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News UCSF

• Early formula use helps some mothers breastfeed longer

  Recent public health efforts have focused extensively on reducing the amount of formula babies are given in the hospital after birth. But in the first randomized trial of its kind, researchers at UC San Francisco have found that giving small amounts of formula in the first few days of life to infant more

• Gladstone scientists reprogram skin cells into brain cells

  Scientists at the Gladstone Institutes have for the first time transformed skin cells — with a single genetic factor — into cells that develop on their own into an interconnected, functional network of brain cells. The research offers new hope in the fight against many neurological conditions becaus more

• Dental X-rays linked to common brain tumor

  Meningioma, the most common primary brain tumor in the United States, accounts for about 33 percent of all primary brain tumors. The most consistently identified environmental risk factor for meningioma is exposure to ionizing radiation. In the largest study of its kind, researchers from Brigham and more

Publications UCSF

• Pythoscape: a framework for generation of large protein similarity networks

  Pythoscape is a framework implemented in Python for processing large protein similarity networks for visualization in other software packages. Protein similarity networks are graphical representations of sequence, structural and other similarities among proteins for which pairwise all-by-all simila more

• GO-Elite: a flexible solution for pathway and ontology over-representation

  Summary: We introduce GO-Elite, a flexible and powerful pathway analysis tool for a wide array of species, identifiers (IDs), pathways, ontologies and gene sets. In addition to the Gene Ontology (GO), GO-Elite allows the user to perform over-representation analysis on any structured ontology annota more

• Mosaic: making biological sense of complex networks

  Summary: We present a Cytoscape plugin called Mosaic to support interactive network annotation, partitioning, layout and coloring based on gene ontology or other relevant annotations. Availability: Mosaic is distributed for free under the Apache v2.0 open source license and can be downloaded via more

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