simthyr-research Mailing List for SimThyr
A simulation program for thyroid homeostasis.
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simthyr-research — Scientific applications of SimThyr
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From: Johannes W. D. <joh...@ru...> - 2018-07-16 21:10:38
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With immediate effect, SimThyr is available in the Zenodo repository. Zenodo is a European research OpenScience initiative created by OpenAIRE and CERN. Its aim is to support open access to research data, software and tools. See https://www.zenodo.org/record/1305051 for details. Zenodo also provides digitial object identifiers (DOIs) for every version of SimThyr. A universal DOI for all versions is 10.5281/zenodo.1303822. -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- PD Dr. med. Johannes W. Dietrich -- Laboratory XU44, Endocrine Research -- Medical Hospital I, Bergmannsheil University Hospitals -- Ruhr University of Bochum -- Buerkle-de-la-Camp-Platz 1, D-44789 Bochum, NRW, Germany -- Phone: +49:234:302-6400, Fax: +49:234:302-6403 -- eMail: "joh...@ru..." -- http://www.thyreologie.com.de -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- |
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From: Johannes W. D. <joh...@ru...> - 2016-08-24 17:43:53
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A recently published perspective article, which was authored by an international team of contributors in the journal Frontiers in Endocrinology, reviews theoretical background and diagnostic utility of SPINA-GT, SPINA-GD and other calculated parameters of thyroid homeostasis. In addition to summarizing the results of clinical studies covering more than 10,000 subjects it reports results of computer simulations with SimThyr. The authors of this in silico study post-processed the output of sensitivity analysis with SimThyr with custom R scripts to deliver a semi-deterministic Monte Carlo simulation. The results confirm earlier observations that SPINA has higher reliability than native concentrations of TSH and peripheral thyroid hormones. The open access article is available for free from PubMed and from http://dx.doi.org/10.3389/fendo.2016.00057 . Reference: Calculated Parameters of Thyroid Homeostasis: Emerging Tools for Differential Diagnosis and Clinical Research. Dietrich JW, Landgrafe-Mende G, Wiora E, Chatzitomaris A, Klein HH, Midgley JE, Hoermann R. Front Endocrinol (Lausanne). 2016 Jun 9;7:57. doi: 10.3389/fendo.2016.00057. PMID 27375554; PMCID PMC4899439. -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- Dr. med. Johannes W. Dietrich -- Oberarzt / Consultant Endocrinologist -- Laboratory XU44, Endocrine Research -- Medical Hospital I, Bergmannsheil University Hospitals -- Ruhr University of Bochum -- Buerkle-de-la-Camp-Platz 1, D-44789 Bochum, NRW, Germany -- Phone: +49:234:302-6400, Fax: +49:234:302-6403 -- eMail: "j.w...@me..." -- http://www.thyreologie.com.de -- GND 123571073 | VIAF 69838628 | Researcher ID C-3498-2009 -- ISNI: 0000 0000 1275 0811 | ORCID ID: 0000-0002-1185-3549 -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- |
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From: Johannes W. D. <joh...@ru...> - 2016-04-11 18:54:48
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Good news, SimThyr has been curated by SciCrunch. SciCrunch, a "cooperative and collaborative data and resource discovery platform for scientific communities", is a key tool of the Resource Identification Initiative. From now on, authors can easily cite SimThyr by adding its RRID to their papers. See http://scicrunch.org/browse/resources/SCR_014351 and https://www.force11.org/group/resource-identification-initiative for more details. From now on, you may cite SimThyr properly as (SimThyr, RRID:SCR_014351). J. W. Dietrich -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- Dr. med. Johannes W. Dietrich -- Oberarzt / Consultant Endocrinologist -- Laboratory XU44, Endocrine Research -- Medical Hospital I, Bergmannsheil University Hospitals -- Ruhr University of Bochum -- Buerkle-de-la-Camp-Platz 1, D-44789 Bochum, NRW, Germany -- Phone: +49:234:302-6400, Fax: +49:234:302-6403 -- eMail: "j.w...@me..." -- http://www.thyreologie.com.de -- GND 123571073 | VIAF 69838628 | Researcher ID C-3498-2009 -- ISNI: 0000 0000 1275 0811 | ORCID ID: 0000-0002-1185-3549 -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- |
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From: Johannes W. D. <joh...@ru...> - 2015-04-02 09:11:40
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Two recent research papers suggest that an additional mechanism might control T3 secretion in humans. Integration of in silico-analyses with SimThyr and observation of data of more than 1000 patients with and without substitution therapy with levothyroxine (L-T4) gave new hints that in humans TSH might stimulate deiodinase activity in vivo. It is known for long time that cAMP up-regulates both type 1 and type 2 deiodinase, and it could also be shown that TSH (which uses cAMP as second messenger) is able to stimulate deiodination, but these observations resulted from animal experiments and cell culture investigations only. It was unknown if they are of any relevance in humans and on the level of the whole organism. Combining SimThyr's sensitivity analysis with calculating SPINA-GD in a large cohort showed that deiodinase activity correlates with TSH concentrations, but only in patients with residual functional thyroid tissue. Theoretical considerations would suggest that T3 levels depend on thyroid's secretory capacity (GT) or, in substituted hypothyroidism, on daily supply with levothyroxine. Unlike computer simulations, in vivo data showed that FT3 levels remained constant over a broad range of GT or levothyroxine supply, respectively. A positive relation between L-T4 supply and FT3 levels, similar to that predicted by simulations, was seen, however, in patients with thyroid carcinoma who had received thyroidectomy and remnant ablation with high-dose radioiodine. These results suggest the existence of a functional TSH-T3 shunt that is mainly mediated via the thyroid. This mechanism might compensate for decreasing thyroid output in beginning hypothyroidism and therefore alleviate symptoms of hypothyroidism in affected patients. Combination of computer simulations with in vivo-data helped to unveil this additional feedforward motif of thyroid homeostasis. References 1: Hoermann R, Midgley JE, Giacobino A, Eckl WA, Wahl HG, Dietrich JW, Larisch R. Homeostatic equilibria between free thyroid hormones and pituitary thyrotropin are modulated by various influences including age, body mass index and treatment. Clin Endocrinol (Oxf). 2014 Dec; 81(6):907-15. doi: 10.1111/cen.12527. PMID 24953754. 2: Hoermann R, Midgley JE, Larisch R, Dietrich JW. Integration of Peripheral and Glandular Regulation of Triiodothyronine Production by Thyrotropin in Untreated and Thyroxine-Treated Subjects. Horm Metab Res. 2015 Mar 6. [Epub ahead of print] PMID 25750078. -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- Dr. med. Johannes W. Dietrich -- Oberarzt / Consultant Endocrinologist -- Laboratory XU44, Endocrine Research -- Medical Hospital I, Bergmannsheil University Hospitals -- Ruhr University of Bochum -- Buerkle-de-la-Camp-Platz 1, D-44789 Bochum, NRW, Germany -- Phone: +49:234:302-6400, Fax: +49:234:302-6403 -- eMail: "j.w...@me..." -- WWW: http://www.thyreologie.com.de -- WWW: http://www.uk.rub.de -- Researcher ID: C-3498-2009 -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- |
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From: Johannes W. D. <joh...@ru...> - 2014-05-26 22:19:36
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With immediate effect this new mailing list covering applications of SimThyr for science and research is available. This list is intended for announcements and discussions of every scientific aspect of SimThyr and its usage. For a starting point see the current references list ( http://sourceforge.net/p/simthyr/home/References/ ) covering (and linking) papers dealing with SimThyr or the mathematical model it is based on. J. W. D. -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- Dr. Johannes W. Dietrich, M.D. -- Oberarzt / Consultant Endocrinologist -- Laboratory XU44, Endocrine Research -- Medical Hospital I, Bergmannsheil University Hospitals -- Ruhr University of Bochum -- Buerkle-de-la-Camp-Platz 1, D-44789 Bochum, NRW, Germany -- Phone: +49:234:302-6400, Fax: +49:234:302-6403 -- eMail: "j.w...@me..." -- WWW: http://www.thyreologie.com.de -- WWW: http://www.uk.rub.de -- Researcher ID: C-3498-2009 -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- |