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Probes for INS

ACD can configure probes for the various manual and automated assays for INS for RNAscope Assay, or for Basescope Assay compatible for your species of interest.

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Estrogen regulation of the molecular phenotype and active translatome of AVPV kisspeptin neurons

Endocrinology

2021 Apr 15

Stephens, SBZ;Kauffman, AS;
PMID: 33856454 | DOI: 10.1210/endocr/bqab080

In females, ovarian estradiol (E2) exerts both negative and positive feedback regulation on the neural circuits governing reproductive hormone secretion, but the cellular and molecular mechanisms underlying this remain poorly understood. In rodents, ERα-expressing kisspeptin neurons in the hypothalamic anteroventral periventricular region (AVPV) are prime candidates to mediate E2 positive feedback induction of preovulatory GnRH and LH surges. E2 stimulates AVPV Kiss1 expression, but the full extent of estrogen effects in these neurons is unknown; whether E2 stimulates or inhibits other genes in AVPV Kiss1 cells has not been determined. Indeed, understanding of the function(s) of AVPV kisspeptin cells is limited, in part, by minimal knowledge of their overall molecular phenotype, as only a few genes are currently known to be co-expressed in AVPV Kiss1 cells. To provide a more detailed profiling of co-expressed genes in AVPV Kiss1 cells, including receptors and other signaling factors, and test how these genes respond to E2, we selectively isolated actively-translated mRNAs from AVPV Kiss1 cells of female mice and performed RNA-Seq. This identified >13,000 mRNAs co-expressed in AVPV Kiss1 cells, including multiple receptor and ligand transcripts positively or negatively regulated by E2. We also performed RNAscope to validate high co-expression of several transcripts identified by RNA-Seq, including Pdyn (prodynorphin), Penk (proenkephalin), Vgf (VGF), and Cartpt (CART), in female AVPV Kiss1 cells. Given the important role of AVPV kisspeptin cells in positive feedback, E2 effects on identified genes may relate to the LH surge mechanism and/or other physiological processes involving these AVPV kisspeptin cells.
A transgenic Alx4-CreER mouse to analyze anterior limb and nephric duct development

Developmental dynamics : an official publication of the American Association of Anatomists

2021 Mar 16

Rockwell, DM;O'Connor, AK;Bentley-Ford, MR;Haycraft, CJ;Croyle, MJ;Brewer, KM;Berbari, NF;Kesterson, RA;Yoder, BK;
PMID: 33728725 | DOI: 10.1002/dvdy.328

Genetic tools to study gene function and the fate of cells in the anterior limb bud are very limited. We describe a transgenic mouse line expressing CreERT2 from the Aristaless-like 4 (Alx4) promoter that induces recombination in the anterior limb. Cre induction at embryonic day 8.5 revealed that Alx4-CreERT2 labeled cells using the mTmG Cre reporter contributed to anterior digits I to III as well as the radius of the forelimb. Cre activity is expanded further along the AP axis in the hindlimb than in the forelimb resulting in some Cre reporter cells contributing to digit IV. Induction at later time points labeled cells that become progressively restricted to more anterior digits and proximal structures. Comparison of Cre expression from the Alx4 promoter transgene with endogenous Alx4 expression reveals Cre expression is slightly expanded posteriorly relative to the endogenous Alx4 expression. Using Alx4-CreERT2 to induce loss of intraflagellar transport 88 (Ift88), a gene required for ciliogenesis, hedgehog signaling, and limb patterning, did not cause overt skeletal malformations. However, the efficiency of deletion, time needed for Ift88 protein turnover, and for cilia to regress may hinder using this approach to analyze cilia in the limb. Alx4-CreERT2 is also active in the mesonephros and nephric duct that contribute to the collecting tubules and ducts of the adult nephron. Embryonic activation of the Alx4-CreERT2 in the Ift88 conditional line results in cyst formation in the collecting tubules/ducts. Overall, the Alx4-CreERT2 line will be a new tool to assess cell fates and analyze gene function in the anterior limb, mesonephros, and nephric duct.
Orexin-A Intensifies Mouse Pupillary Light Response by Modulating Intrinsically Photosensitive Retinal Ganglion Cells

The Journal of neuroscience : the official journal of the Society for Neuroscience

2021 Feb 02

Zhou, W;Wang, LQ;Shao, YQ;Han, X;Yu, CX;Yuan, F;Wang, X;Weng, SJ;Zhong, YM;Yang, XL;
PMID: 33536197 | DOI: 10.1523/JNEUROSCI.0217-20.2021

We show for the first time that the neuropeptide orexin modulates pupillary light response (PLR), a non-image forming visual function, in mice of either sex. Intravitreal injection of the orexin receptor (OXR) antagonist TCS1102 and orexin-A reduced and enhanced pupillary constriction in response to light, respectively. Orexin-A activated OX1Rs on M2-type intrinsically photosensitive retinal ganglion cells (ipRGCs) (M2 cells), and caused membrane depolarization of these cells by modulating inward rectifier potassium channels and non-selective cation channels, thus resulting in an increase in intrinsic excitability. The increased intrinsic excitability could account for the orexin-A-evoked increase in spontaneous discharges and light-induced spiking rates of M2 cells, leading to an intensification of pupillary constriction. Orexin-A did not alter the light response of M1 cells, which could be due to no or weak expression of OX1Rs on them, as revealed by RNAscope in situ hybridization. In sum, orexin-A is likely to decrease the pupil size of mice by influencing M2 cells, thereby improving visual performance in awake mice via enhancing the focal depth of the eye's refractive system.SIGNIFICANCE STATEMENTThis study reveals the role of the neuropeptide orexin in mouse pupillary light response (PLR), a non-image forming visual function. Intravitreal orexin-A administration intensifies light-induced pupillary constriction via increasing the excitability of M2 intrinsically photosensitive retinal ganglion cells (ipRGCs) by activating the orexin receptor subtype OX1R. Modulation of inward rectifier potassium channels and non-selective cation channels were both involved in the ionic mechanisms underlying such intensification. Orexin could improve visual performance in awake mice by reducing the pupil size and thereby enhancing the focal depth of the eye's refractive system.
Early Release-Novel Morbillivirus as Putative Cause of Fetal Death and Encephalitis among Swine

wwwnc.cdc.gov

2021 Jan 01

Arruda, B;Shen, H;Zheng, Y;Li, G;

[Histologic lesions and porcine morbillivirus (PoMV) RNA in situ hybridization (ISH, red) of tissue of infected swine. A) Histologic section of cerebrum from fetus A stained by hematoxylin and eosin. Arrowheads indicate neuronal necrosis; arrows indicate mineralization and viral inclusion bodies in a neuron and glial cell. B) Cerebellum of fetus A with extensive detection of PoMV by ISH. C) Cerebrum of fetus A; arrowheads indicate ISH labeling within the cytoplasmic and nuclear compartment of neurons; arrow indicates ISH labelling in an axon. D) Cerebrum of fetus B; arrows indicate multiple viral inclusion bodies in neurons; inset displays satellitosis. E) Cerebrum of fetus B showing extensive PoMV detection by ISH. Arrowheads indicate the border of white and gray matter. F) Detection of PoMV by ISH in the spleen of fetus C. G) Detection of PoMV by ISH in a placenta from litter D; arrowhead indicates allantoic epithelium. H) Detection of PoMV by ISH in a renal vessel of a fetus from litter D; arrows indicate the endothelium and arrowhead indicates the vessel lumen. I) Detection of PoMV by ISH in conducting airways (arrowheads) and alveolar septa in the lung of fetus from litter E. J) Detection of PoMV by ISH in the allantoic connective tissue of the placenta and leukocytes from litter F; arrowhead indicates infiltration of leukocytes.] Figure 2 [/eid/article/27/7/20-3971-f2]. Histologic lesions and porcine morbillivirus (PoMV) RNA in situ hybridization (ISH, red) of tissue of infected swine. A) Histologic section of cerebrum from fetus A stained by hematoxylin and eosin....
The 27th Scientific Conference of the Society on NeuroImmune Pharmacology: New Delhi, India, March 15-18, 2023

NeuroImmune Pharmacology and Therapeutics

2023 Apr 10

Chang, S;Seth, P;Zhu, J;Pendyala, G;Bidlack, J;Kumar, S;
| DOI: 10.1515/nipt-2023-0006

The 27th Scientific Conference of the Society on Neuroimmune Pharmacology (SNIP) in New Delhi, India, on March 15-18, 2023 is a historic summit of experts from around the world. The four day conference provides insights into the latest and most advanced science in the intersecting areas of neuroscience, immunology, pharmacology, and its translational aspects, in particular, HIV and drug abuse. Abstracts are ordered in three major groups: (1) Symposium speakers (S1-S64), (2) Investigator Posters (I1-I18), and (3) Trainee Poster (T1-T28).
The role of single-cell sequencing in studying tumour evolution

Faculty reviews

2021 May 26

Mossner, M;Baker, AC;Graham, TA;
PMID: 34131659 | DOI: 10.12703/r/10-49

Tumour evolution is a complex interplay between the acquisition of somatic (epi)genomic changes in tumour cells and the phenotypic consequences they cause, all in the context of a changing microenvironment. Single-cell sequencing offers a window into this dynamic process at the ultimate resolution of individual cells. In this review, we discuss the transformative insight offered by single-cell sequencing technologies for understanding tumour evolution.
Chronic loss of muscarinic M5 receptor function manifests disparate impairments in exploratory behavior in male and female mice despite common dopamine regulation

The Journal of neuroscience : the official journal of the Society for Neuroscience

2022 Jul 26

Razidlo, JA;Fausner, SML;Ingebretson, AE;Wang, LC;Petersen, CM;Mirza, S;Swank, IN;Alvarez, VA;Lemos, JC;
PMID: 35896424 | DOI: 10.1523/JNEUROSCI.1424-21.2022

There are five cloned muscarinic acetylcholine receptors (M1-M5). Of these, the muscarinic type 5 receptor (M5) is the only one localized to dopamine neurons in the ventral tegmental area and substantia nigra. Unlike M1-M4, the M5 receptor has relatively restricted expression in the brain, making it an attractive therapeutic target. Here we performed an in-depth characterization of M5-dependent potentiation of dopamine transmission in the nucleus accumbens and accompanying exploratory behaviors in male and female mice. We show that M5 receptors potentiate dopamine transmission by acting directly on the terminals within the nucleus accumbens. Using the muscarinic agonist oxotremorine, we revealed a unique concentration-response curve and a sensitivity to repeated forced swim stress or restraint stress exposure. We found that constitutive deletion of M5 receptors reduced exploration of the center of an open field while at the same time impairing normal habituation only in male mice. In addition, M5 deletion reduced exploration of salient stimuli, especially under conditions of high novelty, yet had no effect on hedonia assayed using the sucrose preference test or on stress coping strategy assayed using the forced swim test. We conclude that M5 receptors are critical for both engaging with the environment and updating behavioral output in response to environment cues, specifically in male mice. A cardinal feature of mood and anxiety disorders is withdrawal from the environment. These data indicate that boosting M5 receptor activity may be a useful therapeutic target for ameliorating these symptoms of depression and anxiety.Significance Statement:The basic physiological and behavioral functions of the muscarinic M5 receptor remain understudied. Furthermore, its presence on dopamine neurons, relatively restricted expression in the brain, and recent crystallization make it an attractive target for therapeutic development. Yet, most preclinical studies of M5 receptor function have primarily focused on substance use disorders in male rodents. Here we characterized the role of M5 receptors in potentiating dopamine transmission in the nucleus accumbens, finding impaired functioning after stress exposure. Furthermore, we show that M5 receptors can modulate exploratory behavior in a sex-specific manner, without impacting hedonic behavior. These findings further illustrate the therapeutic potential of the M5 receptor, warranting further research in the context of treating mood disorders.
887P Final results and biomarker analysis from a phase I dose-expansion (part II) study of ISU104 (barecetamab; a novel anti-ErbB3) monotherapy or in combination with cetuximab (CET), in patients (pts) with recurrent/metastatic (R/M) head and neck squamous cell carcinoma (HNSCC)

Annals of Oncology

2021 Sep 01

Kim, S;Keam, B;Shin, S;Chae, Y;Seo, S;Park, K;Kim, T;Park, L;Hong, S;Ahn, M;
| DOI: 10.1016/j.annonc.2021.08.1297

Background Following a dose-escalation study, a dose-expansion study for ISU104 (monotherapy and combination therapy with CET) has been conducted in R/M HNSCC (Ann Oncol, abst #928P, 2020). Here we report updated final safety, clinical efficacy and biomarker analysis results from the dose-expansion study. Methods Eighteen R/M HNSCC pts excluding nasopharyngeal cancer, were enrolled and allocated to Mono (ISU104, 20 mg/kg/day, Q3W; N=6) or Combo groups (ISU104 20 mg/kg, Q3W and CET, initially 400 mg/m2 followed by 250 mg/m2, Q1W; N=12). Tumor response assessments (RECIST 1.1), safety and occurrence of anti-drug antibodies (ADA) were determined. Immunohistochemistry, RNAscope™ Assay-based in situ hybridization (ISH) and next generation sequencing were performed on sections of biopsy samples. Results Most common treatment emergent adverse events (AEs) included decreased appetite (66.7%) and stomatitis (50%) in Mono, and diarrhea (75.0%) and dermatitis acneiform (50%) in Combo. Serious AEs were reported 16.7% in Mono and 58.33% in Combo, but no AEs led to treatment discontinuation. One patient (1/18, 5.56%) developed ADA, which did not have neutralizing activity. Four pts in Combo were responsive to treatment (1 CR and 3 PR out of 11 analyzed pts; 36.36%); one patient remained CR up to now. Duration of responses were 46, 62, 163+ and 449+ days in Combo, and median progression-free survival was 54 and 99 days in Mono and Combo groups, respectively, in median follow-up period of 480 days (as of 30th April 2021). H-scores of potential biomarkers including EGFR-ISH at pre-treatment were correlated with tumor size changes following combination therapy. Potential implication of TP53 mutations and EGFR amplification in patient selection was also noted. Conclusions ISU104 alone or in combination with CET were safe and tolerable in R/M HNSCC pts. Encouraging clinical efficacies and potential biomarkers were demonstrated from combination therapy. A phase II study of ISU104 (Q3W, 20 mg/kg/day) in combination with CET (Q1W) is planned to further strengthen the clinical utility of ISU104.
Semaphorin-6D and Plexin-A1 act in a non-cell autonomous manner to position and target retinal ganglion cell axons

The Journal of neuroscience : the official journal of the Society for Neuroscience

2023 Jun 16

Prieur, DS;Francius, C;Gaspar, P;Mason, CA;Rebsam, A;
PMID: 37344233 | DOI: 10.1523/JNEUROSCI.0072-22.2023

Semaphorins and Plexins form ligand/receptor pairs that are crucial for a wide range of developmental processes from cell proliferation to axon guidance. The ability of semaphorins to act both as signaling receptors and ligands yields a multitude of responses. Here, we describe a novel role for Semaphorin-6D (Sema6D) and Plexin-A1 in the positioning and targeting of retinogeniculate axons. In Plexin-A1 or Sema6D mutant mice of either sex, the optic tract courses through rather than at the border of the dorsolateral geniculate nucleus (dLGN); and some retinal axons ectopically arborize adjacent and lateral to the optic tract rather than defasciculating and entering the target region. We find that Sema6D and Plexin-A1 act together and in a dose-dependent manner, as the number of the ectopic retinal projections is altered in proportion to the level of Sema6D or Plexin-A1 expression. Moreover, using retinal in utero electroporation of Sema6D or Plexin-A1 shRNA, we show that Sema6D and Plexin-A1 are both required in retinal ganglion cells (RGCs) for axon positioning and targeting. Strikingly, non-electroporated RGC axons also mistarget in the tract region, indicating that Sema6D and Plexin-A1 can act non-cell autonomously, potentially through axon-axon interactions. These data provide novel evidence for a dose-dependent and non-cell autonomous role for Sema6D and Plexin-A1 in retinal axon organization in the optic tract and dLGN.SIGNIFICANCE STATEMENT:Before innervating their central brain targets, retinal ganglion cell (RGC) axons fasciculate in the optic tract then branch and arborize in their target areas. Upon deletion of the guidance molecules Plexin-A1 or Semaphorin-6D, the optic tract becomes disorganized near and extends within the dorsal lateral geniculate nucleus. In addition, some retinal axons form ectopic aggregates within the defasciculated tract. Sema6D and Plexin-A1 act together as a receptor-ligand pair in a dose-dependent manner, and non-cell autonomously, to produce this developmental aberration. Such a phenotype highlights an under-appreciated role for axon guidance molecules in tract cohesion and appropriate defasciculation near and arborization within targets.
Similar programmed death ligand 1 (PD-L1) expression profile in patients with mild COPD and lung cancer

Scientific reports

2022 Dec 27

Polverino, F;Mirra, D;Yang, CX;Esposito, R;Spaziano, G;Rojas-Quintero, J;Sgambato, M;Piegari, E;Cozzolino, A;Cione, E;Gallelli, L;Capuozzo, A;Santoriello, C;Berrino, L;de-Torres, JP;Hackett, TL;Polverino, M;D'Agostino, B;
PMID: 36575294 | DOI: 10.1038/s41598-022-26650-9

Programmed Death Ligand 1 (PD-L1) is crucial in regulating the immunological tolerance in non-small cell lung cancer (NSCLC). Alveolar macrophage (AM)-derived PD-L1 binds to its receptor, PD-1, on surveilling lymphocytes, leading to lymphocyte exhaustion. Increased PD-L1 expression is associated with cigarette smoke (CS)-exposure. However, the PD-L1 role in CS-associated lung diseases associated with NSCLC, such as chronic obstructive pulmonary disease (COPD), is still unclear. In two different cohorts of ever smokers with COPD or NSCLC, and ever and never smoker controls, we evaluated PD-L1 expression: (1) via cutting-edge digital spatial proteomic and transcriptomic profiling (Geomx) of formalin-fixed paraffin-embedded (FFPE) lung tissue sections (n = 19); and (2) via triple immunofluorescence staining of bronchoalveolar lavage (BAL) AMs (n = 83). PD-L1 mRNA expression was also quantified in BAL AMs exposed to CS extract. PD-L1 expression was increased in the bronchiolar wall, parenchyma, and vascular wall from mild-moderate (GOLD 1-2) COPD patients compared to severe-very severe (GOLD 3-4) COPD patients and controls. Within all the COPD patients, PD-L1 protein expression was associated with upregulation of genes involved in tumor progression and downregulation of oncosuppressive genes, and strongly directly correlated with the FEV1% predicted, indicating higher PD-L1 expression in the milder vs. more severe COPD stages. In bronchioles, PD-L1 levels were strongly directly correlated with the number of functionally active AMs. In BAL, we confirmed that AMs from patients with both GOLD 1-2 COPD and NSCLC had the highest and similar, PD-L1 expression levels versus all the other groups, independently from active cigarette smoking. Intriguingly, AMs from patients with more severe COPD had reduced AM PD-L1 expression compared to patients with mild COPD. Acute CS extract stimulation increased PD-L1 mRNA expression only in never-and not in ever-smoker AMs. Lungs from patients with mild COPD and NSCLC are characterized by a similar strong PD-L1 expression signature in bronchioles and functionally active AMs compared to patients with severe COPD and controls. Active smoking does not affect PD-L1 levels. These observations represent a new resource in understanding the innate immune mechanisms underlying the link between COPD and lung cancer onset and progression and pave the way to future studies focused on the mechanisms by which CS promotes tumorigenesis and COPD.
Early inflammation dysregulates neuronal circuit formation in vivo via upregulation of IL-1β

The Journal of neuroscience : the official journal of the Society for Neuroscience

2021 Jun 08

Solek, CM;Farooqi, NAI;Brake, N;Kesner, P;Schohl, A;Antel, JP;Ruthazer, ES;
PMID: 34103360 | DOI: 10.1523/JNEUROSCI.2159-20.2021

Neuro-immune interaction during development is strongly implicated in the pathogenesis of neurodevelopmental disorders, but the mechanisms that cause neuronal circuit dysregulation are not well understood. We performed in vivo imaging of the developing retinotectal system in the larval zebrafish to characterize the effects of immune system activation on refinement of an archetypal sensory processing circuit. Acute inflammatory insult induced hyper-dynamic remodeling of developing retinal axons in larval fish and increased axon arbor elaboration over days. Using calcium imaging in GCaMP6s transgenic fish we showed that these morphological changes were accompanied by a shift toward decreased visual acuity in tectal cells. This finding was supported by poorer performance in a visually guided behavioral task. We further found that the pro-inflammatory cytokine, interleukin-1β (IL-1β) is upregulated by the inflammatory insult, and that down-regulation of IL-1β abrogated the effects of inflammation on axonal dynamics and growth. Moreover, baseline branching of the RGC arbors in IL-1β morphant animals was significantly different from that in control larvae, and their performance in a predation assay was impaired, indicating a role for this cytokine in normal neuronal development. This work establishes a simple and powerful non-mammalian model of developmental immune activation and demonstrates a role for IL-1β in mediating the pathological effects of inflammation on neuronal circuit development.SIGNIFICANCE STATEMENTMaternal immune activation (MIA) can increase the risk of neurodevelopmental disorders in offspring, however the mechanisms involved are not fully understood. Using a non-mammalian vertebrate model of developmental immune activation, we show that even brief activation of inflammatory pathways has immediate and long-term effects on the arborization of axons, and that these morphological changes have functional and behavioral consequences. Finally, we show that the pro-inflammatory cytokine IL-1β plays an essential role in both the effects of inflammation on circuit formation and normal axonal development. Our data add to a growing body of evidence supporting epidemiological studies linking immune activation to neurodevelopmental disorders, and help shed light on the molecular and cellular processes that contribute to the etiology of these disorders.
Metastasis-associated macrophages constrain antitumor capability of natural killer cells in the metastatic site at least partially by membrane bound transforming growth factor β

Journal for immunotherapy of cancer

2021 Jan 01

Brownlie, D;Doughty-Shenton, D;Yh Soong, D;Nixon, C;O Carragher, N;M Carlin, L;Kitamura, T;
PMID: 33472858 | DOI: 10.1136/jitc-2020-001740

Metastatic breast cancer is a leading cause of cancer-related death in women worldwide. Infusion of natural killer (NK) cells is an emerging immunotherapy for such malignant tumors, although elimination of the immunosuppressive tumor environment is required to improve its efficacy. The effects of this "metastatic" tumor environment on NK cells, however, remain largely unknown. Previous studies, including our own, have demonstrated that metastasis-associated macrophages (MAMs) are one of the most abundant immune cell types in the metastatic tumor niche in mouse models of metastatic breast cancer. We thus investigated the effects of MAMs on antitumor functions of NK cells in the metastatic tumor microenvironment. MAMs were isolated from the tumor-bearing lung of C57BL/6 mice intravenously injected with E0771-LG mouse mammary tumor cells. The effects of MAMs on NK cell cytotoxicity towards E0771-LG cells were evaluated in vitro by real-time fluorescence microscopy. The effects of MAM depletion on NK cell activation, maturation, and accumulation in the metastatic lung were evaluated by flow cytometry (CD69, CD11b, CD27) and in situ hybridization (Ncr1) using colony-stimulating factor 1 (CSF-1) receptor conditional knockout (Csf1r-cKO) mice. Finally, metastatic tumor loads in the chest region of mice were determined by bioluminescence imaging in order to evaluate the effect of MAM depletion on therapeutic efficacy of endogenous and adoptively transferred NK cells in suppressing metastatic tumor growth. MAMs isolated from the metastatic lung suppressed NK cell-induced tumor cell apoptosis in vitro via membrane-bound transforming growth factor β (TGF-β) dependent mechanisms. In the tumor-challenged mice, depletion of MAMs increased the percentage of activated (CD69+) and mature (CD11b+CD27-) NK cells and the number of Ncr1+ NK cells as well as NK cell-mediated tumor rejection in the metastatic site. Moreover, MAM depletion or TGF-β receptor antagonist treatment significantly enhanced the therapeutic efficacy of NK cell infusion in suppressing early metastatic tumor outgrowth. This study demonstrates that MAMs are a main negative regulator of NK cell function within the metastatic tumor niche, and MAM targeting is an attractive strategy to improve NK cell-based immunotherapy for metastatic breast cancer.

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X
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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