Julio Sainz de Aja
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View article: COOBoostR: an extreme gradient boosting-based tool for robust tissue or cell-of-origin prediction of tumors
COOBoostR: an extreme gradient boosting-based tool for robust tissue or cell-of-origin prediction of tumors Open
We here present COOBoostR ( https://github.com/SWJ9385/COOBoostR ), a computational method designed for the putative prediction of tissue-or cell-of-origin of various cancer types. COOBoostR leverages regional somatic mutation density info…
View article: Pluripotency factors regulate the onset of <i>Hox</i> cluster activation in the early embryo
Pluripotency factors regulate the onset of <i>Hox</i> cluster activation in the early embryo Open
Pluripotent cells are a transient population of the mammalian embryo dependent on transcription factors, such as OCT4 and NANOG, which maintain pluripotency while suppressing lineage specification. However, these factors are also expressed…
View article: Air-liquid interface culture promotes maturation and allows environmental exposure of pluripotent stem cell–derived alveolar epithelium
Air-liquid interface culture promotes maturation and allows environmental exposure of pluripotent stem cell–derived alveolar epithelium Open
Type 2 alveolar epithelial cells (AT2s), facultative progenitor cells of the lung alveolus, play a vital role in the biology of the distal lung. In vitro model systems that incorporate human cells, recapitulate the biology of primary AT2s,…
View article: The oral drug nitazoxanide restricts SARS-CoV-2 infection and attenuates disease pathogenesis in Syrian hamsters
The oral drug nitazoxanide restricts SARS-CoV-2 infection and attenuates disease pathogenesis in Syrian hamsters Open
A well-tolerated and cost-effective oral drug that blocks SARS-CoV-2 growth and dissemination would be a major advance in the global effort to reduce COVID-19 morbidity and mortality. Here, we show that the oral FDA-approved drug nitazoxan…
View article: SARS-CoV-2 infection of primary human lung epithelium for COVID-19 modeling and drug discovery
SARS-CoV-2 infection of primary human lung epithelium for COVID-19 modeling and drug discovery Open
View article: Alveolar progenitor cells and the origin of lung cancer
Alveolar progenitor cells and the origin of lung cancer Open
Lung Cancer is the leading cause of cancer‐related deaths worldwide. This is mainly due to late diagnosis and therefore advanced stage of the disease. Understanding the cell of origin of cancer and the processes that lead to its transforma…
View article: Organoids Model Transcriptional Hallmarks of Oncogenic KRAS Activation in Lung Epithelial Progenitor Cells
Organoids Model Transcriptional Hallmarks of Oncogenic KRAS Activation in Lung Epithelial Progenitor Cells Open
View article: SARS-CoV-2 infection of primary human lung epithelium for COVID-19 modeling and drug discovery
SARS-CoV-2 infection of primary human lung epithelium for COVID-19 modeling and drug discovery Open
Coronavirus disease 2019 (COVID-19) is the latest respiratory pandemic resulting from zoonotic transmission of severe acute respiratory syndrome-related coronavirus 2 (SARS-CoV-2). Severe symptoms include viral pneumonia secondary to infec…
View article: May the (Mechanical) Force Be with AT2
May the (Mechanical) Force Be with AT2 Open
View article: <i>Nanog</i> regulates <i>Pou3f1</i> expression at the exit from pluripotency during gastrulation
<i>Nanog</i> regulates <i>Pou3f1</i> expression at the exit from pluripotency during gastrulation Open
Pluripotency is regulated by a network of transcription factors that maintain early embryonic cells in an undifferentiated state while allowing them to proliferate. NANOG is a critical factor for maintaining pluripotency and its role in pr…
View article: Transitions in cell potency during early mouse development are driven by Notch
Transitions in cell potency during early mouse development are driven by Notch Open
The Notch signalling pathway plays fundamental roles in diverse developmental processes in metazoans, where it is important in driving cell fate and directing differentiation of various cell types. However, we still have limited knowledge …
View article: <i>Nanog</i> regulates <i>Pou3f1</i> expression and represses anterior fate at the exit from pluripotency
<i>Nanog</i> regulates <i>Pou3f1</i> expression and represses anterior fate at the exit from pluripotency Open
Pluripotency is regulated by a network of transcription factors that maintains early embryonic cells in an undifferentiated state while allowing them to proliferate. NANOG is a critical factor for maintaining pluripotency and its role in p…
View article: Author response: Transitions in cell potency during early mouse development are driven by Notch
Author response: Transitions in cell potency during early mouse development are driven by Notch Open
Article Figures and data Abstract eLife digest Introduction Results Discussion Materials and methods Data availability References Decision letter Author response Article and author information Metrics Abstract The Notch signalling pathway …
View article: Pluripotency factors regulate the onset of Hox cluster activation in the early embryo
Pluripotency factors regulate the onset of Hox cluster activation in the early embryo Open
Pluripotent cells are a transient population present in the early mammalian embryo dependent on transcription factors, such as OCT4 and NANOG, which maintain pluripotency while simultaneously suppressing lineage specification. Interestingl…
View article: The pluripotency factor <scp>NANOG</scp> controls primitive hematopoiesis and directly regulates <i>Tal1</i>
The pluripotency factor <span>NANOG</span> controls primitive hematopoiesis and directly regulates <i>Tal1</i> Open
Progenitors of the first hematopoietic cells in the mouse arise in the early embryo from Brachyury-positive multipotent cells in the posterior-proximal region of the epiblast, but the mechanisms that specify primitive blood cells ar…
View article: Transitions in cell potency during early mouse development are driven by Notch
Transitions in cell potency during early mouse development are driven by Notch Open
The Notch signalling pathway plays fundamental roles in diverse developmental processes in metazoans, where it is important in driving cell fate and directing differentiation of various cell types. However, we still have limited knowledge …
View article: Nanog at the exit of pluripotency: new roles in the gastulating mouse embryo
Nanog at the exit of pluripotency: new roles in the gastulating mouse embryo Open
View article: Transient fibrosis resolves via fibroblast inactivation in the regenerating zebrafish heart
Transient fibrosis resolves via fibroblast inactivation in the regenerating zebrafish heart Open
Significance After myocardial infarction in the mammalian heart, millions of cardiomyocytes are lost and replaced by fibrotic scar tissue. While fibrosis is persistent in adult mammals, there are some vertebrates, including zebrafish, with…
View article: Transient fibrosis resolves via fibroblast inactivation in the regenerating zebrafish heart
Transient fibrosis resolves via fibroblast inactivation in the regenerating zebrafish heart Open
In the zebrafish ( Danio rerio ), regeneration and fibrosis after cardiac injury are not mutually exclusive responses. Upon cardiac cryoinjury, collagen and other extracellular matrix (ECM) proteins accumulate at the injury site. However, …