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Spatial sexual dimorphism of X and Y homolog gene expression in the human central nervous system during early male development.

Biology of sex differences

Johansson MM, Lundin E, Qian X, Mirzazadeh M, Halvardson J, Darj E, Feuk L, Nilsson M, Jazin E.
PMID: 26759715
Biol Sex Differ. 2016 Jan 12;7:5. doi: 10.1186/s13293-015-0056-4. eCollection 2016.

BACKGROUND: Renewed attention has been directed to the functions of the Y chromosome in the central nervous system during early human male development, due to the recent proposed involvement in neurodevelopmental diseases. PCDH11Y and NLGN4Y are of special interest...

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Johansson MM, Lundin E, Qian X, et al. Spatial sexual dimorphism of X and Y homolog gene expression in the human central nervous system during early male development. Biol Sex Differ. 2016;7:5doi: 10.1186/s13293-015-0056-4.
Johansson, M. M., Lundin, E., Qian, X., Mirzazadeh, M., Halvardson, J., Darj, E., Feuk, L., Nilsson, M., & Jazin, E. (2016). Spatial sexual dimorphism of X and Y homolog gene expression in the human central nervous system during early male development. Biology of sex differences, 75. https://doi.org/10.1186/s13293-015-0056-4
Johansson, Martin M, et al. "Spatial sexual dimorphism of X and Y homolog gene expression in the human central nervous system during early male development." Biology of sex differences vol. 7 (2016): 5. doi: https://doi.org/10.1186/s13293-015-0056-4
Johansson MM, Lundin E, Qian X, Mirzazadeh M, Halvardson J, Darj E, Feuk L, Nilsson M, Jazin E. Spatial sexual dimorphism of X and Y homolog gene expression in the human central nervous system during early male development. Biol Sex Differ. 2016 Jan 12;7:5. doi: 10.1186/s13293-015-0056-4. eCollection 2016. PMID: 26759715; PMCID: PMC4710049.
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Erratum to: The Chemistry Development Kit (CDK) v2.0: atom typing, depiction, molecular formulas, and substructure searching.

Journal of cheminformatics

Willighagen EL, Mayfield JW, Alvarsson J, Berg A, Carlsson L, Jeliazkova N, Kuhn S, Pluskal T, Rojas-Chertó M, Spjuth O, Torrance G, Evelo CT, Guha R, Steinbeck C.
PMID: 29086079
J Cheminform. 2017 Sep 20;9(1):53. doi: 10.1186/s13321-017-0231-1.

No abstract available.

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Willighagen EL, Mayfield JW, Alvarsson J, et al. Erratum to: The Chemistry Development Kit (CDK) v2.0: atom typing, depiction, molecular formulas, and substructure searching. J Cheminform. 2017;9(1):53doi: 10.1186/s13321-017-0231-1.
Willighagen, E. L., Mayfield, J. W., Alvarsson, J., Berg, A., Carlsson, L., Jeliazkova, N., Kuhn, S., Pluskal, T., Rojas-Chertó, M., Spjuth, O., Torrance, G., Evelo, C. T., Guha, R., & Steinbeck, C. (2017). Erratum to: The Chemistry Development Kit (CDK) v2.0: atom typing, depiction, molecular formulas, and substructure searching. Journal of cheminformatics, 9(1), 53. https://doi.org/10.1186/s13321-017-0231-1
Willighagen, Egon L, et al. "Erratum to: The Chemistry Development Kit (CDK) v2.0: atom typing, depiction, molecular formulas, and substructure searching." Journal of cheminformatics vol. 9,1 (2017): 53. doi: https://doi.org/10.1186/s13321-017-0231-1
Willighagen EL, Mayfield JW, Alvarsson J, Berg A, Carlsson L, Jeliazkova N, Kuhn S, Pluskal T, Rojas-Chertó M, Spjuth O, Torrance G, Evelo CT, Guha R, Steinbeck C. Erratum to: The Chemistry Development Kit (CDK) v2.0: atom typing, depiction, molecular formulas, and substructure searching. J Cheminform. 2017 Sep 20;9(1):53. doi: 10.1186/s13321-017-0231-1. PMID: 29086079; PMCID: PMC5607058.
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Towards agile large-scale predictive modelling in drug discovery with flow-based programming design principles.

Journal of cheminformatics

Lampa S, Alvarsson J, Spjuth O.
PMID: 27942268
J Cheminform. 2016 Nov 24;8:67. doi: 10.1186/s13321-016-0179-6. eCollection 2016.

Predictive modelling in drug discovery is challenging to automate as it often contains multiple analysis steps and might involve cross-validation and parameter tuning that create complex dependencies between tasks. With large-scale data or when using computationally demanding modelling methods,...

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Lampa S, Alvarsson J, Spjuth O. Towards agile large-scale predictive modelling in drug discovery with flow-based programming design principles. J Cheminform. 2016;8:67doi: 10.1186/s13321-016-0179-6.
Lampa, S., Alvarsson, J., & Spjuth, O. (2016). Towards agile large-scale predictive modelling in drug discovery with flow-based programming design principles. Journal of cheminformatics, 867. https://doi.org/10.1186/s13321-016-0179-6
Lampa, Samuel, et al. "Towards agile large-scale predictive modelling in drug discovery with flow-based programming design principles." Journal of cheminformatics vol. 8 (2016): 67. doi: https://doi.org/10.1186/s13321-016-0179-6
Lampa S, Alvarsson J, Spjuth O. Towards agile large-scale predictive modelling in drug discovery with flow-based programming design principles. J Cheminform. 2016 Nov 24;8:67. doi: 10.1186/s13321-016-0179-6. eCollection 2016. PMID: 27942268; PMCID: PMC5123367.
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Physical Fitness in Adolescence and Subsequent Inflammatory Bowel Disease Risk.

Clinical and translational gastroenterology

Melinder C, Hiyoshi A, Hussein O, Halfvarson J, Ekbom A, Montgomery S.
PMID: 26540026
Clin Transl Gastroenterol. 2015 Nov 05;6:e121. doi: 10.1038/ctg.2015.49.

OBJECTIVES: Physical fitness may reduce systemic inflammation levels relevant to the risk of symptomatic Crohn's disease (CD) and ulcerative colitis (UC); we assessed if fitness in adolescence is associated with subsequent inflammatory bowel disease (IBD) risk, independent of markers...

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Melinder C, Hiyoshi A, Hussein O, et al. Physical Fitness in Adolescence and Subsequent Inflammatory Bowel Disease Risk. Clin Transl Gastroenterol. 2015;6:e121doi: 10.1038/ctg.2015.49.
Melinder, C., Hiyoshi, A., Hussein, O., Halfvarson, J., Ekbom, A., & Montgomery, S. (2015). Physical Fitness in Adolescence and Subsequent Inflammatory Bowel Disease Risk. Clinical and translational gastroenterology, 6e121. https://doi.org/10.1038/ctg.2015.49
Melinder, Carren, et al. "Physical Fitness in Adolescence and Subsequent Inflammatory Bowel Disease Risk." Clinical and translational gastroenterology vol. 6 (2015): e121. doi: https://doi.org/10.1038/ctg.2015.49
Melinder C, Hiyoshi A, Hussein O, Halfvarson J, Ekbom A, Montgomery S. Physical Fitness in Adolescence and Subsequent Inflammatory Bowel Disease Risk. Clin Transl Gastroenterol. 2015 Nov 05;6:e121. doi: 10.1038/ctg.2015.49. PMID: 26540026; PMCID: PMC4816088.
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Environmental factors influence both abundance and genetic diversity in a widespread bird species.

Ecology and evolution

Liu Y, Webber S, Bowgen K, Schmaltz L, Bradley K, Halvarsson P, Abdelgadir M, Griesser M.
PMID: 24363897
Ecol Evol. 2013 Nov;3(14):4683-95. doi: 10.1002/ece3.856. Epub 2013 Oct 28.

Genetic diversity is one of the key evolutionary variables that correlate with population size, being of critical importance for population viability and the persistence of species. Genetic diversity can also have important ecological consequences within populations, and in turn,...

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Liu Y, Webber S, Bowgen K, et al. Environmental factors influence both abundance and genetic diversity in a widespread bird species. Ecol Evol. 2013;3(14):4683-95doi: 10.1002/ece3.856.
Liu, Y., Webber, S., Bowgen, K., Schmaltz, L., Bradley, K., Halvarsson, P., Abdelgadir, M., & Griesser, M. (2013). Environmental factors influence both abundance and genetic diversity in a widespread bird species. Ecology and evolution, 3(14), 4683-95. https://doi.org/10.1002/ece3.856
Liu, Yang, et al. "Environmental factors influence both abundance and genetic diversity in a widespread bird species." Ecology and evolution vol. 3,14 (2013): 4683-95. doi: https://doi.org/10.1002/ece3.856
Liu Y, Webber S, Bowgen K, Schmaltz L, Bradley K, Halvarsson P, Abdelgadir M, Griesser M. Environmental factors influence both abundance and genetic diversity in a widespread bird species. Ecol Evol. 2013 Nov;3(14):4683-95. doi: 10.1002/ece3.856. Epub 2013 Oct 28. PMID: 24363897; PMCID: PMC3867904.
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Hearing performance benefits of a programmable power baha® sound processor with a directional microphone for patients with a mixed hearing loss.

Clinical and experimental otorhinolaryngology

Flynn MC, Hedin A, Halvarsson G, Good T, Sadeghi A.
PMID: 22701154
Clin Exp Otorhinolaryngol. 2012 Apr;5:S76-81. doi: 10.3342/ceo.2012.5.S1.S76. Epub 2012 Apr 30.

OBJECTIVES: New signal processing technologies have recently become available for Baha® sound processors. These technologies have led to an increase in power and to the implementation of directional microphones. For any new technology, it is important to evaluate the...

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Flynn MC, Hedin A, Halvarsson G, et al. Hearing performance benefits of a programmable power baha® sound processor with a directional microphone for patients with a mixed hearing loss. Clin Exp Otorhinolaryngol. 2012;5:S76-81doi: 10.3342/ceo.2012.5.S1.S76.
Flynn, M. C., Hedin, A., Halvarsson, G., Good, T., & Sadeghi, A. (2012). Hearing performance benefits of a programmable power baha® sound processor with a directional microphone for patients with a mixed hearing loss. Clinical and experimental otorhinolaryngology, 5S76-81. https://doi.org/10.3342/ceo.2012.5.S1.S76
Flynn, Mark C, et al. "Hearing performance benefits of a programmable power baha® sound processor with a directional microphone for patients with a mixed hearing loss." Clinical and experimental otorhinolaryngology vol. 5 (2012): S76-81. doi: https://doi.org/10.3342/ceo.2012.5.S1.S76
Flynn MC, Hedin A, Halvarsson G, Good T, Sadeghi A. Hearing performance benefits of a programmable power baha® sound processor with a directional microphone for patients with a mixed hearing loss. Clin Exp Otorhinolaryngol. 2012 Apr;5:S76-81. doi: 10.3342/ceo.2012.5.S1.S76. Epub 2012 Apr 30. PMID: 22701154; PMCID: PMC3369989.
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Preventing lower extremity injury in elite orienteerers: study protocol for a randomised controlled trial.

BMJ open sport & exercise medicine

von Rosen P, Halvarsson B.
PMID: 29707231
BMJ Open Sport Exerc Med. 2018 Apr 20;4(1):e000347. doi: 10.1136/bmjsem-2018-000347. eCollection 2018.

BACKGROUND: The high physical load associated with running through uneven terrain contributes toorienteerers being exposed to high injury risk, where the majority of injuries are located in the lower extremities. Specific training programmes have been effective at reducing injury...

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von Rosen P, Halvarsson B. Preventing lower extremity injury in elite orienteerers: study protocol for a randomised controlled trial. BMJ Open Sport Exerc Med. 2018;4(1):e000347doi: 10.1136/bmjsem-2018-000347.
von Rosen, P., & Halvarsson, B. (2018). Preventing lower extremity injury in elite orienteerers: study protocol for a randomised controlled trial. BMJ open sport & exercise medicine, 4(1), e000347. https://doi.org/10.1136/bmjsem-2018-000347
von Rosen, Philip, and Halvarsson, Bodil. "Preventing lower extremity injury in elite orienteerers: study protocol for a randomised controlled trial." BMJ open sport & exercise medicine vol. 4,1 (2018): e000347. doi: https://doi.org/10.1136/bmjsem-2018-000347
von Rosen P, Halvarsson B. Preventing lower extremity injury in elite orienteerers: study protocol for a randomised controlled trial. BMJ Open Sport Exerc Med. 2018 Apr 20;4(1):e000347. doi: 10.1136/bmjsem-2018-000347. eCollection 2018. PMID: 29707231; PMCID: PMC5914718.
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A confidence predictor for logD using conformal regression and a support-vector machine.

Journal of cheminformatics

Lapins M, Arvidsson S, Lampa S, Berg A, Schaal W, Alvarsson J, Spjuth O.
PMID: 29616425
J Cheminform. 2018 Apr 03;10(1):17. doi: 10.1186/s13321-018-0271-1.

Lipophilicity is a major determinant of ADMET properties and overall suitability of drug candidates. We have developed large-scale models to predict water-octanol distribution coefficient (logD) for chemical compounds, aiding drug discovery projects. Using ACD/logD data for 1.6 million compounds...

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Lapins M, Arvidsson S, Lampa S, et al. A confidence predictor for logD using conformal regression and a support-vector machine. J Cheminform. 2018;10(1):17doi: 10.1186/s13321-018-0271-1.
Lapins, M., Arvidsson, S., Lampa, S., Berg, A., Schaal, W., Alvarsson, J., & Spjuth, O. (2018). A confidence predictor for logD using conformal regression and a support-vector machine. Journal of cheminformatics, 10(1), 17. https://doi.org/10.1186/s13321-018-0271-1
Lapins, Maris, et al. "A confidence predictor for logD using conformal regression and a support-vector machine." Journal of cheminformatics vol. 10,1 (2018): 17. doi: https://doi.org/10.1186/s13321-018-0271-1
Lapins M, Arvidsson S, Lampa S, Berg A, Schaal W, Alvarsson J, Spjuth O. A confidence predictor for logD using conformal regression and a support-vector machine. J Cheminform. 2018 Apr 03;10(1):17. doi: 10.1186/s13321-018-0271-1. PMID: 29616425; PMCID: PMC5882484.
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Fecal microbiota profiles in treatment-naïve pediatric inflammatory bowel disease - associations with disease phenotype, treatment, and outcome.

Clinical and experimental gastroenterology

Olbjørn C, Cvancarova Småstuen M, Thiis-Evensen E, Nakstad B, Vatn MH, Jahnsen J, Ricanek P, Vatn S, Moen AEF, Tannæs TM, Lindstrøm JC, Söderholm JD, Halfvarson J, Gomollón F, Casén C, Karlsson MK, Kalla R, Adams AT, Satsangi J, Perminow G.
PMID: 30774408
Clin Exp Gastroenterol. 2019 Jan 31;12:37-49. doi: 10.2147/CEG.S186235. eCollection 2019.

PURPOSE: Imbalance in the microbiota, dysbiosis, has been identified in inflammatory bowel disease (IBD). We explored the fecal microbiota in pediatric patients with treatment-naïve IBD, non-IBD patients with gastrointestinal symptoms and healthy children, its relation to IBD subgroups, and...

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Olbjørn C, Cvancarova Småstuen M, Thiis-Evensen E, et al. Fecal microbiota profiles in treatment-naïve pediatric inflammatory bowel disease - associations with disease phenotype, treatment, and outcome. Clin Exp Gastroenterol. 2019;12:37-49doi: 10.2147/CEG.S186235.
Olbjørn, C., Cvancarova Småstuen, M., Thiis-Evensen, E., Nakstad, B., Vatn, M. H., Jahnsen, J., Ricanek, P., Vatn, S., Moen, A. E. F., Tannæs, T. M., Lindstrøm, J. C., Söderholm, J. D., Halfvarson, J., Gomollón, F., Casén, C., Karlsson, M. K., Kalla, R., Adams, A. T., Satsangi, J., & Perminow, G. (2019). Fecal microbiota profiles in treatment-naïve pediatric inflammatory bowel disease - associations with disease phenotype, treatment, and outcome. Clinical and experimental gastroenterology, 1237-49. https://doi.org/10.2147/CEG.S186235
Olbjørn, Christine, et al. "Fecal microbiota profiles in treatment-naïve pediatric inflammatory bowel disease - associations with disease phenotype, treatment, and outcome." Clinical and experimental gastroenterology vol. 12 (2019): 37-49. doi: https://doi.org/10.2147/CEG.S186235
Olbjørn C, Cvancarova Småstuen M, Thiis-Evensen E, Nakstad B, Vatn MH, Jahnsen J, Ricanek P, Vatn S, Moen AEF, Tannæs TM, Lindstrøm JC, Söderholm JD, Halfvarson J, Gomollón F, Casén C, Karlsson MK, Kalla R, Adams AT, Satsangi J, Perminow G. Fecal microbiota profiles in treatment-naïve pediatric inflammatory bowel disease - associations with disease phenotype, treatment, and outcome. Clin Exp Gastroenterol. 2019 Jan 31;12:37-49. doi: 10.2147/CEG.S186235. eCollection 2019. PMID: 30774408; PMCID: PMC6362922.
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Depletion of erythropoietic miR-486-5p and miR-451a improves detectability of rare microRNAs in peripheral blood-derived small RNA sequencing libraries.

NAR genomics and bioinformatics

Juzenas S, Lindqvist CM, Ito G, Dolshanskaya Y, Halfvarson J, Franke A, Hemmrich-Stanisak G.
PMID: 33575555
NAR Genom Bioinform. 2020 Feb 12;2(1):lqaa008. doi: 10.1093/nargab/lqaa008. eCollection 2020 Mar.

Erythroid-specific miR-451a and miR-486-5p are two of the most dominant microRNAs (miRNAs) in human peripheral blood. In small RNA sequencing libraries, their overabundance reduces diversity as well as complexity and consequently causes negative effects such as missing detectability and...

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Juzenas S, Lindqvist CM, Ito G, et al. Depletion of erythropoietic miR-486-5p and miR-451a improves detectability of rare microRNAs in peripheral blood-derived small RNA sequencing libraries. NAR Genom Bioinform. 2020;2(1):lqaa008doi: 10.1093/nargab/lqaa008.
Juzenas, S., Lindqvist, C. M., Ito, G., Dolshanskaya, Y., Halfvarson, J., Franke, A., & Hemmrich-Stanisak, G. (2020). Depletion of erythropoietic miR-486-5p and miR-451a improves detectability of rare microRNAs in peripheral blood-derived small RNA sequencing libraries. NAR genomics and bioinformatics, 2(1), lqaa008. https://doi.org/10.1093/nargab/lqaa008
Juzenas, Simonas, et al. "Depletion of erythropoietic miR-486-5p and miR-451a improves detectability of rare microRNAs in peripheral blood-derived small RNA sequencing libraries." NAR genomics and bioinformatics vol. 2,1 (2020): lqaa008. doi: https://doi.org/10.1093/nargab/lqaa008
Juzenas S, Lindqvist CM, Ito G, Dolshanskaya Y, Halfvarson J, Franke A, Hemmrich-Stanisak G. Depletion of erythropoietic miR-486-5p and miR-451a improves detectability of rare microRNAs in peripheral blood-derived small RNA sequencing libraries. NAR Genom Bioinform. 2020 Feb 12;2(1):lqaa008. doi: 10.1093/nargab/lqaa008. eCollection 2020 Mar. PMID: 33575555; PMCID: PMC7671325.
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Clinical supervisors' experience of giving feedback to students during clinical integrated learning.

Physiotherapy theory and practice

Sellberg M, Skavberg Roaldsen K, Nygren-Bonnier M, Halvarsson A.
PMID: 32149555
Physiother Theory Pract. 2022 Jan;38(1):122-131. doi: 10.1080/09593985.2020.1737996. Epub 2020 Mar 09.

No abstract available.

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Sellberg M, Skavberg Roaldsen K, Nygren-Bonnier M, et al. Clinical supervisors' experience of giving feedback to students during clinical integrated learning. Physiother Theory Pract. 2020;38(1):122-131doi: 10.1080/09593985.2020.1737996.
Sellberg, M., Skavberg Roaldsen, K., Nygren-Bonnier, M., & Halvarsson, A. (2022). Clinical supervisors' experience of giving feedback to students during clinical integrated learning. Physiotherapy theory and practice, 38(1), 122-131. https://doi.org/10.1080/09593985.2020.1737996
Sellberg, Malin, et al. "Clinical supervisors' experience of giving feedback to students during clinical integrated learning." Physiotherapy theory and practice vol. 38,1 (2022): 122-131. doi: https://doi.org/10.1080/09593985.2020.1737996
Sellberg M, Skavberg Roaldsen K, Nygren-Bonnier M, Halvarsson A. Clinical supervisors' experience of giving feedback to students during clinical integrated learning. Physiother Theory Pract. 2022 Jan;38(1):122-131. doi: 10.1080/09593985.2020.1737996. Epub 2020 Mar 09. PMID: 32149555.
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Access to, use, knowledge, and preferences for information technology and technical equipment among people with chronic obstructive pulmonary disease (COPD) in Sweden. A cross-sectional survey study.

BMC medical informatics and decision making

Sönnerfors P, Skavberg Roaldsen K, Ståhle A, Wadell K, Halvarsson A.
PMID: 34112150
BMC Med Inform Decis Mak. 2021 Jun 10;21(1):185. doi: 10.1186/s12911-021-01544-4.

BACKGROUND: The use of information technology can make pulmonary rehabilitation interventions in people with chronic obstructive pulmonary disease (COPD) more flexible and thereby has the potential to reach a larger proportion of the population. However, the success of using...

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Sönnerfors P, Skavberg Roaldsen K, Ståhle A, et al. Access to, use, knowledge, and preferences for information technology and technical equipment among people with chronic obstructive pulmonary disease (COPD) in Sweden. A cross-sectional survey study. BMC Med Inform Decis Mak. 2021;21(1):185doi: 10.1186/s12911-021-01544-4.
Sönnerfors, P., Skavberg Roaldsen, K., Ståhle, A., Wadell, K., & Halvarsson, A. (2021). Access to, use, knowledge, and preferences for information technology and technical equipment among people with chronic obstructive pulmonary disease (COPD) in Sweden. A cross-sectional survey study. BMC medical informatics and decision making, 21(1), 185. https://doi.org/10.1186/s12911-021-01544-4
Sönnerfors, Pernilla, et al. "Access to, use, knowledge, and preferences for information technology and technical equipment among people with chronic obstructive pulmonary disease (COPD) in Sweden. A cross-sectional survey study." BMC medical informatics and decision making vol. 21,1 (2021): 185. doi: https://doi.org/10.1186/s12911-021-01544-4
Sönnerfors P, Skavberg Roaldsen K, Ståhle A, Wadell K, Halvarsson A. Access to, use, knowledge, and preferences for information technology and technical equipment among people with chronic obstructive pulmonary disease (COPD) in Sweden. A cross-sectional survey study. BMC Med Inform Decis Mak. 2021 Jun 10;21(1):185. doi: 10.1186/s12911-021-01544-4. PMID: 34112150; PMCID: PMC8191435.
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