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Adler, Jeremy
Publikasjoner (10 av 12) Visa alla publikasjoner
Adler, J., Sintorn, I.-M., Strand, R. & Parmryd, I. (2019). Conventional analysis of movement on non-flat surfaces like the plasma membrane makes Brownian motion appear anomalous. Communications Biology, 2, Article ID 12.
Åpne denne publikasjonen i ny fane eller vindu >>Conventional analysis of movement on non-flat surfaces like the plasma membrane makes Brownian motion appear anomalous
2019 (engelsk)Inngår i: Communications Biology, ISSN 2399-3642, Vol. 2, artikkel-id 12Artikkel i tidsskrift (Fagfellevurdert) Published
HSV kategori
Forskningsprogram
Datoriserad bildbehandling
Identifikatorer
urn:nbn:se:uu:diva-380506 (URN)10.1038/s42003-018-0240-2 (DOI)000461148000001 ()30652124 (PubMedID)
Tilgjengelig fra: 2019-01-08 Laget: 2019-04-15 Sist oppdatert: 2019-05-07bibliografisk kontrollert
Adler, J. & Parmryd, I. (2019). Quantifying colocalization: the MOC is a hybrid coefficient - an uninformative mix of co-occurrence and correlation [Letter to the editor]. Journal of Cell Science, 132(1), Article ID UNSP jcs222455.
Åpne denne publikasjonen i ny fane eller vindu >>Quantifying colocalization: the MOC is a hybrid coefficient - an uninformative mix of co-occurrence and correlation
2019 (engelsk)Inngår i: Journal of Cell Science, ISSN 0021-9533, E-ISSN 1477-9137, Vol. 132, nr 1, artikkel-id UNSP jcs222455Artikkel i tidsskrift, Letter (Annet vitenskapelig) Published
sted, utgiver, år, opplag, sider
COMPANY BIOLOGISTS LTD, 2019
HSV kategori
Identifikatorer
urn:nbn:se:uu:diva-376310 (URN)10.1242/jcs.222455 (DOI)000455900700008 ()30626689 (PubMedID)
Forskningsfinansiär
Swedish Research Council, 201504764
Tilgjengelig fra: 2019-02-05 Laget: 2019-02-05 Sist oppdatert: 2019-02-05bibliografisk kontrollert
Parmryd, I., Adler, J. & Bernhem, K. (2018). Membrane Topography can Cause Apparent Clustering - Identification and Differentiation from Genuine Clustering. Paper presented at 62nd Annual Meeting of the Biophysical-Society, FEB 17-21, 2018, San Francisco, CA.. Biophysical Journal, 114(3), 165A-165A
Åpne denne publikasjonen i ny fane eller vindu >>Membrane Topography can Cause Apparent Clustering - Identification and Differentiation from Genuine Clustering
2018 (engelsk)Inngår i: Biophysical Journal, ISSN 0006-3495, E-ISSN 1542-0086, Vol. 114, nr 3, s. 165A-165AArtikkel i tidsskrift, Meeting abstract (Annet vitenskapelig) Published
HSV kategori
Identifikatorer
urn:nbn:se:uu:diva-357661 (URN)000430439600076 ()
Konferanse
62nd Annual Meeting of the Biophysical-Society, FEB 17-21, 2018, San Francisco, CA.
Tilgjengelig fra: 2018-08-23 Laget: 2018-08-23 Sist oppdatert: 2018-08-23bibliografisk kontrollert
Parmryd, I. & Adler, J. (2017). Colocalisation - the Tale of Co-Occurrence and Correlation. Paper presented at 58th Annual Meeting of the Biophysical-Society, FEB 15-19, 2014, San Francisco, CA. Biophysical Journal, 112(3), 294A-294A
Åpne denne publikasjonen i ny fane eller vindu >>Colocalisation - the Tale of Co-Occurrence and Correlation
2017 (engelsk)Inngår i: Biophysical Journal, ISSN 0006-3495, E-ISSN 1542-0086, Vol. 112, nr 3, s. 294A-294AArtikkel i tidsskrift, Meeting abstract (Annet vitenskapelig) Published
sted, utgiver, år, opplag, sider
CELL PRESS, 2017
HSV kategori
Identifikatorer
urn:nbn:se:uu:diva-332756 (URN)000402375600456 ()
Konferanse
58th Annual Meeting of the Biophysical-Society, FEB 15-19, 2014, San Francisco, CA
Tilgjengelig fra: 2017-11-06 Laget: 2017-11-06 Sist oppdatert: 2017-11-06bibliografisk kontrollert
Dinic, J., Riehl, A., Adler, J. & Parmryd, I. (2015). The T cell receptor resides in ordered plasma membrane nanodomains that aggregate upon patching of the receptor. Scientific Reports, 5, Article ID 10082.
Åpne denne publikasjonen i ny fane eller vindu >>The T cell receptor resides in ordered plasma membrane nanodomains that aggregate upon patching of the receptor
2015 (engelsk)Inngår i: Scientific Reports, ISSN 2045-2322, E-ISSN 2045-2322, Vol. 5, artikkel-id 10082Artikkel i tidsskrift (Fagfellevurdert) Published
Abstract [en]

Two related models for T cell signalling initiation suggest either that T cell receptor (TCR) engagement leads to its recruitment to ordered membrane domains, often referred to as lipid rafts, where signalling molecules are enriched or that ordered TCR-containing membrane nanodomains coalesce upon TCR engagement. That ordered domains form upon TCR engagement, as they do upon lipid raft marker patching, has not been considered. The target of this study was to differentiate between those three options. Plasma membrane order was followed in live T cells at 37 °C using laurdan to report on lipid packing. Patching of the TCR that elicits a signalling response resulted in aggregation, not formation, of ordered plasma membrane domains in both Jurkat and primary T cells. The TCR colocalised with actin filaments at the plasma membrane in unstimulated Jurkat T cells, consistent with it being localised to ordered membrane domains. The colocalisation was most prominent in cells in G1 phase when the cells are ready to commit to proliferation. At other cell cycle phases the TCR was mainly found at perinuclear membranes. Our study suggests that the TCR resides in ordered plasma membrane domains that are linked to actin filaments and aggregate upon TCR engagement.

HSV kategori
Forskningsprogram
Biologi med inriktning mot molekylär cellbiologi
Identifikatorer
urn:nbn:se:uu:diva-252756 (URN)10.1038/srep10082 (DOI)000354118300001 ()25955440 (PubMedID)
Tilgjengelig fra: 2015-05-11 Laget: 2015-05-11 Sist oppdatert: 2017-12-04bibliografisk kontrollert
Parmryd, I., Riehl, A., Dinic, J. & Adler, J. (2015). The T Cell Receptor Resides in Ordered Plasma Membrane Nanodomains that Aggregate Upon T Cell Activation. Biophysical Journal, 108(2), 98A-98A
Åpne denne publikasjonen i ny fane eller vindu >>The T Cell Receptor Resides in Ordered Plasma Membrane Nanodomains that Aggregate Upon T Cell Activation
2015 (engelsk)Inngår i: Biophysical Journal, ISSN 0006-3495, E-ISSN 1542-0086, Vol. 108, nr 2, s. 98A-98AArtikkel i tidsskrift, Meeting abstract (Annet vitenskapelig) Published
HSV kategori
Identifikatorer
urn:nbn:se:uu:diva-274841 (URN)000359471700496 ()
Tilgjengelig fra: 2016-01-26 Laget: 2016-01-26 Sist oppdatert: 2017-11-30bibliografisk kontrollert
Adler, J. & Parmryd, I. (2014). Quantification of Colocalisation; Co-Occurrence, Correlation, Empty Voxels, Regions of Interest and Thresholding. Paper presented at 58th Annual Meeting of the Biophysical-Society, FEB 15-19, 2014, San Francisco, CA. Biophysical Journal, 106(2), 602A-602A
Åpne denne publikasjonen i ny fane eller vindu >>Quantification of Colocalisation; Co-Occurrence, Correlation, Empty Voxels, Regions of Interest and Thresholding
2014 (engelsk)Inngår i: Biophysical Journal, ISSN 0006-3495, E-ISSN 1542-0086, Vol. 106, nr 2, s. 602A-602AArtikkel i tidsskrift, Meeting abstract (Annet vitenskapelig) Published
Abstract [en]

Measuring colocalisation is not straightforward with a plethora of coefficients that encapsulate different definitions. Measurements may also be implemented differently. Not only do measurements differ; interconversion is impossible making comparisons challenging. There is a need to cull coefficients and for clear definitions of what precisely is meant by colocalisation in individual studies. Colocalisation can be considered to have two components; co-occurrence which reports whether the fluorophores are found together and correlation which reports on the similarity in their patterns of intensity.

HSV kategori
Identifikatorer
urn:nbn:se:uu:diva-228605 (URN)10.1016/j.bpj.2013.11.3333 (DOI)000337000403385 ()
Konferanse
58th Annual Meeting of the Biophysical-Society, FEB 15-19, 2014, San Francisco, CA
Tilgjengelig fra: 2014-07-18 Laget: 2014-07-17 Sist oppdatert: 2017-12-05bibliografisk kontrollert
Adler, J. & Parmryd, I. (2014). Quantifying colocalization: thresholding, void voxels and the H-coef. PLoS ONE, 9(11), e111983
Åpne denne publikasjonen i ny fane eller vindu >>Quantifying colocalization: thresholding, void voxels and the H-coef
2014 (engelsk)Inngår i: PLoS ONE, ISSN 1932-6203, E-ISSN 1932-6203, Vol. 9, nr 11, s. e111983-Artikkel i tidsskrift (Fagfellevurdert) Published
Abstract [en]

A critical step in the analysis of images is identifying the area of interest e.g. nuclei. When the nuclei are brighter than the remainder of the image an intensity can be chosen to identify the nuclei. Intensity thresholding is complicated by variations in the intensity of individual nuclei and their intensity relative to their surroundings. To compensate thresholds can be based on local rather than global intensities. By testing local thresholding methods we found that the local mean performed poorly while the Phansalkar method and a new method based on identifying the local background were superior. A new colocalization coefficient, the Hcoef, highlights a number of controversial issues. (i) Are molecular interactions measurable (ii) whether to include voxels without fluorophores in calculations, and (iii) the meaning of negative correlations. Negative correlations can arise biologically (a) because the two fluorophores are in different places or (b) when high intensities of one fluorophore coincide with low intensities of a second. The cases are distinct and we argue that it is only relevant to measure correlation using pixels that contain both fluorophores and, when the fluorophores are in different places, to just report the lack of co-occurrence and omit these uninformative negative correlation. The Hcoef could report molecular interactions in a homogenous medium. But biology is not homogenous and distributions also reflect physico-chemical properties, targeted delivery and retention. The Hcoef actually measures a mix of correlation and co-occurrence, which makes its interpretation problematic and in the absence of a convincing demonstration we advise caution, favouring separate measurements of correlation and of co-occurrence.

HSV kategori
Forskningsprogram
Biologi med inriktning mot molekylär cellbiologi
Identifikatorer
urn:nbn:se:uu:diva-235777 (URN)10.1371/journal.pone.0111983 (DOI)000344402600086 ()25375829 (PubMedID)
Forskningsfinansiär
Magnus Bergvall Foundation
Tilgjengelig fra: 2014-11-10 Laget: 2014-11-10 Sist oppdatert: 2017-12-05bibliografisk kontrollert
Parmryd, I., Adler, J., Sintorn, I.-M. & Strand, R. (2013). Movement on Uneven Surfaces Displays Characteristic Features of Hop Diffusion. Paper presented at 57th Annual Meeting of the Biophysical-Society, FEB 02-06, 2013, Philadelphia, PA. Biophysical Journal, 104(2), 524A-524A
Åpne denne publikasjonen i ny fane eller vindu >>Movement on Uneven Surfaces Displays Characteristic Features of Hop Diffusion
2013 (engelsk)Inngår i: Biophysical Journal, ISSN 0006-3495, E-ISSN 1542-0086, Vol. 104, nr 2, s. 524A-524AArtikkel i tidsskrift, Meeting abstract (Annet vitenskapelig) Published
HSV kategori
Identifikatorer
urn:nbn:se:uu:diva-199053 (URN)10.1016/j.bpj.2012.11.2901 (DOI)000316074305176 ()
Konferanse
57th Annual Meeting of the Biophysical-Society, FEB 02-06, 2013, Philadelphia, PA
Tilgjengelig fra: 2013-05-02 Laget: 2013-05-02 Sist oppdatert: 2017-12-06bibliografisk kontrollert
Hayashi, M., Majumdar, A., Li, X., Adler, J., Sun, Z., Vertuani, S., . . . Claesson-Welsh, L. (2013). VE-PTP regulates VEGFR2 activity in stalk cells to establish endothelial cell polarity and lumen formation. Nature Communications, 4, 1672
Åpne denne publikasjonen i ny fane eller vindu >>VE-PTP regulates VEGFR2 activity in stalk cells to establish endothelial cell polarity and lumen formation
Vise andre…
2013 (engelsk)Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 4, s. 1672-Artikkel i tidsskrift (Fagfellevurdert) Published
Abstract [en]

Vascular endothelial growth factor (VEGF) guides the path of new vessel sprouts by inducing VEGF receptor-2 activity in the sprout tip. In the stalk cells of the sprout, VEGF receptor-2 activity is downregulated. Here, we show that VEGF receptor-2 in stalk cells is dephosphorylated by the endothelium-specific vascular endothelial-phosphotyrosine phosphatase (VE-PTP). VE-PTP acts on VEGF receptor-2 located in endothelial junctions indirectly, via the Angiopoietin-1 receptor Tie2. VE-PTP inactivation in mouse embryoid bodies leads to excess VEGF receptor-2 activity in stalk cells, increased tyrosine phosphorylation of VE-cadherin and loss of cell polarity and lumen formation. Vessels in ve-ptp(-/-) teratomas also show increased VEGF receptor-2 activity and loss of endothelial polarization. Moreover, the zebrafish VE-PTP orthologue ptp-rb is essential for polarization and lumen formation in intersomitic vessels. We conclude that the role of Tie2 in maintenance of vascular quiescence involves VE-PTP-dependent dephosphorylation of VEGF receptor-2, and that VEGF receptor-2 activity regulates VE-cadherin tyrosine phosphorylation, endothelial cell polarity and lumen formation.

HSV kategori
Identifikatorer
urn:nbn:se:uu:diva-202980 (URN)10.1038/ncomms2683 (DOI)000318872100029 ()
Tilgjengelig fra: 2013-07-01 Laget: 2013-07-01 Sist oppdatert: 2017-12-06bibliografisk kontrollert
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