A simple, web-based repository for the management, access and analysis of micrographic images.

Abstract:

:Microscopy is advancing at a rapid pace, enabling high-speed, high-resolution analyses to be conducted in a wide range of cellular contexts. For example, the capacity to quickly capture high-resolution images from multiple optical sections over multiple channels with confocal microscopy has allowed researchers to gain deeper understanding of tissue morphology via techniques such as three-dimensional rendering, as have more recent advances such as lattice light sheet microscopy and superresolution structured illumination microscopy. With this, though, comes the challenge of storing, curating, analysing and sharing data. While there are ways in which this has been attempted previously, few approaches have provided a central repository in which all of these different aspects of microscopy can be seamlessly integrated. Here, we describe a web-based storage and analysis platform called Microndata, that enables relatively straightforward storage, annotation, tracking, analysis and multi-user access to micrographs. This easy to use tool will simplify and harmonise laboratory work flows, and, importantly, will provide a central storage repository that is readily accessed, even after the researcher responsible for capturing the images has left the laboratory. Microndata is open-source software, available at http://www.microndata.net/.

journal_name

J Mol Histol

authors

Davila RA,Harkins D,Currey L,Fraser J,Bowles J,Piper M

doi

10.1007/s10735-019-09850-y

subject

Has Abstract

pub_date

2019-12-01 00:00:00

pages

573-580

issue

6

eissn

1567-2379

issn

1567-2387

pii

10.1007/s10735-019-09850-y

journal_volume

50

pub_type

杂志文章
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    authors: Wang N,Jiang R,Yang JY,Tang C,Yang L,Xu M,Jiang QF,Liu ZM

    更新日期:2014-08-01 00:00:00

  • Distribution of immunoreactivity for P2X3, P2X5, and P2X6-purinoceptors in mouse retina.

    abstract::Previous findings have shown that P2X-purinoceptor-mediated signaling pathways regulate the release of ACh in the retina. We previously reported the existence of immunoreactivity for P2X1-, P2X2-, P2X4-, and P2X7-purinoceptors in mouse retina and speculated that P2X2 and P2X7-purinoceptors may modulate the activity of...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-007-9107-4

    authors: Shigematsu Y,Shimoda Y,Kaneda M

    更新日期:2007-08-01 00:00:00

  • The effect of CXCL9 on the invasion ability of hepatocellular carcinoma through up-regulation of PREX2.

    abstract::Elevated expression of CXCL9 has been shown to involve in the infiltration of inflammatory cells and liver damage after Hepatitis B virus (HBV) infection. However, whether and by what underlying mechanism does CXCL9 play a role in HBV infection associated hepatocellular carcinoma (HCC) invasion ability remain unclear....

    journal_title:Journal of molecular histology

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    doi:10.1007/s10735-014-9593-0

    authors: Lan X,Xiao F,Ding Q,Liu J,Liu J,Li J,Zhang J,Tian DA

    更新日期:2014-12-01 00:00:00

  • S100A8/S100A9 and their association with cartilage and bone.

    abstract::S100A8 and S100A9 are calcium-binding proteins expressed in myeloid cells and are markers of numerous inflammatory diseases in humans. S100A9 has been associated with dystrophic calcification in human atherosclerosis. Here we demonstrate S100A8 and S100A9 expression in murine and human bone and cartilage cells. Only S...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-007-9117-2

    authors: Zreiqat H,Howlett CR,Gronthos S,Hume D,Geczy CL

    更新日期:2007-10-01 00:00:00

  • Oxidative DNA damage is a preliminary step during rat tongue carcinogenesis induced by 4-nitroquinoline 1-oxide.

    abstract::The aim of this study was to investigate oxidative DNA damage during 4-nitroquinoline 1-oxide (4NQO)-induced rat tongue carcinogenesis. For this purpose, male Wistar rats were distributed into three groups of 10 animals each and treated with 50 ppm 4NQO solution through their drinking water for 4, 12, and 20 weeks. Te...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-011-9323-9

    authors: Miranda SR,Noguti J,Carvalho JG,Oshima CT,Ribeiro DA

    更新日期:2011-04-01 00:00:00

  • KDM3A confers metastasis and chemoresistance in epithelial ovarian cancer.

    abstract::The aim of the present study was to investigate the association between KDM3A expression and the clinicopathological parameters of patients with epithelial ovarian cancer (EOC). KDM3A expression was analyzed using immunohistochemistry in EOC tissue microarray containing 90 paired cases of EOC and matched normal contro...

    journal_title:Journal of molecular histology

    pub_type: 撤回出版物,收录出版

    doi:10.1007/s10735-015-9642-3

    authors:

    更新日期:2016-04-01 00:00:00

  • Upregulation of p21-activated Kinase 6 in rat brain cortex after traumatic brain injury.

    abstract::p21-activated Kinase 6 (PAK6) is a serine/threonine kinase belonging to the p21-activated kinase (PAK) family. PAK kinases are well-known regulators of a wide variety of cellular functions, including regulation of cytoskeleton rearrangement, cell survival, apoptosis and the mitogen-activated protein kinase signaling p...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-011-9324-8

    authors: Zhao W,Yang J,Shi W,Wu X,Shao B,Wu Q,Chen J,Ni L

    更新日期:2011-06-01 00:00:00

  • Expression of tumor necrosis factor-alpha and vascular endothelial growth factor in different zones of fetal membranes: a possible relation to onset of labor.

    abstract::This study aimed to explore whether the altered expression of tumor necrosis factor-alpha (TNF-α), vascular endothelial growth factor (VEGF) and apoptotic changes in mid zone (MZ) and rupture zone (RZ) of fetal membranes (FM) are regulatory mechanisms associated with labor at term. Fifteen FM specimens were collected ...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-013-9553-0

    authors: Elfayomy AK,Almasry SM

    更新日期:2014-06-01 00:00:00

  • MRP1 knockdown down-regulates the deposition of collagen and leads to a reduced hypertrophic scar fibrosis.

    abstract::Multidrug resistance-associated protein 1 (MRP1) belongs to ATP-binding cassette transporters family. The overexpression of MRP1 is predominantly related with the failure of chemo-radiotherapy in various tumors. However, its possible role in hypertrophic scar (HS) is hardly investigated. Here we showed that the mRNA l...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-015-9629-0

    authors: Li Y,Yang L,Zheng Z,Shi J,Wu X,Guan H,Jia Y,Tao K,Wang H,Han S,Gao J,Zhao B,Su L,Hu D

    更新日期:2015-10-01 00:00:00

  • The role of Cyclin G1 in cellular proliferation and apoptosis of human epithelial ovarian cancer.

    abstract::Cyclin G1 plays an essential role in the development of human carcinoma. Here, we characterized the clinical significance of Cyclin G1 and investigated its role in cellular proliferation and apoptosis of epithelial ovarian cancer (EOC). Western blot was used to evaluate the expression of Cyclin G1 in nine fresh EOC ti...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-015-9622-7

    authors: Jiang L,Liu R,Wang Y,Li C,Xi Q,Zhong J,Liu J,Yang S,Wang J,Huang M,Tang C,Fang Z

    更新日期:2015-06-01 00:00:00

  • The spatio-temporal expression pattern of cytoplasmic Cu/Zn superoxide dismutase (SOD1) mRNA during mouse embryogenesis.

    abstract::The cytoplasmic Cu/Zn-superoxide dismutase (SOD1) represents along with catalase and glutathione peroxidase at the first defense line against reactive oxygen species in all aerobic organisms, but little is known about its distribution in developing embryos. In this study, the expression patterns of SOD1 mRNA in mouse ...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-007-9134-1

    authors: Yon JM,Baek IJ,Lee SR,Jin Y,Kim MR,Nahm SS,Kim JS,Ahn B,Lee BJ,Yun YW,Nam SY

    更新日期:2008-02-01 00:00:00

  • Akt plays indispensable roles during the first cell lineage differentiation of mouse.

    abstract::The first cell lineage differentiation occurs during the development of mouse 8-cell embryo to blastocyst. Akt is a potent kinase whose role during blastocyst formation has not been elucidated. In the present study, immunofluorescence results showed that the Akt protein was specifically localized to the outer cells of...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-019-09833-z

    authors: Xu S,Pang L,Liu Y,Lian X,Mo K,Lv R,Zhu H,Lv C,Lin J,Sun J,Xu L,Wang S

    更新日期:2019-08-01 00:00:00

  • Editorial: computational modelling of cell & tissue processes & function.

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    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-004-2653-0

    authors: Moore MN,Noble D

    更新日期:2004-09-01 00:00:00

  • Expression patterns of imprinted gene Inpp5f-v3 during mouse brain development.

    abstract::Inpp5f-v3 is a transcriptional variant of Inpp5f (inositol polyphosphate-5-phosphatase F) and locates in distal mouse chromosome 7. It is a paternally expressed imprinted gene in mouse. In this study, we examined the spatiotemporal patterns of Inpp5f-v3 gene during the mouse development. The northern blotting analysis...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-011-9321-y

    authors: Yan C,Hongjuan H,Yanjiang X,Zhengbin H,Kai L,Fengwei Z,Jing H,Qiong W

    更新日期:2011-04-01 00:00:00

  • Hormonal regulation of uterine natural killer cells in mouse preimplantation uterus.

    abstract::Uterine Natural Killer (uNK) cells are the most abundant lymphocyte population recruited in the uteri during murine and human pregnancy. Previous investigation on uNK cells during mouse pregnancy focused more on its accumulation in postimplantation periods, which were believed to play important roles in regulating tro...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-010-9256-8

    authors: Kuang H,Peng H,Xu H,Zhang B,Peng J,Tan Y

    更新日期:2010-02-01 00:00:00

  • Expression of inhibin/activin subunits alpha (-alpha), beta A (-beta (A)) and beta B (-beta (B)) in placental tissue of normal and intrauterine growth restricted (IUGR) pregnancies.

    abstract::During human pregnancy the placenta produces a variety of proteins like steroid hormones and their receptors that are responsible for the establishment and ongoing of the feto-placental unit. Inhibins are dimeric glycoproteins, composed of an alpha-subunit and one of two possible beta-subunits (beta (A) or beta (B)). ...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-006-9029-6

    authors: Mylonas I,Schiessl B,Jeschke U,Vogl J,Makrigiannakis A,Kuhn C,Kunze S,Schulze S,Kainer F,Friese K

    更新日期:2006-01-01 00:00:00

  • Natriuretic peptide system expression in murine and human submandibular salivary glands: a study of the spatial localisation of ANB, BNP, CNP and their receptors.

    abstract::The natriuretic peptide (NP) system comprises of three ligands, the Atrial Natriuretic Peptide (ANP), Brain Natriuretic peptide (BNP) and C-type Natriuretic peptide (CNP), and three natriuretic peptide receptors, NPRA, NPRB and NPRC. Here we present a comprehensive study of the natriuretic peptide system in healthy mu...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-019-09849-5

    authors: Ahmed A,Gulino A,Amayo S,Arancio W,Florena AM,Belmonte B,Jurjus A,Leone A,Miletich I

    更新日期:2020-02-01 00:00:00

  • Relationship between pancreatic vesicular monoamine transporter 2 (VMAT2) and insulin expression in human pancreas.

    abstract::Vesicular monoamine transporter 2 (VMAT2) is expressed in pancreatic beta cells and has recently been proposed as a target for measurement of beta cell mass in vivo. We questioned, (1) What proportion of beta cells express VMAT2? (2) Is VMAT2 expressed by other pancreatic endocrine or non-endocrine cells? (3) Is the r...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章,多中心研究

    doi:10.1007/s10735-008-9195-9

    authors: Saisho Y,Harris PE,Butler AE,Galasso R,Gurlo T,Rizza RA,Butler PC

    更新日期:2008-10-01 00:00:00

  • Expression of glucose transporter 1 is associated with loss of heterozygosity of chromosome 1p in oligodendroglial tumors WHO grade II.

    abstract::Objective Oligodendroglial tumors with a loss of heterozygosity of 1p (LOH1p) appear to have a better prognosis than oligodendrogliomas without LOH. Previously, we reported glucose uptake in low-grade oligodendroglial tumors to be related to LOH 1p status. Here, we performed an immunohistochemical study of the common ...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-008-9191-0

    authors: Stockhammer F,von Deimling A,Synowitz M,Blechschmidt C,van Landeghem FK

    更新日期:2008-10-01 00:00:00

  • Protein expression of the transcriptional regulator MI-ER1 alpha in adult mouse tissues.

    abstract::MI-ER1 is a novel transcriptional regulator that plays a critical role in embryonic development and is differentially expressed in breast carcinoma. The MI-ER1 protein sequence is highly conserved among species, with 95% identity between mouse and humans and 72% between Xenopus and mouse. There are two major protein i...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-007-9116-3

    authors: Thorne LB,McCarthy PL,Paterno GD,Gillespie LL

    更新日期:2008-02-01 00:00:00

  • Tissue microarrays as a platform for proteomic investigation.

    abstract::Tissue microarrays have become an essential tool in translational pathology. They are used to confirm results from other experimental platforms, such as expression microarrays, as well as a primary tool to explore the expression profile of proteins by immunohistochemical analysis. Tissue microarrays are routinely used...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-006-9049-2

    authors: Chung JY,Braunschweig T,Tuttle K,Hewitt SM

    更新日期:2007-05-01 00:00:00

  • Methoxychlor-induced alterations in the histological expression of angiogenic factors in pituitary and uterus.

    abstract::Within the reproductive system, oestrogenic stimulation of uterine and pituitary tissue typically causes a proliferative response accompanied by an angiogenic induction of new blood vessels from existing ones, thereby providing nutrients and oxygen to the growing tissue. The pro-oestrogenic pesticide methoxychlor (MXC...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1023/b:hijo.0000039839.17945.89

    authors: Goldman JM,Murr AS,Buckalew AR,Schmid JE,Abbott BD

    更新日期:2004-05-01 00:00:00

  • Functional expression of ERG1 potassium channels in rat alveolar macrophages.

    abstract::Alveolar macrophages (AMs) play a vital role in lung immunity. The recent studies demonstrated that potassium channels were associated with macrophage functions, such as activation, migration and cytokines secretion. However, less is known regarding the expression and function of ERG channels in AMs. Our study showed ...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-012-9458-3

    authors: Dong H,Ji Z,Liu M,Wang Y,Bai X,Wang T,Liu Z,Wu Y,Zhang B,Luo Y,Li Z,Dong M

    更新日期:2013-02-01 00:00:00

  • Determining protein biomarkers for DLBCL using FFPE tissues from HIV negative and HIV positive patients.

    abstract::DLBCL is the most common lymphoma subtype occurring in older populations as well as in younger HIV infected patients. The current treatment options for DLBCL are effective for most patients yet the relapse rate is high. While many biomarkers for DLBCL exist, they are not in clinical use due to low sensitivity and spec...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-016-9695-y

    authors: Magangane P,Sookhayi R,Govender D,Naidoo R

    更新日期:2016-12-01 00:00:00

  • SLC30A family expression in the pancreatic islets of humans and mice: cellular localization in the β-cells.

    abstract::Zinc is a vital co-factor for insulin metabolism in the pancreatic β-cell, involved in synthesis, maturation, and crystallization. Two families of zinc transporters, namely SLC30A (ZNT) and SLC39A (ZIP) are involved in maintaining cellular zinc homeostasis in mammalian cells. Single nuclear polymorphisms or mutations ...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-017-9753-0

    authors: Cai Y,Kirschke CP,Huang L

    更新日期:2018-04-01 00:00:00

  • Early neurogenesis during caudal spinal cord regeneration in adult Gekko japonicus.

    abstract::Gekko japonicus undergoes dramatic changes in the caudal spinal cord after tail amputation. The amputation induces cell proliferation in the caudal ependymal tube. We performed hematoxylin and eosin staining at different time points in the regeneration process to investigate the morphological characterization of the r...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-012-9466-3

    authors: Zhou Y,Xu Q,Li D,Zhao L,Wang Y,Liu M,Gu X,Liu Y

    更新日期:2013-06-01 00:00:00

  • Increased PELP1 expression in rat periodontal ligament tissue in response to estrogens treatment.

    abstract::Estrogens and their receptors are important factors involved in periodontal ligament (PDL) tissue health. As a regulator of estrogen receptors (ER), the proline-, glutamic acid-, and leucine-rich protein 1 (PELP1) may play a role in alveolar bone formation and PDL homeostasis. The aim of the present study was to obser...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-013-9490-y

    authors: Wang J,Zhu Q,Song S,Dong J,Shi L,Tao R,Ding Y,Hong B

    更新日期:2013-06-01 00:00:00

  • Activation of satellite glial cells in trigeminal ganglion following dental injury and inflammation.

    abstract::Satellite glial cells (SGCs), a peripheral neuroglial cell, surround neurons and form a complete envelope around individual sensory neurons in the trigeminal ganglia (TG), which may be involved in modulating neurons in inflammation. The purpose of this study was to determine the effect of dental injury and inflammatio...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-018-9765-4

    authors: Liu H,Zhao L,Gu W,Liu Q,Gao Z,Zhu X,Wu Z,He H,Huang F,Fan W

    更新日期:2018-06-01 00:00:00

  • Temporal and functional changes in glycosaminoglycan expression during osteogenesis.

    abstract::Heparan sulfate proteoglycans (HSPGs) are complex and labile macromolecular moieties on the surfaces of cells that control the activities of a range of extracellular proteins, particularly those driving growth and regeneration. Here, we examine the biosynthesis of heparan sulfate (HS) sugars produced by cultured MC3T3...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-007-9123-4

    authors: Nurcombe V,Goh FJ,Haupt LM,Murali S,Cool SM

    更新日期:2007-10-01 00:00:00

  • Short-term administration of non-selective and selective COX-2 NSAIDs do not interfere with bone repair in rats.

    abstract::Selective cyclooxygenase-2 non-steroidal anti-inflammatory drugs are known to inhibit bone repair, especially when long-term administration is required due to chronicle inflammatory diseases. In order to evaluate the action of this drug in bone repair during short-term administration, 48 rats underwent surgical bone d...

    journal_title:Journal of molecular histology

    pub_type: 杂志文章

    doi:10.1007/s10735-008-9176-z

    authors: Matsumoto MA,De Oliveira A,Ribeiro Junior PD,Nary Filho H,Ribeiro DA

    更新日期:2008-08-01 00:00:00