Merge pull request #125 from aidanobrien5599/Combee

Combee

Author: qualiaMachine

Applications/Videos/Other/25-01-28_AlphaFold_ComBEE

@@ -0,0 +1,56 @@
+---
+title: "AlphaFold and Protein Language Models" # title of talk
+author: "Hannah Wayment-Steele" # comma separated list of author(s)/presenter(s)
+date: 2025-01-28 # date published/presented
+
+# You will need to add a representative image to the ML-X-Nexus/images folder.
+  
+# - OPTION 1: If posting a video from YouTube, follow these instructions to use the "thumbnail" image from the video. 
+  #  1) Identify the YouTube video ID: The video ID is the unique identifier for each YouTube video, usually found 
+  #     after the "v=" parameter in the URL. For example, in the URL https://www.youtube.com/watch?v=dQw4w9WgXcQ, the video ID is dQw4w9WgXcQ.
+  
+  #  2) Construct the thumbnail URL: YouTube provides different resolutions for video thumbnails. Here are the formats for different resolutions. We'll use the maximum resolution.
+  #     Maximum resolution thumbnail: https://img.youtube.com/vi/[VIDEO_ID]/maxresdefault.jpg. Replace [VIDEO_ID] with the actual video ID, removing the square brackets.
+  # image: "https://img.youtube.com/vi/dQw4w9WgXcQ/maxresdefault.jpg"
+
+image: "https://img.youtube.com/vi/DxugLHvQzSw/maxresdefault.jpg" # replace VIDEO_ID with youtube video ID. 
+
+# - OPTION 2: If it's not a video from YouTube, you'll have to generate/acquire your own image. You could take a screenshot of the video's title slide (assuming video is public) or use genAI to create a relevant image.
+  
+#image: "../../../images/my_unique_image.png" # uncomment out this line if you're using a custom image. Adjust filename to your file name. Place image in the images folder in the repo.
+
+# Leave as is
+language: 
+  title-block-author-plural: "Presenters"
+  title-block-published: "Date"
+  
+# Enter a list of relevant categories/tags for this resource, including the type (talk, video, paper, etc.) topic of focus, and anything else that might be relevant. Please check out the tags which are already being used on Nexus by visiting https://uw-madison-datascience.github.io/ML-X-Nexus/Applications/ and looking under "Categories". Avoid repeating tags with alternative spelling (e.g., use Deep Learning rather than DL since Deep Learning is already being used.). 
+# Example categories below:
+categories:
+  - Videos # Always include
+  - ComBEE # Name of talk series (e.g., ML+X, IT Prof)
+  - UW-Madison # If talk is UW-Madison affiliated, include this
+  - Biology # Domain or application area (e..g, genomics, Agriculture, Physics, Science Communication, Neurosicence, etc.)
+  - Computational biology
+  - Protein engineering 
+  - LLM # Descriptor 1 (e.g., Computer vision, NLP, Tabular)
+  - Deep learning # Classical ML
+  - Alphafold # specific foundation models (e.g., GPT-3, ViT), if relevant
+  - Transformers # Decision tree, LSTM, LMM, CNN, CNN-LSTM (general model type)
+  - Protein language models
+  
+---
+### About this resource
+In a talk hosted by the University of Wisconsin-Madison's Computational Biology, Ecology, and Evolution (ComBEE) community, Dr. Hannah Wayment-Steele discusses AlphaFold, an model developed by DeepMind that predicts protein structures from amino acid sequences, along with other similar proten language models ESM and EvoFormer. Wayment-Steele describes the model's architecture,  applications in structural biology, and current pitfalls such as with isoforms.
+**Bio**: Dr. Hannah Wayment-Steele is a assistant professor at UW Madison with a PHD in chemistry from Standford. Her lab focus on  biomolecular dynamics and mechanisms that underlie biological function and shape evolution, bringing together the fields of data science, deep learning, and NMR spectroscopy.
+
+<!-- MARKDOWN COMMENT:  Finally, replace the URL below with your video's URL. . If video is not on Youtube (e.g., Kaltura instead), use the following language: "**A netID is required to view ML4MI videos**: [View YYYY-MM-DD recording](https://mediaspace.wisc.edu/media/video-URL)."-->
+
+{{< video https://www.youtube.com/watch?v=DxugLHvQzSw >}}
+
+
+## See also
+<!-- MARKDOWN COMMENT: Please Check the existing resources on Nexus to see if any other related resources (e.g., related books/videos, blog posts commenting on the resource, alternative approaches/frameworks, etc.) should be linked below. You may also link to resources which aren't currently on the Nexus platform, if applicable. However, if you're feeling ambitious, you may wish to post those to Nexus as well!  -->
+- [**Wayman Steele Lab**](https://waymentsteelelab.org/): Learn more about Dr. Wayment-Steel's work from her labratory website.
+- [**ComBEE**](https://hub.datascience.wisc.edu/communities/combee/): Main paige for ComBEE.
+<!-- MARKDOWN COMMENT: If posting a talk from a specific seminar, link to the full seminar page on Nexus, e.g.,... -->