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Probes for NODAL

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

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The spatio-temporal evolution of lymph node spread in early breast cancer

Clin Cancer Res.

2018 Jun 11

Barry P, Vatsiou A, Spiteri I, Nichol D, Cresswell GD, Acar A, Trahearn NA, Hrebien S, Garcia-Murillas I, Chkhaidze K, Ermini L, Said Huntingford I, Cottom H, Zabaglo L, Koelble K, Khalique S, Rusby JE, Muscara F, Dowsett M, Maley CC, Natrajan R, Yuan Y,
PMID: 29891724 | DOI: 10.1158/1078-0432.CCR-17-3374

Abstract

PURPOSE:

The most significant prognostic factor in early breast cancer is lymph node involvement. This stage between localised and systemic disease is key to understanding breast cancer progression, however our knowledge of the evolution of lymph node malignant invasion remains limited, as most currently available data derive from primary tumours.

EXPERIMENTAL DESIGN:

In 11 treatment-naïve node positive early breast cancer patients without clinical evidence of distant metastasis, we investigated lymph node evolution using spatial multi-region sequencing (n=78 samples) of primary and lymph node deposits and genomic profiling of matched longitudinal circulating tumour DNA (ctDNA).

RESULTS:

Linear evolution from primary to lymph node was rare (1/11) whereas the majority of cases displayed either early divergence between primary and nodes (4/11), or no detectable divergence (6/11) where both primary and nodal cells belonged to a single recent expansion of a metastatic clone. Divergence of metastatic subclones was driven in part by APOBEC. Longitudinal ctDNA samples from 2 of 7 subjects with evaluable plasma taken peri-operatively reflected the two major evolutionary patterns and demonstrate that private mutations can be detected even from early metastatic nodal deposits. Moreover, node removal resulted in disappearance of private lymph node mutations in ctDNA.

CONCLUSIONS:

This study sheds new light on a crucial evolutionary step in the natural history of breast cancer, demonstrating early establishment of axillary lymph node metastasis in a substantial proportion of patients.

Low Grade Papillary Sinonasal (Schneiderian) Carcinoma: A Series of Five Cases of a Unique Malignant Neoplasm with Comparison to Inverted Papilloma and Conventional Nonkeratinizing Squamous Cell Carcinoma

Head and neck pathology

2021 May 26

Saab-Chalhoub, MW;Guo, X;Shi, Q;Chernock, RD;Lewis, JS;
PMID: 34041710 | DOI: 10.1007/s12105-021-01335-3

There have been a few case reports and one small series of low grade papillary sinonasal (Schneiderian) carcinomas (LGPSC) which mimic papillomas but have overtly invasive growth and which occasionally metastasize. We describe the morphologic, clinical, immunohistochemical, and molecular features of five patients with LGPSC compared with eight cases each of inverted papilloma (IP) and conventional nonkeratinizing squamous cell carcinoma (SCC) with papillary growth. All LGPSC were nested with predominantly pushing invasion, no stromal reaction, and frequent surface papillary growth. All consisted of one cell type only, with polygonal cells with round nuclei, no (or limited) cytologic atypia, low mitotic activity, and prominent neutrophilic infiltrate. One patient had slightly more infiltrative bone invasion, another lymphovascular, perineural, and skeletal muscle invasion, and a third nodal metastasis after 17 years. By comparison, IPs had bland cytology, neutrophilic microabscesses, mixed immature squamous, goblet cell, and respiratory epithelium, and extremely low mitotic activity. Nonkeratinizing SCCs had basaloid-appearing cells with nuclear pleomorphism, brisk mitotic activity, and apoptosis. All LGPSC were p63 positive. Mitotic activity and Ki67 indices were significantly higher for LGPSCs than IPs and significantly lower than NKSCCs, while p53 immunohistochemistry in LGPSC was identical to nonkeratinizing SCC and higher than for IP. Sequencing showed all five tumors to harbor a MUC6 mutation, one tumor to harbor CDKN2A and PIK3R1 mutations, and one tumor to harbor a NOTCH1 mutation. All LGPSC lacked EGFR and KRAS mutations and lacked copy number variations of any main cancer genes. At a median follow up of 12 months, two LGPSC recurred locally, and one patient died after massive local recurrences and nodal metastases. LGPSC is a distinct, de novo sinonasal carcinoma that can be differentiated from papillomas by morphology and selected immunohistochemistry.
Sex-specific pubertal and metabolic regulation of Kiss1 neurons via Nhlh2

eLife

2021 Sep 08

Leon, S;Talbi, R;McCarthy, EA;Ferrari, K;Fergani, C;Naule, L;Choi, JH;Carroll, RS;Kaiser, UB;Aylwin, CF;Lomniczi, A;Navarro, VM;
PMID: 34494548 | DOI: 10.7554/eLife.69765

Hypothalamic Kiss1 neurons control gonadotropin-releasing hormone release through the secretion of kisspeptin. Kiss1 neurons serve as a nodal center that conveys essential regulatory cues for the attainment and maintenance of reproductive function. Despite this critical role, the mechanisms that control kisspeptin synthesis and release remain largely unknown. Using Drop-Seq data from the arcuate nucleus of adult mice and in situ hybridization, we identified Nescient Helix-Loop-Helix 2 (Nhlh2), a transcription factor of the basic helix-loop-helix family, to be enriched in Kiss1 neurons. JASPAR analysis revealed several binding sites for NHLH2 in the Kiss1 and Tac2 (neurokinin B) 5' regulatory regions. In vitro luciferase assays evidenced a robust stimulatory action of NHLH2 on human KISS1 and TAC3 promoters. The recruitment of NHLH2 to the KISS1 and TAC3 promoters was further confirmed through chromatin immunoprecipitation. In vivo conditional ablation of Nhlh2 from Kiss1 neurons using Kiss1Cre:Nhlh2fl/fl mice induced a male-specific delay in puberty onset, in line with a decrease in arcuate Kiss1 expression. Females retained normal reproductive function albeit with irregular estrous cycles. Further analysis of male Kiss1Cre:Nhlh2fl/fl mice revealed higher susceptibility to metabolic challenges in the release of luteinizing hormone and impaired response to leptin. Overall, in Kiss1 neurons, Nhlh2 contributes to the metabolic regulation of kisspeptin and NKB synthesis and release, with implications for the timing of puberty onset and regulation of fertility in male mice.
Long Noncoding RNA NEAT1: A Potential Biomarker in the Progression of Laryngeal Squamous Cell Carcinoma

ORL; journal for oto-rhino-laryngology and its related specialties

2021 Apr 08

Wang, P;Li, QY;Sun, YN;Wang, JT;Liu, M;
PMID: 33831864 | DOI: 10.1159/000515228

Laryngeal squamous cell carcinoma (LSCC) is diverse in its natural history and responsiveness to treatments. There is an urgent need to generate candidate biomarkers for the stratification and individualization of treatment to avoid overtreatment or inadequate treatment. Long noncoding RNA nuclear paraspeckle assembly transcript 1 (NEAT1) has been identified as an oncogenic gene in multiple human tumors entitles, and dysregulation of NEAT1 was tightly linked to carcinogenesis and cancer progression. One hundred two paraffin samples of LSCC patients were collected. Furthermore, in situ hybridization (ISH), Kaplan-Meier, and MTT were used to analyze the relationship between NEAT1 and the progress of LSCC. In this study, ISH revealed that NEAT1 was strongly expressed in the nucleus. The increased expression of NEAT1 was correlated with T grade, neck nodal metastasis, clinical stage, drinking history, or smoking history of LSCC. The Kaplan-Meier analysis indicated that patients with higher NEAT1 expression had a worse overall survival in LSCC patients. In addition, NEAT1 knockdown significantly inhibited the growth of LSCC cells. Together, these results suggested that NEAT1 involved in the progress of LSCC and might act as a tumor oncogenic gene. This study provides a potential new marker and target for gene therapy in the treatment of LSCC.
Clinicopathological features of adult T-cell leukemia/lymphoma with HTLV-1–infected Hodgkin and Reed-Sternberg–like cells

Blood Advanced

2021 Jan 01

Karube, K;Takatori, M;Sakihama, S;Tsuruta, Y;
| DOI: 10.1182/bloodadvances.2020003201

HBZ-ISH was performed to detect HTLV-1 in tissue specimens from 21 HTLV-1–seropositive cases with CHL-like morphology (supplemental Table 1). Three cases were nonevaluable due to negativity for the positive control (_PPIB_). HRS-like cells were negative for HBZ-ISH in 10 cases. Among them, 3 cases showed HRS-like cells positive for EBER-ISH and/or PAX5 as well as monoclonal TCR-γ chain gene rearrangement or loss of pan-T-cell antigens in the background cells, corresponding to the currently recognized pathological features of Hodgkin-like ATLL.16,17  Thus, 8 cases, including a recently described case (case 1)19  with a positive HBZ-ISH signal in HRS-like cells, were considered to be ATLL with HTLV-1–infected HRS-like cells. The clinical characteristics of these cases are shown in Table 1. The median age of the patients (4 males and 4 females) was 73 years (range, 55-81 years). All patients showed nodal or mediastinal lesions. Five patients (63%) were in an advanced stage of disease (Ann Arbor stage III or IV) at presentation. Bone marrow and hepatosplenic involvement was observed in 3 and 2 cases, respectively, but no other extranodal lesions were present in any of the cases. All patients except for case 6, who was treated with palliative care because of the co-occurrence of severe liver cirrhosis, received systemic combination chemotherapy. Two patients (cases 1 and 3) were mainly treated with ABVD, a standard therapy for CHL, and 5 patients were treated with a combination chemotherapy regimen such as CHOP. All cases, with enough follow-up period, treated with chemotherapy achieved complete remission, except for case 4, but a longer remission (>2 years) was achieved in 2 patients treated with CHOP. One patient (case 4) had been followed up for chronic-type ATLL before lymph node biopsy. This patient had very high serum levels of soluble interleukin-2 receptor, a prognostic biomarker for poor outcome,8  was refractory to systemic chemotherapy, and died 3 months after diagnosis (Table 1).
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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