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Species

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Gene

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Platform

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  • Manual Assay miRNAscope (5099) Apply Manual Assay miRNAscope filter
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  • T3 (3) Apply T3 filter
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Channel

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HiPlex Channel

  • T1 (84393) Apply T1 filter
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  • T11 (84374) Apply T11 filter
  • T9 (81898) Apply T9 filter
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  • T3 (81881) Apply T3 filter
  • T6 (81881) Apply T6 filter
  • T5 (81875) Apply T5 filter
  • S1 (32) Apply S1 filter
  • 8 (17) Apply 8 filter
  • 1 (1) Apply 1 filter
  • 10 (1) Apply 10 filter
  • 6 (1) Apply 6 filter

Product

  • RNAscope Multiplex Fluorescent Assay (1035) Apply RNAscope Multiplex Fluorescent Assay filter
  • RNAscope (998) Apply RNAscope filter
  • RNAscope Fluorescent Multiplex Assay (732) Apply RNAscope Fluorescent Multiplex Assay filter
  • RNAscope 2.5 HD Red assay (704) Apply RNAscope 2.5 HD Red assay filter
  • RNAscope 2.0 Assay (497) Apply RNAscope 2.0 Assay filter
  • RNAscope 2.5 HD Brown Assay (293) Apply RNAscope 2.5 HD Brown Assay filter
  • TBD (193) Apply TBD filter
  • RNAscope 2.5 LS Assay (191) Apply RNAscope 2.5 LS Assay filter
  • RNAscope 2.5 HD Duplex (160) Apply RNAscope 2.5 HD Duplex filter
  • RNAscope 2.5 HD Reagent Kit - BROWN (108) Apply RNAscope 2.5 HD Reagent Kit - BROWN filter
  • RNAscope Multiplex Fluorescent v2 (97) Apply RNAscope Multiplex Fluorescent v2 filter
  • BASEscope Assay RED (91) Apply BASEscope Assay RED filter
  • RNAscope 2.5 VS Assay (85) Apply RNAscope 2.5 VS Assay filter
  • Basescope (53) Apply Basescope filter
  • RNAscope HiPlex v2 assay (30) Apply RNAscope HiPlex v2 assay filter
  • miRNAscope (26) Apply miRNAscope filter
  • DNAscope HD Duplex Reagent Kit (15) Apply DNAscope HD Duplex Reagent Kit filter
  • RNAscope 2.5 HD duplex reagent kit (13) Apply RNAscope 2.5 HD duplex reagent kit filter
  • BaseScope Duplex Assay (12) Apply BaseScope Duplex Assay filter
  • RNAscope Multiplex fluorescent reagent kit v2 (6) Apply RNAscope Multiplex fluorescent reagent kit v2 filter
  • RNAscope Fluorescent Multiplex Reagent kit (5) Apply RNAscope Fluorescent Multiplex Reagent kit filter
  • RNAscope ISH Probe High Risk HPV (5) Apply RNAscope ISH Probe High Risk HPV filter
  • CTCscope (4) Apply CTCscope filter
  • RNAscope 2.5 HD Reagent Kit (4) Apply RNAscope 2.5 HD Reagent Kit filter
  • RNAscope HiPlex12 Reagents Kit (3) Apply RNAscope HiPlex12 Reagents Kit filter
  • DNAscope Duplex Assay (2) Apply DNAscope Duplex Assay filter
  • RNAscope 2.5 HD Assay (2) Apply RNAscope 2.5 HD Assay filter
  • RNAscope 2.5 LS Assay - RED (2) Apply RNAscope 2.5 LS Assay - RED filter
  • RNAscope Multiplex Fluorescent Assay v2 (2) Apply RNAscope Multiplex Fluorescent Assay v2 filter
  • BOND RNAscope Brown Detection (1) Apply BOND RNAscope Brown Detection filter
  • HybEZ Hybridization System (1) Apply HybEZ Hybridization System filter
  • miRNAscope Assay Red (1) Apply miRNAscope Assay Red filter
  • RNA-Protein CO-Detection Ancillary Kit (1) Apply RNA-Protein CO-Detection Ancillary Kit filter
  • RNAscope 2.0 HD Assay - Chromogenic (1) Apply RNAscope 2.0 HD Assay - Chromogenic filter
  • RNAscope 2.5 HD- Red (1) Apply RNAscope 2.5 HD- Red filter
  • RNAscope 2.5 LS Reagent Kits (1) Apply RNAscope 2.5 LS Reagent Kits filter
  • RNAScope HiPlex assay (1) Apply RNAScope HiPlex assay filter
  • RNAscope HiPlex Image Registration Software (1) Apply RNAscope HiPlex Image Registration Software filter
  • RNAscope LS Multiplex Fluorescent Assay (1) Apply RNAscope LS Multiplex Fluorescent Assay filter
  • RNAscope Multiplex Fluorescent Reagent Kit V3 (1) Apply RNAscope Multiplex Fluorescent Reagent Kit V3 filter
  • RNAscope Multiplex Fluorescent Reagent Kit v4 (1) Apply RNAscope Multiplex Fluorescent Reagent Kit v4 filter
  • RNAscope Multiplex Fluorescent v1 (1) Apply RNAscope Multiplex Fluorescent v1 filter
  • RNAscope Target Retrieval Reagents (1) Apply RNAscope Target Retrieval Reagents filter

Research area

  • Neuroscience (1849) Apply Neuroscience filter
  • Cancer (1385) Apply Cancer filter
  • Development (509) Apply Development filter
  • Inflammation (472) Apply Inflammation filter
  • Infectious Disease (410) Apply Infectious Disease filter
  • Other (406) Apply Other filter
  • Stem Cells (258) Apply Stem Cells filter
  • Covid (237) Apply Covid filter
  • Infectious (220) Apply Infectious filter
  • HPV (187) Apply HPV filter
  • lncRNA (135) Apply lncRNA filter
  • Metabolism (91) Apply Metabolism filter
  • Developmental (83) Apply Developmental filter
  • Stem cell (78) Apply Stem cell filter
  • Immunotherapy (72) Apply Immunotherapy filter
  • Other: Methods (67) Apply Other: Methods filter
  • HIV (64) Apply HIV filter
  • CGT (62) Apply CGT filter
  • Pain (62) Apply Pain filter
  • diabetes (57) Apply diabetes filter
  • LncRNAs (46) Apply LncRNAs filter
  • Aging (43) Apply Aging filter
  • Other: Heart (40) Apply Other: Heart filter
  • Reproduction (38) Apply Reproduction filter
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  • Obesity (29) Apply Obesity filter
  • Other: Lung (29) Apply Other: Lung filter
  • Behavior (27) Apply Behavior filter
  • Kidney (27) Apply Kidney filter
  • Other: Kidney (27) Apply Other: Kidney filter
  • Alzheimer's Disease (26) Apply Alzheimer's Disease filter
  • Bone (24) Apply Bone filter
  • Stress (21) Apply Stress filter
  • Other: Zoological Disease (20) Apply Other: Zoological Disease filter
  • Regeneration (20) Apply Regeneration filter
  • Skin (20) Apply Skin filter
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  • Liver (19) Apply Liver filter
  • Lung (19) Apply Lung filter
  • Fibrosis (17) Apply Fibrosis filter
  • Other: Liver (17) Apply Other: Liver filter
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  • behavioral (16) Apply behavioral filter
  • Other: Endocrinology (16) Apply Other: Endocrinology filter
  • Other: Skin (16) Apply Other: Skin filter
  • Injury (15) Apply Injury filter
  • Anxiety (14) Apply Anxiety filter
  • Memory (14) Apply Memory filter
  • Reproductive Biology (14) Apply Reproductive Biology filter

Product sub type

  • Target Probes (256571) Apply Target Probes filter
  • Control Probe - Automated Leica (409) Apply Control Probe - Automated Leica filter
  • Control Probe - Automated Leica Multiplex (284) Apply Control Probe - Automated Leica Multiplex filter
  • Control Probe - Automated Leica Duplex (168) Apply Control Probe - Automated Leica Duplex filter
  • Control Probe- Manual RNAscope Multiplex (148) Apply Control Probe- Manual RNAscope Multiplex filter
  • Control Probe - Automated Ventana (143) Apply Control Probe - Automated Ventana filter
  • Control Probe - Manual RNAscope Singleplex (142) Apply Control Probe - Manual RNAscope Singleplex filter
  • Control Probe - Manual RNAscope Duplex (137) Apply Control Probe - Manual RNAscope Duplex filter
  • Control Probe (73) Apply Control Probe filter
  • Control Probe - Manual BaseScope Singleplex (51) Apply Control Probe - Manual BaseScope Singleplex filter
  • Control Probe - VS BaseScope Singleplex (41) Apply Control Probe - VS BaseScope Singleplex filter
  • Control Probe - LS BaseScope Singleplex (40) Apply Control Probe - LS BaseScope Singleplex filter
  • L-HBsAG (15) Apply L-HBsAG filter
  • Cancer (13) Apply Cancer filter
  • Automated Assay 2.5: Leica System (8) Apply Automated Assay 2.5: Leica System filter
  • Control Probe- Manual BaseScope Duplex (8) Apply Control Probe- Manual BaseScope Duplex filter
  • 1765 (8) Apply 1765 filter
  • 1379 (8) Apply 1379 filter
  • 2184 (8) Apply 2184 filter
  • 38322 (8) Apply 38322 filter
  • Manual Assay 2.5: Pretreatment Reagents (5) Apply Manual Assay 2.5: Pretreatment Reagents filter
  • Controls: Manual Probes (5) Apply Controls: Manual Probes filter
  • Control Probe- Manual RNAscope HiPlex (5) Apply Control Probe- Manual RNAscope HiPlex filter
  • Manual Assay RNAscope Brown (4) Apply Manual Assay RNAscope Brown filter
  • Manual Assay RNAscope Duplex (4) Apply Manual Assay RNAscope Duplex filter
  • Manual Assay RNAscope Multiplex (4) Apply Manual Assay RNAscope Multiplex filter
  • Manual Assay BaseScope Red (4) Apply Manual Assay BaseScope Red filter
  • IA: Other (4) Apply IA: Other filter
  • Control Probe - Manual BaseScope Duplex (4) Apply Control Probe - Manual BaseScope Duplex filter
  • Manual Assay miRNAscope Red (4) Apply Manual Assay miRNAscope Red filter
  • Automated Assay 2.5: Ventana System (3) Apply Automated Assay 2.5: Ventana System filter
  • IA: Other Accessories (3) Apply IA: Other Accessories filter
  • Control Probe - Automated Ventana Duplex (3) Apply Control Probe - Automated Ventana Duplex filter
  • Manual Assay BaseScope Duplex (3) Apply Manual Assay BaseScope Duplex filter
  • Manual Assay RNAscope Red (2) Apply Manual Assay RNAscope Red filter
  • Controls: Control Slides (2) Apply Controls: Control Slides filter
  • Control Probe- Manual BaseScope Singleplex (2) Apply Control Probe- Manual BaseScope Singleplex filter
  • Control Probe - Manual BaseScope™Singleplex (2) Apply Control Probe - Manual BaseScope™Singleplex filter
  • Manual Assay: Accessory Reagent (1) Apply Manual Assay: Accessory Reagent filter
  • Accessory Reagent (1) Apply Accessory Reagent filter
  • Controls: Manual RNAscope Multiplex (1) Apply Controls: Manual RNAscope Multiplex filter
  • IA: HybEZ (1) Apply IA: HybEZ filter
  • Automated Assay BaseScope: LS (1) Apply Automated Assay BaseScope: LS filter
  • Automated Assay BaseScope: VS (1) Apply Automated Assay BaseScope: VS filter
  • Software: RNAscope HiPlex Image Registration (1) Apply Software: RNAscope HiPlex Image Registration filter
  • miRNAscope Automated Assay: Leica System (1) Apply miRNAscope Automated Assay: Leica System filter
  • Automated Assay: VS (1) Apply Automated Assay: VS filter
  • Control Probe - VS BaseScope™Singleplex (1) Apply Control Probe - VS BaseScope™Singleplex filter
  • Controls:2.5VS Probes (1) Apply Controls:2.5VS Probes filter
  • Control Probe - Manual RNAscope Multiplex (1) Apply Control Probe - Manual RNAscope Multiplex filter

Sample Compatibility

  • Cell pellets (49) Apply Cell pellets filter
  • FFPE (41) Apply FFPE filter
  • Fixed frozen tissue (31) Apply Fixed frozen tissue filter
  • TMA (31) Apply TMA filter
  • Adherent cells (26) Apply Adherent cells filter
  • Freshfrozen tissue (18) Apply Freshfrozen tissue filter
  • Fresh frozen tissue (13) Apply Fresh frozen tissue filter
  • Cell Cultures (12) Apply Cell Cultures filter
  • TMA(Tissue Microarray) (9) Apply TMA(Tissue Microarray) filter
  • FFPE,Freshfrozen tissue,Fixed frozen tissue,TMA,Cell pellets,Adherent cells (7) Apply FFPE,Freshfrozen tissue,Fixed frozen tissue,TMA,Cell pellets,Adherent cells filter
  • CTC (4) Apply CTC filter
  • PBMC's (4) Apply PBMC's filter
  • Adherent or Cultured Cells (1) Apply Adherent or Cultured Cells filter
  • Fixed frozen (1) Apply Fixed frozen filter
  • FFPE,TMA (1) Apply FFPE,TMA filter
  • Fixed frozen tissues (for chromogenic assays) (1) Apply Fixed frozen tissues (for chromogenic assays) filter

Category

  • Publications (7110) Apply Publications filter

Application

  • Cancer (138823) Apply Cancer filter
  • Neuroscience (50490) Apply Neuroscience filter
  • Cancer, Neuroscience (32227) Apply Cancer, Neuroscience filter
  • Non-coding RNA (24045) Apply Non-coding RNA filter
  • Cancer, Inflammation (16436) Apply Cancer, Inflammation filter
  • Cancer, Inflammation, Neuroscience (12591) Apply Cancer, Inflammation, Neuroscience filter
  • Inflammation (9807) Apply Inflammation filter
  • Cancer, Stem Cell (7932) Apply Cancer, Stem Cell filter
  • Cancer, Neuroscience, Stem Cell (7028) Apply Cancer, Neuroscience, Stem Cell filter
  • Cancer, Immunotherapy, Inflammation, Neuroscience, Stem Cell (6854) Apply Cancer, Immunotherapy, Inflammation, Neuroscience, Stem Cell filter
  • Cancer, Inflammation, Neuroscience, Stem Cell (5424) Apply Cancer, Inflammation, Neuroscience, Stem Cell filter
  • Immunotherapy (5296) Apply Immunotherapy filter
  • Cancer, Immunotherapy (3866) Apply Cancer, Immunotherapy filter
  • Stem Cell (3385) Apply Stem Cell filter
  • Cancer, Immunotherapy, Neuroscience, Stem Cell (3050) Apply Cancer, Immunotherapy, Neuroscience, Stem Cell filter
  • Cancer, Immunotherapy, Inflammation (2844) Apply Cancer, Immunotherapy, Inflammation filter
  • Cancer, Immunotherapy, Inflammation, Neuroscience (1878) Apply Cancer, Immunotherapy, Inflammation, Neuroscience filter
  • Cancer, Immunotherapy, Neuroscience (1786) Apply Cancer, Immunotherapy, Neuroscience filter
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Inhibition of TLR-7 Signaling Attenuates Thoracic Aortic Aneurysms and Dissection Formation

JVS-Vascular iScience

2022 Jan 01

Qi, X;Liao, M;Hung, A;Arnaoutakis, G;Upchurch, GR;
| DOI: 10.1016/j.jvssci.2022.05.022

Background The critical role for chronic inflammation in the development of thoracic aortic aneurysms and dissections (TAADs) has been recognized in both experimental and clinical settings. However, challenges remain on translating this knowledge to clinical applications. In this study, we tested the hypothesis that TLR-7 signaling triggered by self-RNAs substantiates chronic inflammation, promoting TAAD formation. Methods A mouse TAAD model induced by SMC-specific deletion of Tgfbr1 (Tgfbr1iko) was used. Results In this model, the expression of TLR-7 was progressively upregulated during the early stages, resulting in a two-fold differential at 2 weeks compared with control aortas (P = .003). RNAScope assays showed that cells located in the media and adventitia were responsible for the upregulation. Additionally, immunofluorescence staining showed that TLR-7 is induced in human TAADs. Treatment with hydroxychloroquine, which inhibits TLR-7 receptor function, significantly decreased the number of intimal and medial tears (P = .026) and mitigated intramural hemorrhage (P = .007) compared with vehicle controls (n = 7/group). Further assays with bone marrow derived dendritic cells demonstrated that RNAs, particularly small RNAs, extracted from TAADs induced significantly higher interferon α/β levels compared with normal aortas (P = .025). Similarly, RNAs extracted from Tgfbr1iko SMCs induced higher levels of interferon α, IP-10, and MCP1 compared with those harvested from wild-type smooth muscle cells. Necroptosis (labeled with RIPK3 and pMLKL) and RNA oxidation (labeled with 8-OHG) were evident in the media of TAADs, and might serve as the source for the endogenous TLR-7 ligand. Finally, treatment with the TLR-7 specific inhibitor, M5049, at a dose of 1.0 or 5.0 mg/kg/day via oral gavage prevented dilation of TAADs at four weeks compared with vehicle controls (9% vs 8% vs 23%; P < .001). Conclusions Self-RNAs released from stressed and dying cells is associated with chronically inflamed aortic tissue and promotes TAAD development via triggering TLR-7 signaling. Blocking TLR-7 signaling may represent a novel strategy to treat human TAADs.
A Chimeric Antigen Receptor Targeting Malonaldehyde-modified Low-density lipoprotein Cholesterol Activates Regulatory T Cells in the Presence of Human Atherosclerotic Plaque

JVS-Vascular Science

2022 Jan 01

Shaligram, S;Lopez, JL;Lin, PY;Ho, P;Huang, A;
| DOI: 10.1016/j.jvssci.2022.05.021

Background: Regulatory T cells (Tregs) suppress inflammation in atherosclerosis, and therefore have the therapeutic potential to decrease the risk of myocardial infarction and stroke. However, there is currently no method to generate antigen specific Tregs that target atherosclerosis. We therefore engineered Tregs that express a chimeric antigen receptor (CAR) targeting malonaldehyde-modified low-density lipoprotein cholesterol (MDA-LDL), the most common form of oxidized LDL and a key molecular component of atherosclerosis. Methods: Novel single chain variable fragments (scFv) were synthesized using sequences from antibodies targeting human MDA-LDL. OxidizedLDL specific CARs (ox-CARs) were subsequently engineered by fusing each scFv to an IgG4 hinge, CD28 transmembrane, and CD28/CD3z cytoplasmic domains. CD4+ CD25+ CD127low/e Tregs were purified from human blood via fluorescent activated cell sorting and lentivirally transduced to express the novel ox-CARs (ox-CAR-Tregs). Human atherosclerotic plaques were obtained from patients undergoing carotid endarterectomy. Autologous ox-CAR-Tregs were analyzed for activation after ex vivo coculture with carotid endarterectomy samples. Results: A rationally designed panel of 42 ox-CARs were engineered using scFv derived from 12 antibodies targeting MDA-LDL. We first assessed CAR expression and activation in Jurkat T cells to identify promising oxCAR variants for further evaluation in human Tregs. After culture in the presence of MDA-LDL, six ox-CAR-Treg variants consistently showed significant activation, compared with controls, based on CD71 expression, cytokine expression, and proliferation in the absence of CD3/28 stimulation. Human atherosclerotic samples were identified to have substantial amounts of MDA-LDL epitopes using immunohistochemistry. Autologous ox-CAR-Tregs showed a dose-dependent increase in CD71 expression after ex vivo co-culture with atherosclerotic plaque. Conclusions: An optimized CAR targeting MDA-LDL activates Tregs Q10 when cultured with human atherosclerotic plaque ex vivo.
Detection of Cytauxzoon Felis in Salivary Glands of Amblyomma Americanum

papers.ssrn.com

2022 Jan 01

Yang, TS;Reichard, MV;Thomas, JE;Miller, LS;Marr, HS;

Cytauxzoon felis is a tick-borne piroplasmid hemoparasite that causes life-threatening disease in cats. Despite the critical role that ticks play in disease transmission and development, our knowledge regarding the C. felis life cycle remains limited to the feline hosts and no stage of the parasite has been identified or investigated in ticks. Sporozoites are the infectious stage of piroplasmids that are transmitted by ticks. In other tick-borne piroplasmids, sporozoites have played a key role in disease prevention and management. We believe sporozoites have similar potential for cytauxzoonosis. Therefore, the objective of this study is to evaluate different molecular and microscopic techniques to detect C. felis sporozoites in tick salivary glands (SG). A total of 140 Amblyomma americanum ticks that were fed on C. felis-infected cats as nymphs were included for this study. Specifically, dissected SGs were quartered and subjected to C. felis RT-PCR, RNAscope in situ hybridization (ISH), histology, direct azure staining, and transmission electron microscopy (TEM). Cytauxzoon felis RT-PCR was also performed on half tick (HT) carcasses after SG dissection. Cytauxzoon felis RNA was detected in SGs of 17 ticks. Of these, 7 ticks had microscopic visualization via ISH and/or TEM. The remaining 10 ticks had only molecular detection of C. felis in SGs via RT-PCR without visualization. Cytauxzoon felis RNA was detected solely in HT carcasses via RT-PCR in 9 additional ticks. In ISH-positive tick SGs, hybridization signals were present in cytoplasms of SG acinar cells. TEM captured rare C. felis organisms with characteristic ultrastructural features of piroplasmid parasites. This study describes the first direct visualization of any developing stage of C. felis in ticks. Forthcoming studies should employ a combination of molecular and microscopic techniques to investigate the C. felis life cycle in A. americanum.
Spatial Sequencing in a Model of Early Onset Retinal Degeneration

Investigative Ophthalmology & Visual Science

2022 Jan 01

Huffman, K;Sasik, R;Borooah, S;

RESULTS : Uniform Manifold Approximation and Projection clustering identified distinct expression signatures from the ganglion cell layer(GCL), inner nuclear layer(INL), retinal pigment epithelium (RPE)/choroid/sclera, optic nerve, and ciliary body (Fig, 1) but not the outer nuclear layer(ONL) which was contaminated with expression from other layers. Our findings highlight Clu, C4b, Apoe, and C1qa genes (z-score 3.0, 2.4, 2.3, and 2.2) as potential markers of disease in the RPE. Gene Set Enrichment analysis between rd6 and WT eyes showed upregulation of glycolysis and carbon metabolism pathways in the GCL and Rap1, Hippo and lysosome pathways in the RPE/Choroid/sclera. The ribosomal pathway was downregulated in these layers. No significant pathways were found in the INL, ciliary body or optic nerve.
Cross-species single-cell transcriptomic analysis reveals factors limiting human Müller glial-derived retinal regeneration

Investigative Ophthalmology & Visual Science

2022 Jan 01

Dhodapkar, R;Martell, D;Calapkulu, E;

RESULTS : After quality control and data integration, 17,401 nuclei were isolated from 26,471 original droplets, derived from macular samples of 4 patients without retinal disease and 3 patients with POAG. The proportion of retinal ganglion cells in glaucomatous retina was significantly lower than that in healthy retina (p=0.024). An activated subpopulation of Müller glia was identified in both healthy and glaucomatous retina by cell clustering. Cross-species analysis comparing zebrafish and humans identified YAP1 activation as a differentiator between zebrafish and human glial activation. Human retinal explants cultured with N3B1P3C demonstrated significant proliferation of GS+ Muller cells (p=0.044).
Identification and characterization of a novel retina-specific lncRNA upstream ABCA4 with a potential role in ABCA4-associated inherited retinal disease

Investigative Ophthalmology & Visual Science

2022 Jan 01

Rey, AD;Lopez-Soriano, V;Corradi, Z;

* Alfredo Dueñas Rey Universitair Ziekenhuis Gent Centrum Medische Genetica Gent, Gent, Belgium Department of Biomolecular Medicine, Universiteit Gent Faculteit Geneeskunde en Gezondheidswetenschappen, Gent, Belgium * Víctor López-Soriano Universitair Ziekenhuis Gent Centrum Medische Genetica Gent, Gent, Belgium Department of Biomolecular Medicine, Universiteit Gent Faculteit Geneeskunde en Gezondheidswetenschappen, Gent, Belgium * Zelia Corradi Radboudumc Department of Human Genetics, Nijmegen, Gelderland, Netherlands * Claire-Marie Dhaenens Univ. Lille, Inserm, CHU Lille, U1172 - LilNCog - Lille Neuroscience & Cognition, Lille, France * Manon Bouckaert Universitair Ziekenhuis Gent Centrum Medische Genetica Gent, Gent, Belgium Department of Biomolecular Medicine, Universiteit Gent Faculteit Geneeskunde en Gezondheidswetenschappen, Gent, Belgium * Jasper Verwilt Department of Biomolecular Medicine, Universiteit Gent Faculteit Geneeskunde en Gezondheidswetenschappen, Gent, Belgium OncoRNALab, Cancer Research Institute Ghent, Ghent, Belgium * Avril M Watson Newcastle University Faculty of Medical Sciences, Newcastle upon Tyne, Newcastle upon Tyne, United Kingdom * Majlinda Lako Newcastle University Faculty of Medical Sciences, Newcastle upon Tyne, Newcastle upon Tyne, United Kingdom * Eva D’haene Universitair Ziekenhuis Gent Centrum Medische Genetica Gent, Gent, Belgium Department of Biomolecular Medicine, Universiteit Gent Faculteit Geneeskunde en Gezondheidswetenschappen, Gent, Belgium * Karla Alejandra Ruiz Ceja Telethon Institute of Genetics and Medicine, Napoli, Campania, Italy * Sandro Banfi Telethon Institute of Genetics and Medicine, Napoli, Campania, Italy * Miriam Bauwens Universitair Ziekenhuis Gent Centrum Medische Genetica Gent, Gent, Belgium Department of Biomolecular Medicine, Universiteit Gent Faculteit Geneeskunde en Gezondheidswetenschappen, Gent, Belgium * Frans P Cremers Radboudumc Department of Human Genetics, Nijmegen, Gelderland, Netherlands * Steve Lefever Universitair Ziekenhuis Gent Centrum Medische Genetica Gent, Gent, Belgium Department of Biomolecular Medicine, Universiteit Gent Faculteit Geneeskunde en Gezondheidswetenschappen, Gent, Belgium * Elfride De Baere Universitair Ziekenhuis Gent Centrum Medische Genetica Gent, Gent, Belgium Department of Biomolecular Medicine, Universiteit Gent Faculteit Geneeskunde en Gezondheidswetenschappen, Gent, Belgium * Frauke Coppieters Universitair Ziekenhuis Gent Centrum Medische Genetica Gent, Gent, Belgium Department of Biomolecular Medicine, Universiteit Gent Faculteit Geneeskunde en Gezondheidswetenschappen, Gent, Belgium
Early neuroinflammatory responses in the visual pathway in a feline inherited glaucoma model

Investigative Ophthalmology & Visual Science

2022 Jan 01

Oikawa, K;Kiland, J;Mathu, V;Torne, O;

METHODS : Retinal, optic nerve head (ONH) and distal optic nerve (ON) tissues from 8 juvenile 10-12 week-old cats (4 males and 4 females) with feline congenital glaucoma (FCG) and 5 age-matched normal control cats (3 males and 2 females) were used. Data for weekly intraocular pressure (IOP) and optic nerve axon counts were available for all subjects. Protein and gene expression in tissue cryosections were examined by immunofluorescence labeling (IF) and RNAscope in situ hybridization (ISH), respectively. Retinal tissue was IF labeled for myeloid cell marker, IBA-1 and flat-mounted. ISH for markers of infiltrating monocytes/macrophages (_CCR2_) and proinflammatory cytokines (_IL1A_, _C1QA_, _TNF_) was performed. Microglia were identified by IF of homeostatic microglial marker, P2RY12. Microscopy images wereanalyzed using Image J, QuPath and Imaris. Two-tailed unpaired t-test or Mann-Whitney test or ANOVA were used for between-group comparisons (p
Wnt signaling pathway in the human limbus: a comprehensive mapping by single mRNA detection

Investigative Ophthalmology & Visual Science

2022 Jan 01

Bonnet, C;Ruiz, M;Gonzalez, S;

RESULTS : All 4 Wnt ligands, 4 Wnt inhibitors, and Fzd7 were preferentially expressed in the basal layer of the cornea and limbus compared to the suprabasal layer (_P_
Hedgehog signaling promotes expansion of Meibomian Gland stem cells in vivo

Investigative Ophthalmology & Visual Science

2022 Jan 01

Zhu, X;Xu, M;Grachtchouk, M;

RESULTS : Short-term lineage tracing data showed that _Lrig1_, _Lgr6_ and _Axin2_ label basal cells in MG ducts and acini. Long-term lineage tracing results showed that clones of labeled cells persist through multiple rounds of ductal and acinar renewal and give rise to differentiated progeny, identifying _Lrig1_+, _Lgr6_+ and _Axin2+_ ductal and acinar basal cells as self-renewing SCs. Forced expression of GLI2ΔN enhanced basal proliferation, caused expansion of _Lrig1_+ SCs, and lead to replacement of lipid-filled meibocytes by proliferative and poorly differentiated acinar cells. Transcriptional profiling of GLI2ΔN-expressing and control MGs revealed that forced GLI2ΔN expression caused greatly increased expression of _Lrig1_ and _Lgr6_ and suppressed expression of meibocyte differentiation genes.
Introducing a novel Mthfr677C> T mouse to model a common risk variant for glaucoma

Investigative Ophthalmology & Visual Science

2022 Jan 01

Reagan, A;Christensen, K;Bottiglieri, T;

PURPOSE : Methylenetetrahydrofolate reductase (_MTHFR_) is a critical enzyme in the folate/methionine/homocysteine pathway. Variants in _MTHFR, _notably _677C>T,_ have_ _been associated with glaucoma as well as Alzheimer’s disease and vascular dementia, suggesting an overlapping mechanism in brain and eye. However, mechanisms driving increased risk are not known, hindering the development of new treatments. Approximately 30% of individuals carry at least one copy of _MTHFR677C>T_, causing a 50% decrease in MTHFR enzyme efficiency. Reduced efficiency can lead to high levels of homocysteine in blood, resulting in vascular inflammation and increased risk for vascular damage. We hypothesize that vascular-specific expression of _MTHFR677C>T_ drives damaging effects in the retinal vasculature, priming the environment for additional risk.
Disease-driven Prolactin Isoform Expression in Canine Inherited Retinopathies

Investigative Ophthalmology & Visual Science

2022 Jan 01

Sudharsan, R;Aguirre, GD;

RESULTS : PR-specific expression of _PRLΔE1_ was observed in the following canine models of progressive inherited retinal degeneration (IRD): _RPGR_-XLPRA1 and _NPHP5_-LCA. In _RPGR_-XLPRA2 carrier retinas that undergo random X-inactivation, patches of_ PRLΔE1 _expression correlated with patches of PR degeneration. However, we did not observe expression of _PRLΔE1_ 24 hrs and 2 wks after light exposure that triggers acute rod loss in the canine RHO-T4R model of adRP. No _PRLΔE1 _expression was seen either in the _CNGB3_-ACHM3 retina that undergoes extremely slow cone degeneration. In _RPGR-_XLPRA1 and _RPGR-_XLPRA2 dogs subretinally-injected with an AAV-_RPGR_ vector, _PRLΔE1 _was completely absent in treated PRs while robust expression was seen in diseased/untreated areas.
Htr1b is required for normal mouse vision and retinal physiology

Investigative Ophthalmology & Visual Science

2022 Jan 01

Gibson, S;Shen, G;Pitale, PM;Park, YH;

METHODS : 8-week wild-type mice were used to determine gene (_Htr1b_) expression. RNAscope _in situ_ hybridization (ISH) was performed on retinal cryosections and imaged using confocal microscopy. Whole field flash electroretinograms (ERGs) were used to record scotopic and photopic amplitudes in 22 mice (8 _Htr1b_-/-; 8 _Htr1b_+/-; 6 WT). Positive scotopic threshold response (pSTR), b-wave, and a-wave amplitudes were recorded. Visual behavior was evaluated in _Htr1b_-/- mice and controls by assessing the scotopic and photopic optokinetic response. Gratings of variable spatial frequency or contrast were presented to evaluate spatial frequency threshold and contrast sensitivity threshold, respectively. We performed retinal histology and _in vivo_ SD-OCT imaging on 8-week _Htr1b_-/- animals to quantify retinal layer thickness. Retinal layers (GCL, IPL, INL, OPL, and ONL) were measured as a percentage of total retinal thickness and compared to age and sex-matched wild-type controls.RGC numbers were determined from whole-mount retinas which were prepared and visualized with confocal microscopy. RBPMS-positive cells were counted semi-automatically using an ImageJ extension. Total cell density was normalized to image size.

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Description
sense
Example: Hs-LAG3-sense
Standard probes for RNA detection are in antisense. Sense probe is reverse complent to the corresponding antisense probe.
Intron#
Example: Mm-Htt-intron2
Probe targets the indicated intron in the target gene, commonly used for pre-mRNA detection
Pool/Pan
Example: Hs-CD3-pool (Hs-CD3D, Hs-CD3E, Hs-CD3G)
A mixture of multiple probe sets targeting multiple genes or transcripts
No-XSp
Example: Hs-PDGFB-No-XMm
Does not cross detect with the species (Sp)
XSp
Example: Rn-Pde9a-XMm
designed to cross detect with the species (Sp)
O#
Example: Mm-Islr-O1
Alternative design targeting different regions of the same transcript or isoforms
CDS
Example: Hs-SLC31A-CDS
Probe targets the protein-coding sequence only
EnEmProbe targets exons n and m
En-EmProbe targets region from exon n to exon m
Retired Nomenclature
tvn
Example: Hs-LEPR-tv1
Designed to target transcript variant n
ORF
Example: Hs-ACVRL1-ORF
Probe targets open reading frame
UTR
Example: Hs-HTT-UTR-C3
Probe targets the untranslated region (non-protein-coding region) only
5UTR
Example: Hs-GNRHR-5UTR
Probe targets the 5' untranslated region only
3UTR
Example: Rn-Npy1r-3UTR
Probe targets the 3' untranslated region only
Pan
Example: Pool
A mixture of multiple probe sets targeting multiple genes or transcripts

Enabling research, drug development (CDx) and diagnostics

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