hormonal effects throughout the menstrual cycle or in the menopausal transition. The stimulation phase of a fertility treatment offers a unique model to study the effect of estradiol on cognitive function. This quasi-experimental observational study is based on data from 44 women receiving IVF in Zurich, Switzerland. We assessed visuospatial working memory, attention, cognitive bias, and hormone levels at the beginning and at the end of the stimulation phase of ovarian superstimulation as part of a fertility treatment. In addition to inter-individual differences, we examined intra-individual change over time (within-subject effects). The substantial increases in estradiol levels resulting from fertility treatment did not relate to any considerable change in cognitive functioning. As the tests applied represent a broad variety of cognitive functions on different levels of complexity and with various brain regions involved, we can conclude that estradiol does not show a significant short-term effect on cognitive function.
	Address
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	0018-506x	ISBN		Medium
	Area		Expedition		Conference
	Notes				Approved	no
	Call Number	MCLab @ davi @ Leeners2021104951			Serial	185
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	Author	Leeners, B.; Krueger, T.H.C.; Geraedts, K.; Tronci, E.; Mancini, T.; Egli, M.; Roeblitz, S.; Saleh, L.; Spanaus, K.; Schippert, C.; Zhang, Y.; Ille, F.
	Title	Associations Between Natural Physiological and Supraphysiological Estradiol Levels and Stress Perception			Type	Journal Article
	Year	2019	Publication	Frontiers in Psychology	Abbreviated Journal
	Volume	10	Issue		Pages	1296
	Keywords
	Abstract	Stress is a risk factor for impaired general, mental and reproductive health. The role of physiological and supraphysiological estradiol concentrations in stress perception and stress processing is less well understood. We therefore, conducted a prospective observational study to investigate the association between estradiol, stress perception and stress-related cognitive performance within serial measurements either during the natural menstrual cycle or during fertility treatment, where estradiol levels are strongly above the physiological level of a natural cycle and consequently, represent a good model to study dose-dependent effects of estradiol. Data from 44 women receiving in vitro fertilization at the Department of Reproductive Endocrinology in Zurich, Switzerland was compared to data from 88 women with measurements during their natural menstrual cycle. The german version of the Perceived Stress Questionnaire (PSQ) and the Cognitive Bias Test (CBT), in which cognitive performance is tested under time stress were used to evaluate subjective and functional aspects of stress. Estradiol levels were investigated at four different time points during the menstrual cycle and at two different time points during a fertility treatment. Cycle phase were associated with PSQ worry and cognitive bias in normally cycling women, but different phases of fertility treatment were not associated with subjectively perceived stress and stress-related cognitive bias. PSQ lack of joy and PSQ demands related to CBT in women receiving fertility treatment but not in women with a normal menstrual cycle. Only strong changes of the estradiol level during fertility treatment were weakly associated with CBT, but not with subjectively experienced stress. Our research emphasises the multidimensional character of stress and the necessity to adjust stress research to the complex nature of stress perception and processing. Infertility is associated with an increased psychological burden in patients. However, not all phases of the process to overcome infertility do significantly increase patient stress levels. Also, research on the psychological burden of infertility should consider that stress may vary during the different phases of fertility treatment.
	Address
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	1664-1078	ISBN		Medium
	Area		Expedition		Conference
	Notes				Approved	no
	Call Number	MCLab @ davi @ ref10.3389/fpsyg.2019.01296			Serial	178
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	Author	Leeners, B.; Kruger, T.H.C.; Geraedts, K.; Tronci, E.; Mancini, T.; Ille, F.; Egli, M.; RÃ¶blitz, S.; Saleh, L.; Spanaus, K.; Schippert, C.; Zhang, Y.; Hengartner, M.P.
	Title	Lack of Associations between Female Hormone Levels and Visuospatial Working Memory, Divided Attention and Cognitive Bias across Two Consecutive Menstrual Cycles			Type	Journal Article
	Year	2017	Publication	Frontiers in Behavioral Neuroscience	Abbreviated Journal
	Volume	11	Issue		Pages	120
	Keywords
	Abstract	Background: Interpretation of observational studies on associations between prefrontal cognitive functioning and hormone levels across the female menstrual cycle is complicated due to small sample sizes and poor replicability. Methods: This observational multisite study comprised data of n=88 menstruating women from Hannover, Germany, and Zurich, Switzerland, assessed during a first cycle and n=68 re-assessed during a second cycle to rule out practice effects and false-positive chance findings. We assessed visuospatial working memory, attention, cognitive bias and hormone levels at four consecutive time-points across both cycles. In addition to inter-individual differences we examined intra-individual change over time (i.e., within-subject effects). Results: Oestrogen, progesterone and testosterone did not relate to inter-individual differences in cognitive functioning. There was a significant negative association between intra-individual change in progesterone and change in working memory from pre-ovulatory to mid-luteal phase during the first cycle, but that association did not replicate in the second cycle. Intra-individual change in testosterone related negatively to change in cognitive bias from menstrual to pre-ovulatory as well as from pre-ovulatory to mid-luteal phase in the first cycle, but these associations did not replicate in the second cycle. Conclusions: There is no consistent association between women's hormone levels, in particular oestrogen and progesterone, and attention, working memory and cognitive bias. That is, anecdotal findings observed during the first cycle did not replicate in the second cycle, suggesting that these are false-positives attributable to random variation and systematic biases such as practice effects. Due to methodological limitations, positive findings in the published literature must be interpreted with reservation.
	Address
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	1662-5153	ISBN		Medium
	Area		Expedition		Conference
	Notes				Approved	no
	Call Number	Sapienza @ mari @ ref10.3389/fnbeh.2017.00120			Serial	167
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	Author	Maggioli, F.; Mancini, T.; Tronci, E.
	Title	SBML2Modelica: Integrating biochemical models within open-standard simulation ecosystems			Type	Journal Article
	Year	2019	Publication	Bioinformatics	Abbreviated Journal
	Volume	36	Issue	7	Pages	2165â€“2172
	Keywords
	Abstract	SBML is the most widespread language for the definition of biochemical models. Although dozens of SBML simulators are available, there is a general lack of support to the integration of SBML models within open-standard general-purpose simulation ecosystems. This hinders co-simulation and integration of SBML models within larger model networks, in order to, e.g., enable in-silico clinical trials of drugs, pharmacological protocols, or engineering artefacts such as biomedical devices against Virtual Physiological Human models.Modelica is one of the most popular existing open-standard general-purpose simulation languages, supported by many simulators. Modelica models are especially suited for the definition of complex networks of heterogeneous models from virtually all application domains. Models written in Modelica (and in 100+ other languages) can be readily exported into black-box Functional Mock-Up Units (FMUs), and seamlessly co-simulated and integrated into larger model networks within open-standard language-independent simulation ecosystems.In order to enable SBML model integration within heterogeneous model networks, we present SBML2Modelica, a software system translating SBML models into well-structured, user-intelligible, easily modifiable Modelica models. SBML2Modelica is SBML Level 3 Version 2 -compliant and succeeds on 96.47% of the SBML Test Suite Core (with a few rare, intricate, and easily avoidable combinations of constructs unsupported and cleanly signalled to the user). Our experimental campaign on 613 models from the BioModels database (with up to 5438 variables) shows that the major open-source (general-purpose) Modelica and FMU simulators achieve performance comparable to state-of-the-art specialised SBML simulators.SBML2Modelica is written in Java and is freely available for non-commercial use at https://bitbucket.org/mclab/sbml2modelica
	Address
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	1367-4803	ISBN		Medium
	Area		Expedition		Conference
	Notes				Approved	no
	Call Number	MCLab @ davi @ ref10.1093/bioinformatics/btz860			Serial	179
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	Author	Mancini, T.
	Title	Now or Never: Negotiating Efficiently with Unknown or Untrusted Counterparts			Type	Journal Article
	Year	2016	Publication	Fundamenta Informaticae	Abbreviated Journal
	Volume	149	Issue	1-2	Pages	61-100
	Keywords
	Abstract
	Address
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN		ISBN		Medium
	Area		Expedition		Conference
	Notes				Approved	no
	Call Number	MCLab @ davi @ DBLP:journals/fuin/Mancini16			Serial	161
Permanent link to this record