Syllabus: PHYS 42300

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Alex Payne (alex.payne@choderalab.org), Adjunct Assistant Professor, he/him/his

Yuanqing Wang(wangyq@wangyq.net), Adjunct Assistant Professor, he/him/his

Section S, 20179 Tuesdays & Thursdays 5:00-6:15 pm EST/EDT
Office hours:

Course Description

An introduction to protein structure and molecular interactions needed for analysis of individual proteins. Focus on proteins that highlight important biophysical properties. Project-based course emphasizing reading and interpretation of the original literature. The groups of protein chosen can be biological machines, including ribosomes and protein synthesis; actin/myosin and muscle motion; kinesin/dynesin, transport, and cellular motion and deformation; and bacterial flagellar action. Alternatively the class can study processes based on transmembrane potential gradients including respiration, photosynthesis and chemiosmotic energy coupling as well as nerve function.

Open Education Statement

All notes of this class will be published in on this website under Creative Commons CC0 License. Should you wish to improve the course materials, submit issues or pull requests to this GitHub repo. This is a ZERO Textbook Cost course. Links to all mateirals will be accesible on this GitHub repo and website.

Milestones

Project	Due Dates	Points
Source-Based Essay	W4D1: Peer Review; W5D1: Final Draft	15
Inquiry-Based Research Essay	W7D1: Proposal; W8D2: First Draft; W9D1: Peer Review; W11D1: Final Draft	30
Composition in Two Genres
Presentations
Letter of Introduction and Portfolio

Agenda

Or click on first column for recordings on YouTube. Click on contents for links to notes.
Boldfaced are primary readings / materials to be discussed in class.

Day	Contents	Recommended Readings	Assignments
W1D1 🎬	Icebreaker(30 min) Course Overview(15 min)	Barthelme, Donald. "The School"
W2D1 🎬	Introduction to Key Items (15 min) Cliched Way to Tell a Story (10 min) Group Discussion of Readings (30 min)	Barthelme, Donald. "The Glass Moutain" Freud, Sigmund. "Sex in Dreams" Barthes, Roland. "The Death of the Author" Foucault, Michel. "What Is an Author"	Write a few paragraphs about the first thing you remember.
W2D2 🎬	Read Struck, William and E.B. White The Elements of Style Together (20 min) Introduction to Rhetorical Analysis (15 min) Rhetoric Analysis Group Discussion (2 options, 40 min): 432 Park Ave or Vaccination Awareness Campaign on Social Media	Struck, William and E.B. White *The Elements of Style* Dreyer, Benjamin. Dreyer’s English: An Utterly Correct Guide to Clarity and Style	Pick an item from Elements of Style that you believe to be erroneous or overgeneralizing.
W4D1 🎬	Intro to Writing Assignment 1: A Source-Based Essay (30 min) What Sources would you need?(10 min) Where to find those sources? (20 min) Peer Review (15 min)	Poe, Edgar Allan. "The Purloined Letter"
W5D1	Peer review rhtorical analysis (45 min) Discussion---Similarities and differencies (30 min) MLA Citation (30 min)	Woolf, Virginia. "A Room of One's Own"
W6D1	Discussion: Did peer review work for you? Discussion: The Rhetorical Situation(45 min)	Bitzer L. F. "The Rhetorical Situation"
W6D2 🎬	Reflections on Essay 1 Introduction to Writing Assignment 2: An Inquiry-Based Research Essay (30 min)	Zuckerman D. "Scientific Writing Checklist" Hilma af Klint: Paintings for the Future
W7D1 🎬	Exercise: Are these good research questions? (10 min) What defines a good research question? (30 min) An Example of Research Proposal (5 min) How to write research proposals? (30 min)	Sudheesh K. et al. "How to write a research proposal?" Privitera, Gregory J. "Introduction to Hypothesis Testing"Statistics for the Behavioral Sciences Chapter 8	Refine your research proposal. Due W7D2. Find your own model essay.
W7D2 🎬	Review Research Proposal (20 min) Polish Your Research Proposal (20 min) Genre and Design (10 min) Introduction to Markdown (10 min) Introduction to Latex (5 min)	Wang, Weike. "Omakase" Este, Angie. "San Serif" The Poem is You
W11D1	Introduction to Essay 3: Composition in Two Genres
W11D2	Brainstorm: Audience Strategy

Course Learning Outcomes

Explore and analyze, in writing and reading, a variety of genres and rhetorical situations.
Develop strategies for reading, drafting, collaborating, revising, and editing.
Recognize and practice key rhetorical terms and strategies when engaged in writing situations.
Engage in the collaborative and social aspects of writing processes.
Understand and use print and digital technologies to address a range of audiences.
Locate research sources (including academic journal articles, magazine and newspaper articles) in the library’s databases or archives and on the Internet and evaluate them for credibility, accuracy, timeliness, and bias.
Compose texts that integrate your stance with appropriate sources using strategies such as summary, critical analysis, interpretation, synthesis, and argumentation.
Practice systematic application of citation conventions.

First-Year Composition Mission Statement

First-year composition courses at CCNY teach writing as a recursive and frequently collaborative process of invention, drafting, and revising. Writing is both personal and social, and students should learn how to write for different purposes and audiences. Since writing is a process of making meaning and communicating, FYC teachers respond mainly to the content of students’ writing as well as to recurring surface errors. Students should expect frequent written and oral responses on the content of their writing from their teachers and peers. Classes rely heavily on a workshop format. Instruction emphasizes the connection between writing, reading, and critical thinking; students should give thoughtful, reasoned responses to the readings. Both reading and writing are the subjects of class discussions and workshops, and students are expected to be active participants in the classroom community. Learning from each other will be a large part of the classroom experience.

Other Recommended Texts for this Class. (You don't have to read any one them.)

Where you can read for FREE ✨

Other Open Education Resources

Grading

You will be graded based on the frequency and quality of attendance and submission of assignements. (You will get an A or A+ if you want to. 🤫)

Plagiarism and Academic Integrity (just don't do it.)

Plagiarism is copying and using other people’s words without proper acknowledgment or citation as it is indicated in the CUNY Policy on Academic Integrity. All writing submitted for this course is understood to be your original work. Plagiarism is unacceptable and has serious consequences that can include a failing grade. In cases where I detect academic dishonesty (the fraudulent submission of another’s work, in whole or part, as your own), you may be subject to a failing grade for the project or the course, and, in the worst case, to academic probation or expulsion. You are expected to read, understand, and adhere to CCNY’s Policy on Academic Integrity, which is available here: http://www1.ccny.cuny.edu/current/upload/Academic-Integrity-Policy.pdf .

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