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microsoft / QlibQlib is an AI-oriented Quant investment platform that aims to use AI tech to empower Quant Research, from exploring ideas to implementing productions. Qlib supports diverse ML modeling paradigms, including supervised learning, market dynamics modeling, and RL, and is now equipped with https://github.com/microsoft/RD-Agent to automate R&D process.
NAalytics / Assemblies Of Putative SARS CoV2 Spike Encoding MRNA Sequences For Vaccines BNT 162b2 And MRNA 1273RNA vaccines have become a key tool in moving forward through the challenges raised both in the current pandemic and in numerous other public health and medical challenges. With the rollout of vaccines for COVID-19, these synthetic mRNAs have become broadly distributed RNA species in numerous human populations. Despite their ubiquity, sequences are not always available for such RNAs. Standard methods facilitate such sequencing. In this note, we provide experimental sequence information for the RNA components of the initial Moderna (https://pubmed.ncbi.nlm.nih.gov/32756549/) and Pfizer/BioNTech (https://pubmed.ncbi.nlm.nih.gov/33301246/) COVID-19 vaccines, allowing a working assembly of the former and a confirmation of previously reported sequence information for the latter RNA. Sharing of sequence information for broadly used therapeutics has the benefit of allowing any researchers or clinicians using sequencing approaches to rapidly identify such sequences as therapeutic-derived rather than host or infectious in origin. For this work, RNAs were obtained as discards from the small portions of vaccine doses that remained in vials after immunization; such portions would have been required to be otherwise discarded and were analyzed under FDA authorization for research use. To obtain the small amounts of RNA needed for characterization, vaccine remnants were phenol-chloroform extracted using TRIzol Reagent (Invitrogen), with intactness assessed by Agilent 2100 Bioanalyzer before and after extraction. Although our analysis mainly focused on RNAs obtained as soon as possible following discard, we also analyzed samples which had been refrigerated (~4 ℃) for up to 42 days with and without the addition of EDTA. Interestingly a substantial fraction of the RNA remained intact in these preparations. We note that the formulation of the vaccines includes numerous key chemical components which are quite possibly unstable under these conditions-- so these data certainly do not suggest that the vaccine as a biological agent is stable. But it is of interest that chemical stability of RNA itself is not sufficient to preclude eventual development of vaccines with a much less involved cold-chain storage and transportation. For further analysis, the initial RNAs were fragmented by heating to 94℃, primed with a random hexamer-tailed adaptor, amplified through a template-switch protocol (Takara SMARTerer Stranded RNA-seq kit), and sequenced using a MiSeq instrument (Illumina) with paired end 78-per end sequencing. As a reference material in specific assays, we included RNA of known concentration and sequence (from bacteriophage MS2). From these data, we obtained partial information on strandedness and a set of segments that could be used for assembly. This was particularly useful for the Moderna vaccine, for which the original vaccine RNA sequence was not available at the time our study was carried out. Contigs encoding full-length spikes were assembled from the Moderna and Pfizer datasets. The Pfizer/BioNTech data [Figure 1] verified the reported sequence for that vaccine (https://berthub.eu/articles/posts/reverse-engineering-source-code-of-the-biontech-pfizer-vaccine/), while the Moderna sequence [Figure 2] could not be checked against a published reference. RNA preparations lacking dsRNA are desirable in generating vaccine formulations as these will minimize an otherwise dramatic biological (and nonspecific) response that vertebrates have to double stranded character in RNA (https://www.nature.com/articles/nrd.2017.243). In the sequence data that we analyzed, we found that the vast majority of reads were from the expected sense strand. In addition, the minority of antisense reads appeared different from sense reads in lacking the characteristic extensions expected from the template switching protocol. Examining only the reads with an evident template switch (as an indicator for strand-of-origin), we observed that both vaccines overwhelmingly yielded sense reads (>99.99%). Independent sequencing assays and other experimental measurements are ongoing and will be needed to determine whether this template-switched sense read fraction in the SmarterSeq protocol indeed represents the actual dsRNA content in the original material. This work provides an initial assessment of two RNAs that are now a part of the human ecosystem and that are likely to appear in numerous other high throughput RNA-seq studies in which a fraction of the individuals may have previously been vaccinated. ProtoAcknowledgements: Thanks to our colleagues for help and suggestions (Nimit Jain, Emily Greenwald, Lamia Wahba, William Wang, Amisha Kumar, Sameer Sundrani, David Lipman, Bijoyita Roy). Figure 1: Spike-encoding contig assembled from BioNTech/Pfizer BNT-162b2 vaccine. Although the full coding region is included, the nature of the methodology used for sequencing and assembly is such that the assembled contig could lack some sequence from the ends of the RNA. Within the assembled sequence, this hypothetical sequence shows a perfect match to the corresponding sequence from documents available online derived from manufacturer communications with the World Health Organization [as reported by https://berthub.eu/articles/posts/reverse-engineering-source-code-of-the-biontech-pfizer-vaccine/]. The 5’ end for the assembly matches the start site noted in these documents, while the read-based assembly lacks an interrupted polyA tail (A30(GCATATGACT)A70) that is expected to be present in the mRNA.
ivanvorobei / SPStorkControllerNow playing controller from Apple Music, Mail & Podcasts Apple's apps.
KieronQuinn / AmbientMusicModPort of Now Playing from Pixels to other Android devices
kayba-ai / Agentic Context Engine🧠 Make your agents learn from experience. Now available as a hosted solution at kayba.ai
shyamseshadri / Angularjs BookExamples and Code snippets from the first AngularJS O'Reilly book which is now heavily out of date!
mathdroid / Covid 19 ApiCOVID-19 global data (from JHU CSSE for now) as-a-service
Sergeydigl3 / Zapret Discord Youtube Linux(NOW ONLY FOR NFTABLES) Port zapret-discord-youtube from Flowseal and bol-van for easy to use on linux
Tibolte / AgendaCalendarView[DEPRECATED] An Android project providing easy navigation between a calendar and an agenda. This library replicates the basic features from the Sunrise Calendar (now Outlook) app, coupled with some small design touch from the Google Calendar app.
rochacbruno / Python Project TemplateThis template is **archived**. > UV can now [generate a sample project](https://docs.astral.sh/uv/guides/projects/#creating-a-new-project) > I recommend using **UV** to bootstrap your peojects. > [Copier](https://github.com/copier-org/copier) is a tools that can bootstrap projects from templates.
MHaroonBaig / MotionKitGet the data from Accelerometer, Gyroscope and Magnetometer in only Two or a few lines of code. CoreMotion now made insanely simple :octocat: :satellite:
glyphr-studio / Glyphr Studio 1Now deprecated, Glyphr Studio v1 served us well from 2010 to 2023.
pkhungurn / Talking Head Anime 3 DemoDemo Programs for the "Talking Head(?) Anime from a Single Image 3: Now the Body Too" Project
lucysrausch / Hoverboard Firmware HackNew Hoverboard Firmware Hack. Now written from scratch and generally much better.
microsoft / Vscode Edge DevtoolsA VSCode extension that allows you to use browser devtools from within the editor. The devtools will connect to an instance of Microsoft Edge giving you the ability to alter CSS styling, perform diagnostics, and debugging. Get it now at http://aka.ms/devtools-for-code
sheikhhaziq / Gyawun MusicImmerse yourself in the world of Gyawun, where music knows no bounds. Enjoy uninterrupted, ad-free streaming with an extensive library of songs spanning genres and artists from every corner of the globe. With Gyawun, the rhythm never fades. Download now and let the music carry you away.
Thuzi / Facebook Node SDKModeled from the (Facebook Javascript SDK), now with the facebook-node-sdk you can now easily write the same code and share between your server (nodejs) and the client (Facebook Javascript SDK).
Ayfel / PrefabLightmappingScript for saving lightmapping data to prefabs. Used through the Assets tab in Unity. Place your prefabs in the scene with this script at the root. Set up your lighting and in the editor go to Assets->Bake Prefab Lightmaps. After is processed you can now spawn your prefabs in different scenes and they will use the lightmapping from the original.
darknebular / Wrapper VideoStationSynology VideoStation and DLNA FFmpeg Wrapper with AAC, DTS, EAC3 and TrueHD support via pipes (now with GStreamer support). It enables full hardware transcoding from Synology´s FFmpeg for video and transcoding DTS, EAC3, TrueHD and AAC from the SynoCommunity's FFmpeg only when necessary.
ahmetb / Gke LetsencryptTutorial for installing cert-manager on GKE get HTTPS certificates from Let’s Encrypt (⚠️NOW OBSOLETE⚠️)
