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- 1From: Nature Protocols. (Vol. 7, Issue 4) Peer-ReviewedSubstantial scientific interest has been dedicated recently to the crucial factors that control the pluripotent state of stem cells. To gain a comprehensive understanding of the molecular mechanisms regulating mouse...
- 2From: Nature Protocols. (Vol. 7, Issue 4) Peer-ReviewedParabiosis--conjoined surgery to provide a shared circulation between two mice--has been previously developed to study the hematopoietic system. This protocol describes the use of parabiosis for efficient...
- 3From: Nature Protocols. (Vol. 7, Issue 4) Peer-ReviewedDNA methylation is an epigenetic mark that has a crucial role in many biological processes. To understand the functional consequences of DNA methylation on phenotypic plasticity, a genome-wide analysis should be...
- 4From: Nature Protocols. (Vol. 7, Issue 4) Peer-ReviewedDirect intragastric delivery of a diet, nutrient or test substance can be achieved in rodents (mice and rats) on a long-term (2-3 months) basis using a chronically implanted gastrostomy catheter and a flow-through...
- 5From: Nature Protocols. (Vol. 7, Issue 4) Peer-ReviewedDuring the development of an organism, cells are exposed to a myriad of signals, structural components and scaffolds, which collectively make up the cellular microenvironment. The majority of current developmental...
- 6From: Nature Protocols. (Vol. 7, Issue 4) Peer-ReviewedOropharyngeal candidiasis is a frequent cause of morbidity in patients with defects in cell-mediated immunity or saliva production. Animal models of this infection are important for studying disease pathogenesis and...
- 7From: Nature Protocols. (Vol. 7, Issue 4) Peer-ReviewedIsomerization from uridine to pseudouridine (pseudouridylation) is largely catalyzed by a family of small ribonucleoproteins called box H/ACA RNPs, each of which contains one unique small RNA--the box H/ACA RNA. The...
- 8From: Nature Protocols. (Vol. 7, Issue 4) Peer-ReviewedThe labeling of biomolecules has become standard practice in molecular biosciences. Modifications are used for detection, sorting and isolation of small molecules, complexes and entire cells. We have recently reported a...
- 9From: Nature Protocols. (Vol. 7, Issue 4) Peer-ReviewedSecond-harmonic generation (SHG) microscopy has emerged as a powerful modality for imaging fibrillar collagen in a diverse range of tissues. Because of its underlying physical origin, it is highly sensitive to the...
- 10From: Nature Protocols. (Vol. 7, Issue 4) Peer-ReviewedStromal cells have been studied extensively in the primary tumor microenvironment. In addition, mesenchymal stromal cells may participate in several steps of the metastatic cascade. Studying this interaction requires...
- 11From: Nature Protocols. (Vol. 7, Issue 4) Peer-ReviewedThe described oxime-based library protocol provides detailed procedures for the linkage of aminooxy functionality with aldehyde building blocks that result in the generation of libraries of multidentate inhibitors....
- 12From: Nature Protocols. (Vol. 7, Issue 4) Peer-ReviewedThe zebrafish heart has the capacity to regenerate after ventricular resection. Although this regeneration model has proved useful for the elucidation of certain regeneration mechanisms, it is based on the removal of...
- 13From: Nature Protocols. (Vol. 7, Issue 4) Peer-ReviewedComputational analysis and interactive visualization of biological networks and protein structures are common tasks for gaining insight into biological processes. This protocol describes three workflows based on the...
- 14From: Nature Protocols. (Vol. 7, Issue 4) Peer-ReviewedProtein removal has a central role in numerous cellular processes. Obtaining systematic measurements of multiple protein removal rates is necessary to understand the principles that govern these processes, but it is...
- 15From: Nature Protocols. (Vol. 7, Issue 4) Peer-ReviewedThe role of stromal cells in the tumor microenvironment has been extensively characterized. We and others have shown that stromal cells may participate in several steps of the metastatic cascade. This protocol describes...
- 16From: Nature Protocols. (Vol. 7, Issue 4) Peer-ReviewedInduced pluripotent stem cells (iPSCs) have become important cell sources for genetic disease models, and they have the potential to be cell sources for future clinical therapies. However, invasive tissue sampling...