20 research outputs found
MDsrv:visual sharing and analysis of molecular dynamics simulations
Molecular dynamics simulation is a proven technique for computing and
visualizing the time-resolved motion of macromolecules at atomic resolution.
The MDsrv is a tool that streams MD trajectories and displays them
interactively in web browsers without requiring advanced skills, facilitating
interactive exploration and collaborative visual analysis. We have now enhanced
the MDsrv to further simplify the upload and sharing of MD trajectories and
improve their online viewing and analysis. With the new instance, the MDsrv
simplifies the creation of sessions, which allows the exchange of MD
trajectories with preset representations and perspectives. An important
innovation is that the MDsrv can now access and visualize trajectories from
remote datasets, which greatly expands its applicability and use, as the data
no longer needs to be accessible on a local server. In addition, initial
analyses such as sequence or structure alignments, distance measurements, or
RMSD calculations have been implemented, which optionally support visual
analysis. Finally, the MDsrv now offers a faster and more efficient
visualization of even large trajectories.Comment: 9 pages, 3 figure
Single-cell RNA sequencing identifies distinct mouse medial ganglionic eminence cell types
Many subtypes of cortical interneurons (CINs) are found in adult mouse cortices, but the mechanism generating their diversity remains elusive. We performed single-cell RNA sequencing on the mouse embryonic medial ganglionic eminence (MGE), the major birthplace for CINs, and on MGE-like cells differentiated from embryonic stem cells. Two distinct cell types were identified as proliferating neural progenitors and immature neurons, both of which comprised sub-populations. Although lineage development of MGE progenitors was reconstructed and immature neurons were characterized as GABAergic, cells that might correspond to precursors of different CINs were not identified. A few non-neuronal cell types were detected, including microglia. In vitro MGE-like cells resembled bona fide MGE cells but expressed lower levels of Foxg1 and Epha4. Together, our data provide detailed understanding of the embryonic MGE developmental program and suggest how CINs are specified