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Sameed Siddiqui Profile
Sameed Siddiqui

@Sameed

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Californian lost in the Northeast. PhD Student @ MIT Computational Biology. @sabeti_lab member. @UCLA Bruin

California
Joined March 2008
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@Sameed
Sameed Siddiqui
4 months
Thrilled to share my work with my mentee @KrithikTweets, which shows how principled AI design can democratize biological sequence modeling. Excited to see how this can advance biology and bring machine learning to scientists everywhere. Also thanks to @_albertgu , @PardisSabeti.
@KrithikTweets
Krithik Ramesh
4 months
🧬 Meet Lyra, a new paradigm for accessible, powerful modeling of biological sequences. Lyra is a lightweight SSM achieving SOTA performance across DNA, RNA, and protein tasks—yet up to 120,000x smaller than foundation models (ESM, Evo). Bonus: you can train it on your Mac. read
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@Sameed
Sameed Siddiqui
2 years
8/ Finally, we thank those who helped fund our work, including @DARPA , @CDCgov, @HHMINEWS, @TheFluLab, @TheAudaciousPrj, @ELMAPhilanthro, @mackenziescott, @SkollFoundation, and @open_phil.
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@Sameed
Sameed Siddiqui
2 years
7/ Our findings shed light on potential new modalities in CRISPR-dx. Eager for community insights and what lies ahead! Thanks to fellow leads @NicoleLWelch & Tien Nguyen, folks at the Broad imaging platform, @SenftRebecca, @BoSoxBioBeth, & @BlaineyLab, @PardisSabeti, @cambearon.
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@Sameed
Sameed Siddiqui
2 years
6/ Key Insights 🌟: bbLuc's notable improved sensitivity over fluorescence, removing the need for fluorescence excitation lasers in CRISPR-dx;.🦠bbCARMEN's equipment-free, scalable, highly sensitive multiplexed CRISPR capabilities.#CRISPRdiagnostics.
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@Sameed
Sameed Siddiqui
2 years
5/ 🦠 Delving into bbCARMEN's Respiratory Virus Panel (RVP): Multiplexing with unique crRNAs attached to color-coded beads, we are able to detect 9 distinct targets, including SCoV2 with >95% sensitivity & 100% specificity vs. RT-qPCR across 135 clinical samples. 📸
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@Sameed
Sameed Siddiqui
2 years
4/ Introducing bbCARMEN: A multiplexed bead-based platform tailored for point-of-care Cas13 diagnostics. Equipment-free droplet generation in <2 mins! 📸
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@Sameed
Sameed Siddiqui
2 years
3/ Integration w/ SHINE: We next integrate bbLuc into the more general context of SHINE, a one-pot isothermal CRISPR-dx system which includes amplification via RPA. bbLuc shows enhanced sensitivity compared to fluorescence reporter, including in clinical specimens
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@Sameed
Sameed Siddiqui
2 years
2/ 💡Introducing a bead-based split-luciferase reporter system (bbLuc): By utilizing split-luciferase reporter technology, we observed 20x improved sensitivity compared to standard fluorescence designs in amplification-free settings (Fig 1 for schematics)
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@Sameed
Sameed Siddiqui
2 years
1/ 🧬 Exciting update for #CRISPR diagnostics! In our pre-print, we develop innovative bead-based techniques targeting both sensitivity and multiplexability of CRISPR-based diagnostics. Dive into our pre-print: @cambearon @sabeti_lab @BlaineyLab.
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@Sameed
Sameed Siddiqui
3 years
Extremely sad to see this. To me, MIT's open access policies epitomized its commitment to the community and to a belief in open access to knowledge. I'll be signing this petition, as this shouldn't happen without more community input
@Jack_B_Reid
Jack Reid
3 years
Sounds like MIT campus is planning on remaining permanently closed to the public for the most part. One of my favorite parts of MIT was how open it was to the public. Really sad to see this go.
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@Sameed
Sameed Siddiqui
3 years
RT @NicoleLWelch: The mCARMEN Accelerated Article Preview is live on Nature Medicine!! (with data tracking the Omicron wave!) Check it out….
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