PAX8 in the Junction between Development and Tumorigenesis

Kakun, Reli Rachel; Melamed, Zohar; Perets, Ruth

doi:10.3390/ijms23137410

Cited by 12 publications

(5 citation statements)

References 159 publications

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“…In addition, we used a rabbit polyclonal anti‐Pax8 antibody (10336‐1‐AP, Proteintech Group, Rosemont, IL, USA; ) to double‐label Pax8 with the mouse anti‐p21 antibody F‐5. Because this polyclonal antibody was raised against the N‐terminal paired domain of Pax8, which is highly homologous among Pax proteins, it may also recognize other Pax family members such as Pax2, Pax5, and Pax6 79 . However, since Pax2 is effectively downregulated in epibranchial placodes and compensated by Pax8 from E10.5, 25 and since the other Pax proteins are not present in these placodes (our unpublished data), we can exclude relevant reactivity other than Pax8 in our application.…”

Section: Methodsmentioning

confidence: 99%

Patterns of senescence and apoptosis during development of branchial arches, epibranchial placodes, and pharyngeal pouches

Washausen

Knabe

2023

Developmental Dynamics

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BackgroundMany developmental processes are coregulated by apoptosis and senescence. However, there is a lack of data on the development of branchial arches, epibranchial placodes, and pharyngeal pouches, which harbor epibranchial signaling centers.ResultsUsing immunohistochemical, histochemical, and 3D reconstruction methods, we show that in mice, senescence and apoptosis together may contribute to the invagination of the branchial clefts and the deepening of the cervical sinus floor, in antagonism to the proliferation acting in the evaginating branchial arches. The concomitant apoptotic elimination of lateral line rudiments occurs in the absence of senescence. In the epibranchial placodes, senescence and apoptosis appear to (1) support invagination or at least indentation by immobilizing the margins of the centrally proliferating pit, (2) coregulate the number and fate of Pax8+ precursors, (3) progressively narrow neuroblast delamination sites, and (4) contribute to placode regression. Putative epibranchial signaling centers in the pharyngeal pouches are likely deactivated by rostral senescence and caudal apoptosis.ConclusionsOur results reveal a plethora of novel patterns of apoptosis and senescence, some overlapping, some complementary, whose functional contributions to the development of the branchial region, including the epibranchial placodes and their signaling centers, can now be tested experimentally.

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Section: Methodsmentioning

confidence: 99%

Patterns of senescence and apoptosis during development of branchial arches, epibranchial placodes, and pharyngeal pouches

Washausen

Knabe

2023

Developmental Dynamics

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“…Nos dois modelos, os valores de SHAP estavam associados a todas as classes de tumor, sendo os maiores valores referentes ao OV, BRCA e THCA. O PAX8 é um fator de transcric ¸ão que atua no desenvolvimento embrionário da tireoide, rins e tratos genitais masculinos e femininos [49]. Recentemente, diversos trabalhos estão mostrando o papel de PAX8 no câncer de ovário [50], [51] e no câncer de mama [52].…”

Section: A Características Selecionadas Pela Técninca Shapunclassified

IA explicável aplicada para identificar genes influentes na classificação do câncer por meio de dados de expressão gênica de RNA-Seq

Azevedo,

Souza,

Dalmolin

et al. 2023

Anais Do XVI Congresso Brasileiro De Inteligência Computacional

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Este artigo faz uso de três técnicas de aprendizagem de máquina (Machine Learnig – ML) para classificar os cinco tipos de câncer mais recorrentes em mulheres, a partir de dados de expressão gênica de RNA-Seq. Os desafios incluem: alta dimensionalidade do conjunto de dados e a falta de transparência dos modelos de ML. Para mitigar esses problemas, foi utilizado a técnica SHAP (SHapley Additive exPlanations) que e uma técnica de inteligência artificial explicável (Explainable artificial intelligence – XAI) utilizada para compreender como esses modelos tomam decisões podendo ser usada como uma estratégia para a seleção de recursos. Como entrada, foram utilizadas 2.105 amostras, sendo 421 amostras referentes a cada tumor, processadas pelos modelos Arvore de Decisão (Decision Tree- DT), Floresta Aleatoria (Random Forest-RF) e Aumento de Gradiente Extremo (eXtreme Gradient Boosting-XGB) treinadas e validadas por meio da técnica de validação cruzada. Os modelos RF, DT e XGB alcançaram precisões de 99, 40%, 97, 60% e 99, 34%. Posteriormente, a técnica SHAP foi utilizada para obter uma lista de recursos visando compreender quais características influenciaram nas tomadas de decisões dos modelos e consequentemente, nos resultados de predição dos cinco tumores. 122, 90 e 11 genes foram obtidos nos modelos RF, XGB e DT, totalizando 223 resultando em 194 genes únicos.

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“…PAX8, a member of paired box gene (PAX) family, is a transcription factor and essential for embryonic development of kidney, Müllerian duct and thyroid [ [8] , [9] , [10] ]. PAX8 is expressed in tumors such as pancreatic well-differentiated neuroendocrine tumor, rectal cancer, gastric cancer, and so forth [ 9 , [11] , [12] , [13] , [14] , [15] , [16] ].…”

Section: Introductionmentioning

confidence: 99%