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About 10,000 papers for “Colocalization”
Devinachetty, Moore, Anni, Senkevich, Konstantin et al. · Zenodo (CERN European Organization for Nuclear Research) · 2022
Code associated with Project 3: Colocalization pipeline from the 2021 GP2/IPDGC Hackathon and manuscript "The IPDGC/GP2 Hackathon - an open science event for training in data science, genomics, and collaboration using Parkinson's disease data".
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Devinachetty, Moore, Anni, Senkevich, Konstantin et al. · Zenodo (CERN European Organization for Nuclear Research) · 2022
Code associated with Project 3: Colocalization pipeline from the 2021 GP2/IPDGC Hackathon and manuscript "The IPDGC/GP2 Hackathon - an open science event for training in data science, genomics, and collaboration using Parkinson's disease data".
Cited by 0Open access
Francesco Mariani (288154), Paola Sena (288155), Monica Pedroni (288156) et al. · Figshare · 2015
<p>Quantitative analysis of co-expression levels by Manders coefficient in normal mucosa (NM), microadenomas (MA), and colorectal cancer (CRC), analyzing the ratio between ThPOK/CD4 (panel A), ThPOK/CD8 (panel B), and ThPOK/CD56 (panelC). *P<0,05 vs NM; ‡ P<0,05 vs CRC. Panel D: Normalized co-expression levels in normal mucosa (NM), microadenomas (MA), and colorectal cancer (CRC), between ThPOK and CD4 (white bars), ThPOK and CD8 (black bars), and ThPOK and CD56 (gray bars). *P<0,05 vs CD4; ‡ P<0,05 vs CD56.</p>
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Panagiotis Tsakanikas (813395), Dimitris Pavlidis (813396), George-John Nychas (469148) · Figshare · 2015
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Cheryl A. Conover, Sean C. Harrington, Laurie K. Bale et al. · 2006
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James Yarmolinsky (739630), Virginia Díez-Obrero (12041805), Tom G. Richardson (7779047) et al. · Figshare · 2022
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Haikun Hu · Figshare · 2026
In renal biopsy samples from patients with membranous nephropathy, the extracellular domain of PLA2R1 is more closely aligned with glomerular basement membrane components compared to its intracellular domain, suggesting that it deposits onto the GBM after cleavage and shedding.
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Marie C. Sadler (9649799), Jean-Pierre Ghobril (22755953), Oleg Borisov (2313172) et al. · Figshare · 2025
<div> Zinc is essential for many physiological processes and its deficiency is highly prevalent worldwide. Its complex homeostasis involves membrane transporters from the SLC39/ZIP and SLC30/ZnT protein families. We conducted a genome-wide association study (GWAS) meta-analysis of urinary zinc levels in three European-ancestry cohorts (N = 10,113), followed by <i>in silico</i> and <i>in vivo</i> studies to elucidate their underlying public health and physiological relevance. We identified eleven genome-wide significant signals with six mapping to SLC39/ZIP and SLC30/ZnT gene regions. The lead signal (rs3008217C>G, p = 2.42E-110) in the <i>SLC30A2</i> gene region which explained 6.1% of urinary zinc variation strongly colocalized with its expression in kidney tubules. Low phenotypic and genetic correlations between plasma and urinary zinc levels indicated distinct genetic regulation. High urinary zinc correlated with an unfavorable cardiometabolic profile, and Mendelian randomization analyses suggested causal roles for diabetes increasing urinary zinc levels, and elevated urinary zinc increasing stroke risk. Analyzing country-level allele frequencies and zinc deficiency prevalences revealed a 3-fold higher genetic zinc excretion risk in sub-Saharan Africa compared to Europe, significantly correlating with nutritional zinc deficiency prevalence. Although mutations in <i>SLC30A2</i> are linked to insufficient zinc in human milk, we found no association with common variants using data generated from 387 mothers. Mice experiments showed that dietary zinc deficiency decreased urinary but not plasma zinc levels, and upregulated kidney <i>Slc30a2</i> expression. This first GWAS on urinary zinc highlights the involvement of zinc transporters in its genetic regulation, as well as its role as a non-invasive biomarker for cardiometabolic diseases. </div>
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Haikun Hu · Figshare · 2026
In renal biopsy samples from patients with membranous nephropathy, the extracellular domain of PLA2R1 is more closely aligned with glomerular basement membrane components compared to its intracellular domain, suggesting that it deposits onto the GBM after cleavage and shedding.
Cited by 0Open access
Jorge Ignacio Villalta (223015), Soledad Galli (38158), María Florencia Iacaruso (223018) et al. · Figshare · 2015
<p>S1<i>i</i> represents signal intensity of pixels in the channel 1 and S2<i>i</i> represents signal intensity of pixels in the channel 2; S1<i>mean</i> and S2<i>mean</i> reflect the average intensities of these respective channels. S1<i>i</i>,<i>coloc</i> and S2<i>i</i>,<i>coloc</i> are those pixels that also display non-random fluorescence in the other channel.</p>
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Panagiotis Tsakanikas (813395), Dimitris Pavlidis (813396), George-John Nychas (469148) · Figshare · 2015
<p>(a) mean colocalized areas for the three datasets on the basis of VM’s detected informative area; error bars represent the standard error of the colocalization, (b) “Anti-colocalization” percentages means and standard error (anti-colocalization stands for areas that have not been detected by the other method).</p>
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Teerawan Rattanapak (526709), James C. Birchall (362337), Katherine Young (526710) et al. · Figshare · 2015
<p>Two-photon microscopy (2 PM) visualization of collagen (blue), DDC (green) and vaccine (red) in the dermis of untreated mice (A) or 40 min following application of an aqueous TMR-SIINFEKL mixture (B, E), rhodamine-labelled cubosomes (C, F), or TMR-SIINFEKL-loaded cubosomes (D, G) to intact (B-D) or MN pretreated (E-G) skin. Cross sections (XZ, far left) and 3-D images (XYZ) are shown as well as merged images and scatter 2D plots of voxel intensities (far right panel) in the red and green channels for selected DC. Scale bar is 100 µm.</p>
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Holland, Alexandra · Figshare · 2025
AT-3b-MOC: STEPS Analysis pipeline and STEPS Running the code, as well as templates for analysis of Matlab outputs.
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Teerawan Rattanapak, C. Birchall James, Young Katherine et al. · Figshare · 2015
<p>Pearson’s correlation coefficient calculated from skin treated with: an aqueous peptide mixture (•), rhodamine-labeled cubosomes (▴) and TMR peptide-loaded cubosomes (▪). The black and red colour represent intact and MN pretreated skin respectively. Unimmunized intact skin served as control (○). Cells were quantified from three randomised images from one mouse in three independent experiments. Data presented are the mean+SEM (n = 9).</p>
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Koichiro Ohtake · Journal of Pure and Applied Algebra · 1977
Cited by 26
Xavier Moles Lopez, Paul Barbot, Yves-rémi Van Eycke et al. · 2014
Background and objective Extracting accurate information from complex biological processes involved in diseases, such as cancers, requires the simultaneous targeting of multiple proteins and locating their respective expression in tissue samples. This information can be collected by imaging and registering adjacent sections from the same tissue sample and stained by immunohistochemistry (IHC). Registration accuracy should be on the scale of a few cells to en-able protein colocalization to be assessed. Methods We propose a simple and efficient method based on the open-source elastix framework to register virtual slides of adjacent sections from the same tissue sample. We characterize registration accuracies for different types of tissue and IHC staining. Results Our results indicate that this technique is suitable for the evaluation of the colocalization of biomarkers on the scale of a few cells. We also show that using this technique in conjunction with a sequential IHC labeling and erasing technique offers improved registration accuracies. Discussion Brightfield IHC enables to address the problem of large series of tissue samples, which are usually required in clinical research. However, this approach, which is simple at the tissue processing level, requires challenging image analysis processes, such as accurate registration, to view and extract the protein colocalization information.
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Elisabeth Eckers (303041), Marcel Deponte (265133) · Figshare · 2015
<p><i>L. tarentolae</i> promastigotes were stained with a MitoTracker dye before fixation with PFA and analysis by fluorescence microscopy. Slides were analyzed using a Zeiss Axiovert 200 M microscope and the software Axiovision. The autofluorescence was detected with the Zeiss filter set 37 (filter 37). MitoTracker staining was detected with the Zeiss filter set 20 (MT). Cells were visualized by differential interference contrast (DICIII). A XBO lamp served as a light source.</p>
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Hélène Klein (2616538), Asmahan Abu-Arish (2478742), Nguyen Thu Ngan Trinh (2616541) et al. · Figshare · 2016
<p>Colocalization of CFTR and KCa3.1 on two different cells following increase in internal Ca<sup>2+</sup>.</p> <p>(TIFF)</p>
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Holland, Alexandra · Figshare · 2025
AT-3b-MOC: STEPS Analysis pipeline and STEPS Running the code, as well as templates for analysis of Matlab outputs.
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Ian Mahar (200421), Stephanie Tan (200424), Maria Antonietta Davoli (200426) et al. · Figshare · 2015
<p>BrdU-IR cells (<b>red</b>) express ErbB3 (<b>green</b>), at 2 h (<b><a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0026610#pone.0026610.s001" target="_blank">Figs. S1</a></b> and <b><a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0026610#pone.0026610.s002" target="_blank">S2</a></b>) and 24 h (<b>above</b>), corresponding to the period in which cell proliferation is increased following NRG1 administration, as well as 7 d and 28 d after birth (<b><a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0026610#pone.0026610.s001" target="_blank">Fig. S1</a> and <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0026610#pone.0026610.s002" target="_blank">S2</a></b>). Scale bar = 20 µm.</p>
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