27,104 research outputs found
mit-ll-responsible-ai/equine: v0.1.3rc
No full text<h2>What's Changed</h2>
<ul>
<li>Enable concomitant visualization capability for the GP in the web-app by @nukularrr in https://github.com/mit-ll-responsible-ai/equine/pull/36</li>
<li>Removed no_grad statement from GP forward method and moved model to device in gp by @gtbotkin in https://github.com/mit-ll-responsible-ai/equine/pull/42</li>
<li>Various dependency updates in github actions, hypothesis, etc.</li>
</ul>
<h2>New Contributors</h2>
<ul>
<li>@gtbotkin made their first contribution in https://github.com/mit-ll-responsible-ai/equine/pull/42</li>
</ul>
<p><strong>Full Changelog</strong>: https://github.com/mit-ll-responsible-ai/equine/compare/v0.1.2...v0.1.3rc</p>
mit-ll/spacegym-kspdg: v0.2.0
No full text<p><strong>From <a href="https://github.com/mit-ll/spacegym-kspdg/blob/main/CHANGELOG.md">CHANGELOG.md</a></strong>:</p>
<h3>Fixed</h3>
<ul>
<li>Resolve <a href="https://github.com/mit-ll/spacegym-kspdg/issues/7">iss7</a> by switching print statements to logger statements in lbg1_base.py</li>
</ul>
<h3>Changed</h3>
<ul>
<li>Conda environment is no longer pinned to python 3.9 due to removal of poliastro dependency. This will cause the most recent python version (currently 3.12) to be used when creating the environment</li>
<li><code>evaluate.pyc</code> script has been replaced by python-version-specific binaries <code>evaluate.cpython-39.pyc</code> (for python 3.9) and <code>evaluate.cpython-312.pyc</code> (for python 3.12). This is to avoid a <code>RuntimeError: Bad magic number in .pyc file</code> when trying to run evaluate.pyc from the wrong python version</li>
</ul>
<h3>Removed</h3>
<ul>
<li>poliastro dependency and related functions in <code>utils.py</code>. This removes functions for propagating orbits which were used for non-essential metric evals. For further justification, see <a href="https://github.com/mit-ll/spacegym-kspdg/issues/8">this issue</a></li>
<li><code>utils.estimate_capture_dv</code> and related unit tests which depended upon poliastro</li>
<li><code>utils.solve_lambert</code> and related unit tests which depended upon poliastro</li>
<li><code>utils.propagate_orbit_tof</code> and related unit tests which depended upon poliastro</li>
</ul>
<p><strong>Full Changelog</strong>: https://github.com/mit-ll/spacegym-kspdg/compare/v0.1.0...v0.2.0</p>
LL-18 binds directly to virus particles.
No full text(A) 1H NMR data showing the chemical shifts. Spectra of LL-37 (left panel) or LL-18 (right panel) peptide in the absence or presence of EV71 virus (green line) or CVB5 virus (red line). (B-C) 293T cells cotransfected with GFP or GFP-tagged LL-18 (B) or LL-37 (C) and HA-tagged VP1, VP2, or VP3 plasmids were immunoprecipitated with anti-HA antibody, and interactions between LL-18 and viral structural proteins were detected by anti-GFP antibody.</p
mit-ll/spacegym-kspdg: v0.6.1
No full text<h3>Added</h3>
<ul>
<li>Ability to check versioning on <code>evaluation/evaluate.cpython-XXX.pyc</code>, which is different than kspdg version number. Check with</li>
</ul>
<pre><code>conda activate kspdg
python evaluation/evaluate.cpython-312.pyc --version
</code></pre>
<h3>Fixed</h3>
<ul>
<li>Updated <code>evaluation/evaluate.cpython-XXX.pyc</code> to work with new kspdg packaging</li>
</ul>
<p><strong>Full Changelog</strong>: https://github.com/mit-ll/spacegym-kspdg/compare/v0.6.0...v0.6.1</p>
LL-18 interferes with virus-SCARB2 interaction.
No full text(A) Molecular docking model of LL-18 with EV71 virion. EV71 capsid proteins VP1 (green), VP2 (pink), and VP3(blue), all interact with LL-18 displayed in red sticks (left panel). The amino acid residues of capsid protein interacting with both LL-18 and SCARB2 are indicated (right panel). (B) 293T cells expressing SCARB2-Flag were lysed and cell lysates were incubated with EV71 virus in the absence or presence of the indicated amount of LL-18. Cell lysates were then immunoprecipitated with anti-Flag antibody and the precipitated virus was determined with anti-VP1 antibody. (C) 293T cells expressing Annexin 2-Flag were lysed and cell lysates were incubated with EV71 virus in the absence or presence of LL-18. Cell lysates were then immunoprecipitated with anti-Flag antibody and the precipitated virus was determined with anti-VP1 antibody.</p
LL-18 inhibits mEV71 infection <i>in vivo</i>.
No full text(A) mEV71 was pre-treated with PBS or LL-18 and used to infect 6-day old ICR mice. The survival rate of mice infected with the mEV71 virus with or without LL-18 was recorded. (B) Mice infected with the mEV71 virus with or without LL-18 pre-treatment were sacrificed 1 day post infection (d.p.i.) and viral titers from brain and muscle tissues were determined. ***, P<0.001. (C) H&E staining of muscle tissue from mice infected with the mEV71 virus with or without LL-18. Blue arrows indicate infiltrated neutrophils. Bar, 20μm.</p
LL-18 binds directly to virus particles.
No full text(A) RD cells were pre-incubated with indicated amounts of LL-18, FF-18, DL-37, or LL-37 for 2 hrs before they were washed extensively to remove unbound peptides. Cells were then infected with the EV71 virus (MOI = 1) and cell viability was determined 24 h.p.i. Values were normalized to uninfected RD cells. ***, P1H NMR spectra of FF-18 peptide in the absence or presence of EV71 virus (green line) or CVB5 virus (red line). (TIF)</p
mit-ll/spacegym-kspdg: v0.6.0
No full text<p>Migration to <code>pyproject.toml</code> packaging</p>
<h3>Added</h3>
<ul>
<li><code>pyproject.toml</code> for package and dependency management</li>
</ul>
<h3>Changed</h3>
<ul>
<li>Updated <code>setup.py</code> to delegate most package management to <code>pyproject.toml</code>; maintains the get_version functionality</li>
<li>Updated copyright year in headers</li>
</ul>
<h3>Removed</h3>
<ul>
<li><code>setup.py</code> and <code>version.py</code> since single-source version moved to <code>pyproject.toml</code> and <code>kspdg/__init__.py</code>. See https://packaging.python.org/en/latest/guides/single-sourcing-package-version/</li>
<li><code>requirements.txt</code> since there are no "pinned" or "concrete" dependencies as kspdg is not (yet?) intended to be released as a stand-alone app. For further information about the intended role of requirements.txt, see and <a href="https://caremad.io/posts/2013/07/setup-vs-requirement/">setup vs requirements</a> and <a href="https://stackoverflow.com/questions/74508024/is-requirements-txt-still-needed-when-using-pyproject-toml">use of requirements w/ pyproject</a></li>
<li>KSPDG Challenge announcement from README</li>
</ul>
<p><strong>Full Changelog</strong>: https://github.com/mit-ll/spacegym-kspdg/compare/v0.5.1...v0.6.0</p>
LL-18 did not induce virus resistance.
No full text(A) Diagram of resistance induction assay. (B) RD cells infected with parental EV71 or P30 with or without 1.5 μM LL-18 pre-incubation were tested for cell viability 24 h.p.i. ns, not significant; ***, P<0.001.</p
LL-18 and FF-18 effectively inhibit EV71 infection.
No full text(A-D) Cell viability of RD cells treated with the indicated amount of DL-37 (A), LL-37 (B), LL-18 (C), or FF-18 (D) was plotted against peptide concentration, and the cytotoxicity was determined. (E) EV71 virus pre-incubated with indicated amounts of DL-37, and the cell viability was determined 24 h.p.i. ***, P (TIF)</p
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