BIMM 143 - Bioinformatics Laboratory - Schiffer [WI22]

BIMM 143 - Bioinformatics Laboratory - Schiffer [WI22]

Course Modules

Week 1: January 3-7

Week 1: January 3-7
Module Completed Module In Progress Module Locked
Week 1: January 3-7 172968  
  • Assignment
    Video: Welcome to BIMM 143 Winter 2022 Video: Welcome to BIMM 143 Winter 2022
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  • Assignment
    Video: What is DataCamp? Video: What is DataCamp?
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  • Assignment
    Video: Should I learn Python or R? Video: Should I learn Python or R?
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  • Quiz
    Entrance Survey Entrance Survey
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  • Assignment
    Video: #PODlife Video: #PODlife
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  • Assignment
    Downloading and an Introduction to Anaconda Navigator (Python) and R Studio (R) Downloading and an Introduction to Anaconda Navigator (Python) and R Studio (R)
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  • Quiz
    Project 1A: Choose a Journal Article Project 1A: Choose a Journal Article
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  • Assignment
    Journal Articles For Project 1 Journal Articles For Project 1
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  • Attachment
    IntroductoryLecture_Winter2022.pdf IntroductoryLecture_Winter2022.pdf
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  • Attachment
    Overview of Bioinformatics Methods.pptx Overview of Bioinformatics Methods.pptx
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  • Page
    Lecture 1: (JAMIE) Introduction to Bioinformatics Lecture 1: (JAMIE) Introduction to Bioinformatics
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  • Page
    Lecture 2: (JAMIE) Challenge Problem #1 Lecture 2: (JAMIE) Challenge Problem #1
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  • Page
    Challenge Problem #1 - R Studio Challenge Problem #1 - R Studio
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  • Attachment
    Challenge_Problem_1- R [W22].html Challenge_Problem_1- R [W22].html
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  • Attachment
    ChallengeProblem_1-python.html ChallengeProblem_1-python.html
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  • Page
    Challenge Problem #1 - Python Challenge Problem #1 - Python
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Week 2: January 10-14

Week 2: January 10-14
Module Completed Module In Progress Module Locked
Week 2: January 10-14 172969  
  • Assignment
    How to Read a Scientific Article How to Read a Scientific Article
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  • Assignment
    Data Camp - Introduction to Python and R Data Camp - Introduction to Python and R
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  • Assignment
    Challenge Problem #1: Printing Strings and History of Bioinformatics Challenge Problem #1: Printing Strings and History of Bioinformatics
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  • Assignment
    Challenge Problem #1: Printing Strings and History of Bioinformatics - Individual Submission Challenge Problem #1: Printing Strings and History of Bioinformatics - Individual Submission
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  • Assignment
    EC: EBI Bioinformatics Course EC: EBI Bioinformatics Course
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  • Assignment
    Project 1D Rubric Project 1D Rubric
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  • Attachment
    DataCamp_1_PYTHON-Intro_AnswerKey.html DataCamp_1_PYTHON-Intro_AnswerKey.html
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  • Attachment
    DataCamp_1_R-Intro_AnswerKey.nb.html DataCamp_1_R-Intro_AnswerKey.nb.html
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  • Attachment
    Lecture 3: (JAMIE) Project 1 & Project 2 Overview.pdf Lecture 3: (JAMIE) Project 1 & Project 2 Overview.pdf
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  • Page
    Lecture 3: Introduction to Projects Lecture 3: Introduction to Projects
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  • Page
    Outline of Lectures This Quarter Outline of Lectures This Quarter
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  • Page
    Lecture 4: (JAMIE) Data Camp Intro & Challenge Problem Review Lecture 4: (JAMIE) Data Camp Intro & Challenge Problem Review
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  • Attachment
    Lecture 4_DataCamp#1_ChallengeProblem#1.pdf Lecture 4_DataCamp#1_ChallengeProblem#1.pdf
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  • Attachment
    Lecture video (Kelly - R) - Challenge Problem 1 Lecture video (Kelly - R) - Challenge Problem 1
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Week 3: January 17-21

Week 3: January 17-21
Module Completed Module In Progress Module Locked
Week 3: January 17-21 172970  
  • Assignment
    Data Camp - Intermediate Python & R Data Camp - Intermediate Python & R
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  • Assignment
    Challenge Problem #2: Sequence Strings, Analysis, and Bioinformatics Databases Challenge Problem #2: Sequence Strings, Analysis, and Bioinformatics Databases
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  • Quiz
    Project 1B: Review Article, Describe Figures, Present Code - Submit as POD Project 1B: Review Article, Describe Figures, Present Code - Submit as POD
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  • Assignment
    Example Video from Jamie for Project 1D Example Video from Jamie for Project 1D
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  • Attachment
    DataCamp_2_R-Intermediate_AnswerKey.nb.html DataCamp_2_R-Intermediate_AnswerKey.nb.html
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  • Page
    Data Camp Lab #2 - R Intermediate Video Lecture (JAMIE) Data Camp Lab #2 - R Intermediate Video Lecture (JAMIE)
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  • Attachment
    DataCamp_2-IntermediatePython_AnswerKey.html DataCamp_2-IntermediatePython_AnswerKey.html
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  • Attachment
    ChallengeProblem2_R_AnswerKey.nb.html ChallengeProblem2_R_AnswerKey.nb.html
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  • Attachment
    ChallengeProblem_2-python_AnswerKey.html ChallengeProblem_2-python_AnswerKey.html
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  • Page
    Lecture 5: (JAMIE) video lecture on DataBases Lecture 5: (JAMIE) video lecture on DataBases
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  • Attachment
    Lecture 5: (JAMIE) Bioinformatics DataBases.pdf Lecture 5: (JAMIE) Bioinformatics DataBases.pdf
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  • Attachment
    Kelly Discussion: Challenge_Problem_2 [W22].Rmd Kelly Discussion: Challenge_Problem_2 [W22].Rmd
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  • Attachment
    Video Lecture (Kelly - R) - Challenge Problem 2 Video Lecture (Kelly - R) - Challenge Problem 2
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  • Attachment
    DataCamp_Python_Intermediate (JAMIE)_overview.mp4 DataCamp_Python_Intermediate (JAMIE)_overview.mp4
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Week 4: January 24-28

Week 4: January 24-28
Module Completed Module In Progress Module Locked
Week 4: January 24-28 172971  
  • Assignment
    Data Camp - Data Importing with pandas or R Data Camp - Data Importing with pandas or R
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  • Assignment
    Challenge Problem #3: From Dot Plots to BLAST Challenge Problem #3: From Dot Plots to BLAST
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  • Quiz
    Project 1C: Draft 1 of Video and Self-Assessment Project 1C: Draft 1 of Video and Self-Assessment
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  • Attachment
    DataCamp3_ImportingwithR_AnswerKey.nb.html DataCamp3_ImportingwithR_AnswerKey.nb.html
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  • Attachment
    DataCampLab3_ImportingwithPython_AnswerKey.html DataCampLab3_ImportingwithPython_AnswerKey.html
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  • Attachment
    ChallengeProblem_3-python.html ChallengeProblem_3-python.html
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  • Attachment
    ChallengeProblem3_R.nb.html ChallengeProblem3_R.nb.html
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  • Page
    Lecture 6 (JAMIE) Dot Plots, Sequence Alignments, p-values & more Lecture 6 (JAMIE) Dot Plots, Sequence Alignments, p-values & more
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  • Attachment
    Lecture 6_Dot Plots, Sequence Alignments, p-values, BLAST.pdf Lecture 6_Dot Plots, Sequence Alignments, p-values, BLAST.pdf
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  • Attachment
    ChallengeProblem3VideoLecture_PythonJAMIE.mp4 ChallengeProblem3VideoLecture_PythonJAMIE.mp4
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  • Attachment
    Kelly Discussion: Challenge_Problem_3-[W22].html Kelly Discussion: Challenge_Problem_3-[W22].html
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  • Attachment
    Video Lecture (Kelly - R) - Challenge Problem 3 Video Lecture (Kelly - R) - Challenge Problem 3
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Week 5: January 31 - February 4

Week 5: January 31 - February 4
Module Completed Module In Progress Module Locked
Week 5: January 31 - February 4 172972  
  • Assignment
    Data Camp - Python Toolbox (pt 1) or RNA-Seq with Bioconductor Data Camp - Python Toolbox (pt 1) or RNA-Seq with Bioconductor
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  • Quiz
    Project 1D: Final Draft of Video Project 1D: Final Draft of Video
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  • External Url
    POD anonymous feedback form POD anonymous feedback form
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  • Assignment
    EC Video: Bioimaging EC Video: Bioimaging
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  • Assignment
    Alternative Project 2!! Alternative Project 2!!
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  • Attachment
    DataCamp_RNAseq_AnswerKey_R.nb.html DataCamp_RNAseq_AnswerKey_R.nb.html
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  • Attachment
    Python_Toolbox_Lab_AnswerKey.html Python_Toolbox_Lab_AnswerKey.html
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  • Attachment
    Lecture 7_ RNAseq.pdf Lecture 7_ RNAseq.pdf
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  • Page
    Lecture 7: (JAMIE) Introduction to RNAseq Lecture 7: (JAMIE) Introduction to RNAseq
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  • Attachment
    PythonistasLecture7_(JAMIE)_0131_NeedlemanWunsch.mp4 PythonistasLecture7_(JAMIE)_0131_NeedlemanWunsch.mp4
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  • Attachment
    Lecture 8_ Diving Deep into RNA-seq.pdf Lecture 8_ Diving Deep into RNA-seq.pdf
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  • Page
    Lecture 8: (Jamie) Deep Dive into RNAseq Lecture 8: (Jamie) Deep Dive into RNAseq
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  • Assignment
    EC - Lecture 8 EC - Lecture 8
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Week 6: February 7-11

Week 6: February 7-11
Module Completed Module In Progress Module Locked
Week 6: February 7-11 172973  
  • Assignment
    Challenge Problem #4: RNAseq analysis and differential RNA expression Challenge Problem #4: RNAseq analysis and differential RNA expression
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  • Assignment
    Project 1E: Review your Peer's Final Videos Project 1E: Review your Peer's Final Videos
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  • Assignment
    EC: POD-mate feedback EC: POD-mate feedback
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  • Assignment
    Cheat Sheets! Cheat Sheets!
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  • Page
    Lecture 9: (JAMIE) RPKM versus FPKM Lecture 9: (JAMIE) RPKM versus FPKM
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  • Attachment
    Lecutre 9_ RNASeq - RPKM versusFPKM Lecutre 9_ RNASeq - RPKM versusFPKM
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  • Page
    Lecture 10: (JAMIE) GEO datasets and GO analysis Lecture 10: (JAMIE) GEO datasets and GO analysis
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  • Attachment
    Lecture 10_ RNASeq Lecture 3 - GEO & GO models.pdf Lecture 10_ RNASeq Lecture 3 - GEO & GO models.pdf
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  • Attachment
    ChallengeProblem4_RNAseq_R.nb.html ChallengeProblem4_RNAseq_R.nb.html
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  • Attachment
    Challenge Problem 4-RNAseq _python.html Challenge Problem 4-RNAseq _python.html
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  • Attachment
    Kelly Discussion: Challenge_Problem_4-[W22].html Kelly Discussion: Challenge_Problem_4-[W22].html
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  • Attachment
    Video Lecture (Kelly - R) - Challenge Problem 4 Video Lecture (Kelly - R) - Challenge Problem 4
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  • Attachment
    Video_ChallengeProblem4_(Jamie-python).mp4 Video_ChallengeProblem4_(Jamie-python).mp4
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Week 7: February 14-18

Week 7: February 14-18
Module Completed Module In Progress Module Locked
Week 7: February 14-18 172974  
  • External Url
    How to Write a Scientific Hypothesis How to Write a Scientific Hypothesis
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  • Assignment
    Data Camp - Unsupervised Learning in Python & R Data Camp - Unsupervised Learning in Python & R
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  • Assignment
    Challenge Problem #5: Unsupervised Learning on Biopsy Data Challenge Problem #5: Unsupervised Learning on Biopsy Data
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  • Quiz
    Project 2A: Draft 1 of your Scientific Hypothesis Project 2A: Draft 1 of your Scientific Hypothesis
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  • Attachment
    Project2_BIMM143_Fall2021.pdf Project2_BIMM143_Fall2021.pdf
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  • Assignment
    EC Video: Single Cell Sequencing EC Video: Single Cell Sequencing
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  • Attachment
    Lecture 10B_ RNASeq Lecture - Pathway analysis & Reactome.pdf Lecture 10B_ RNASeq Lecture - Pathway analysis & Reactome.pdf
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  • Attachment
    Lecture 10B PathwayAnalysis_Python.html Lecture 10B PathwayAnalysis_Python.html
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  • Page
    Lecture 11: (JAMIE) Project 2, PCA, Clustering, Pathway Analysis, Reactome Lecture 11: (JAMIE) Project 2, PCA, Clustering, Pathway Analysis, Reactome
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  • Attachment
    Lecture 11_ Project 2 Overview & Machine Learning (1).pdf Lecture 11_ Project 2 Overview & Machine Learning (1).pdf
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  • Attachment
    Video_DataCamp_Week5_Python.mp4 Video_DataCamp_Week5_Python.mp4
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  • Page
    Lecture 12: (JAMIE) Project 2 & Challenge Problem #5 (PCA & Clustering) Lecture 12: (JAMIE) Project 2 & Challenge Problem #5 (PCA & Clustering)
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  • Attachment
    ChallengeProblem5_R.html ChallengeProblem5_R.html
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  • Attachment
    ChallengeProblem5_python.html ChallengeProblem5_python.html
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  • Attachment
    Kelly Discussion: Challenge_Problem_5-[W22].html Kelly Discussion: Challenge_Problem_5-[W22].html
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  • Attachment
    Video Lecture (Kelly - R) - Challenge Problem 5 Video Lecture (Kelly - R) - Challenge Problem 5
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  • Attachment
    Video-ChallengeProblem5(Jamie_python).mp4 Video-ChallengeProblem5(Jamie_python).mp4
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Week 8: February 21-25

Week 8: February 21-25
Module Completed Module In Progress Module Locked
Week 8: February 21-25 172975  
  • Attachment
    Methods and Databases that you need to use for Project 2 Methods and Databases that you need to use for Project 2
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  • Assignment
    Challenge Problem #6: Proteomic Profiling & PCA Challenge Problem #6: Proteomic Profiling & PCA
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  • Quiz
    Project 2B: Refining your Hypothesis & Annotated Bibliography Project 2B: Refining your Hypothesis & Annotated Bibliography
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  • Assignment
    Project 2 Example Project 2 Example
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  • Assignment
    EC: DataCamp EC: DataCamp
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  • Attachment
    Lecture 12_ Proteomics & Expression Atlas.pdf Lecture 12_ Proteomics & Expression Atlas.pdf
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  • Page
    Lecture 12: (JAMIE) Proteomics & Expression and Project 2 reviews Lecture 12: (JAMIE) Proteomics & Expression and Project 2 reviews
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  • Attachment
    ChallengeProblem6_R.nb.html ChallengeProblem6_R.nb.html
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  • Attachment
    ChallengeProblem6_python_answerkey.html ChallengeProblem6_python_answerkey.html
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Week 9: February 28 - March 4

Week 9: February 28 - March 4
Module Completed Module In Progress Module Locked
Week 9: February 28 - March 4 172976  
  • Quiz
    Project 2C: Draft 1 of your Jupyter Notebook and Self-Assessment Project 2C: Draft 1 of your Jupyter Notebook and Self-Assessment
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Assignment
    Challenge Problem #7: Searching the PDB and Viewing Protein Structures Challenge Problem #7: Searching the PDB and Viewing Protein Structures
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Assignment
    Video: README files and GitHub Video: README files and GitHub
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Assignment
    EC: Internship Applications EC: Internship Applications
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Attachment
    Overview of Bioinformatics Methods.pptx Overview of Bioinformatics Methods.pptx
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Page
    Alternative Problem 2 Rubric Alternative Problem 2 Rubric
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Attachment
    Lecture 13_ Project 2 Example Review & Structural Bioinformatics.pdf Lecture 13_ Project 2 Example Review & Structural Bioinformatics.pdf
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Attachment
    Lecture 13: (JAMIE) Introduction to Structural Bioinformatics Lecture 13: (JAMIE) Introduction to Structural Bioinformatics
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Assignment
    Lecture 14: Structural Bioinformatics ACE2 PyMol Video Lecture 14: Structural Bioinformatics ACE2 PyMol Video
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Attachment
    Lecture 14: (JAMIE) Structural Bioinformatics with PyMol Lecture 14: (JAMIE) Structural Bioinformatics with PyMol
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Attachment
    ChallengeProblem7_python_answerkey.html ChallengeProblem7_python_answerkey.html
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete

Week 10: March 7-11

Week 10: March 7-11
Module Completed Module In Progress Module Locked
Week 10: March 7-11 172977  
  • Quiz
    Project 2D: Submit Final Jupyter or R Notebook Project 2D: Submit Final Jupyter or R Notebook
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Quiz
    Exit Survey Exit Survey
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Assignment
    EC Video: Drug Discovery EC Video: Drug Discovery
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Attachment
    Lecture 15_ Structural Bioinformatics & Drug Discovery.pdf Lecture 15_ Structural Bioinformatics & Drug Discovery.pdf
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Attachment
    Lecture15:[JAMIE]SWISS_Model&MovieImbedding.mp4 Lecture15:[JAMIE]SWISS_Model&MovieImbedding.mp4
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Attachment
    DrugDiscoveryPresentations_Winter2022.mp4 DrugDiscoveryPresentations_Winter2022.mp4
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Attachment
    Maestro Tutorial.mp4 Maestro Tutorial.mp4
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Attachment
    Save.mov Save.mov
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
 
minimum score must view must submit must contribute