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Downloads and Upgrades: UCSC Genome Browser, SMRT Analysis 1.4, 1-Click, and More


The University of California, Santa Cruz's genome browser group has released a new browser for the white rhinoceros Ceratotherium simum.

Bulk downloads of the sequence and annotation data are available here and here.

Pacific Biosciences said this week that it has updated its single molecule, real-time analysis software.

SMRT Analysis 1.4 includes a new hierarchical de novo genome assembly process that lets researchers assemble entire microbial and fungal genomes using PacBio long reads alone; a new multi-read consensus algorithm called Quiver; support for barcoded sample analysis; and improvements to tools for analyzing and visualizing bacterial methylomes.

Mcule has released 1-Click, a free online molecular docking solution for users looking to determine ligands' binding modes or docking scores.

The University of California, San Francisco, has released Chimera 1.7.

This version of the tool includes faster loading and graphics, improvements in lighting and interactive shadows, an interface to Modeller for building
missing loops, enhanced commands for animation, and other new features.

The Scan

Expanded Genetic Testing Uncovers Hereditary Cancer Risk in Significant Subset of Cancer Patients

In Genome Medicine, researchers found pathogenic or likely pathogenic hereditary cancer risk variants in close to 17 percent of the 17,523 patients profiled with expanded germline genetic testing.

Mitochondrial Replacement Therapy Embryos Appear Largely Normal in Single-Cell 'Omics Analyses

Embryos produced with spindle transfer-based mitochondrial replacement had delayed demethylation, but typical aneuploidy and transcriptome features in a PLOS Biology study.

Cancer Patients Report Quality of Life Benefits for Immune Checkpoint Inhibitors

Immune checkpoint inhibitor immunotherapy was linked in JAMA Network Open to enhanced quality of life compared to other treatment types in cancer patients.

Researchers Compare WGS, Exome Sequencing-Based Mendelian Disease Diagnosis

Investigators find a diagnostic edge for whole-genome sequencing, while highlighting the cost advantages and improving diagnostic rate of exome sequencing in EJHG.