Difference between revisions of "20.109(S18):Journal club presentations (Day6 and 7)"

Overview and logistics

You will complete this assignment individually. Please review the 20.109 statement on collaboration and integrity as you proceed.

In Module 1, you delivered a mini-presentation that was focused on your research project. For this assignment, you will present work completed by other scientists that has been peer-reviewed and published. Reading, understanding, and explaining research related to your project are all important skills that will be important as you flex your scientist muscles.

As you prepare your talk be sure to review the resources provided on the Communication tab. In addition, please use the following link to view the full video from Susan McConnell: Designing effective scientific presentations.

On both journal club presentation days, we will meet in 16-336 and begin at 1:05 pm sharp. Presenters should arrive early and will be able to check their slides on the large screen.

Method of submission

Please submit your completed Journal club slides on the date of your presentation by 1 pm to Stellar, with filename Name_LabSection_Mod2.doc (for example, NoreenLyell_TR_Mod2.doc).

The choice of presentation order will be given to students who submitted their slides earliest.

Length and format of presentations

You will have 10 minutes to discuss the journal article you select. It may be very difficult, or impossible, to discuss all of the figures within the article adequately in only 10 minutes. Therefore, this assignment is not only to present the work, but also to identify the data that is most important to the conclusions. It is also critical to consider how your presentation 'flows' from one experiment to the next. As when you write your own research, you want to deliver a coherent story during your journal presentation.

Format considerations

The timing provided here is for a 10-minute presentation. For longer presentations, the slide count and proposed times may be increased proportionally.

Helpful hints

• A 10-minute talk is NOT a 30-minute talk given while racing through slides and speaking very quickly.
• Consider ways to transition from one slide to the next to ensure the information is tied together.
• Practice your presentation in front of people rather than in a room by yourself and practice several times!
• Familiarize yourself with using a laser pointer and/or slide changer if you will use one during the actual presentation.
• If you do choose to use a pointer, use it to direct attention to specific elements on the screen, rather than constantly gesturing in the general vicinity of your slide; otherwise, the audience will not know what's important. When you later make your own slides and figures, the apparent need for a pointer may actually mean you need to make a clearer slide.

Article selection

You may choose to select a journal article from those provided by the teaching faculty or you can select an article that is related to your Module 2 research from any peer-reviewed journal.

• If you choose an article from below, please "reserve" it by putting your (initials/lab section/team color) next to the listing here.
  • For visibility, please use the following format to sign up if possible, substituting in your own initials and team color: <font color = purple><b>[EF/WF/Purple]</b></font color>, which will look like [EF/WF/Purple]. Thanks!
• If you would like to discuss a paper not on the list below, please email it (as .pdf) to the teaching faculty (Noreen, Leslie, and Josephine) with a brief description of the work.
  • The list of papers below is provided as a guideline for the types of papers that might be relevant for your presentation. You are not limited to the primary research articles on this list. The list is provided simply to give you an idea of the kinds of subjects that could make suitable presentations for the class. Feel free to search PubMed yourself to find articles of interest to you.
• The same paper may be presented by a T/R and a W/F student, but may only be presented once per section.

If the links below do not work, the easiest way to locate each paper is to type the "PMID" (PubMed identifier) in at the PubMed website. If that approach gives you an error for some reason, or in future cases where you might not know the PMID, you can try typing the title of your article into PubMed to find it. If you have trouble accessing your article directly from there, go to http://libraries.mit.edu/vera, which is MIT's collection of journals online. Try selecting "exact title" from the search pulldown menu if the name of your journal is a common word such as Science. For older articles, you need to choose the JSTOR rather than Highwire interface.

1. Ahmed, E. A. et al. DNA double strand break response and limited repair capacity in mouse elongated spermatids. (2015) Int J Mol Sci. PMID:26694360
2. Banerjee, R. et al. TRIP13 promotes error-prone nonhomologous end joining and induces chemoresistance in head and neck cancer. (2014) Nat Comm. PMID:25078033
3. Borràs-Fresneda, M. et al. "Differences in DNA Repair Capacity, Cell Death and Transcriptional Response after Irradiation between a Radiosensitive and a Radioresistant Cell Line." (2016) Nat Sci Reports. PMID:27245205
4. Chang, H-Y. et al. RON nuclear translocation under hypoxia potentiates chemoresistance to DNA double-strand break-inducing anticancer drugs. (2016) Mol Cancer Ther. PMID:26772202
5. Chang, C-F. et al. PHRF1 promotes genome integrity by modulating non-homologous end-joining. (2015) PMID:25855964
6. Chaudhuri, A.R. et al. "Replication fork stability confers chemoresistance in BRCA-deficient cells." (2016) Nature PMID:27443740 [DR/TR/Blue]
7. Chen, P. et al. Thrombospondin-1 might be a therapeutic target to suppress RB cells by regulating the DNA double-strand breaks repair. (2016) PMID:26756218
8. Gelot, C. et al. The cohesin complex prevents the end joining of distant DNA double-strand ends. (2016) Mol Cell. PMID:26687679
9. Ismail, I. H. et al. The RNF138 E3 ligase displaces Ku to promote DNA end resection and regulate DNA repair pathway choice. (2014) Nat Cell Biol. PMID:26502055
10. Kraft, D. et al. NF-KB-dependent DNA damage-signaling differentially regulates DNA double-strand break repair mechanisms in immature and mature human hematopoietic cells. (2015) Leukemia. PMID:25652738
11. Lee, K-J. et al. Phosphorylation of Ku dictates DNA double-strand break (DSB) repair pathway choice in S phase. (2015) Nuc Acids Res. PMID:26712563
12. Liang, Z. et al. Overhang polarity of chromosomal double-strand breaks impacts kinetics and fidelity of yeast non-homologous end joining. (2016) Nuc Acids Res. PMID:26773053
13. Maggio, I. et al. Selection-free gene repair after adenoviral vector transduction of designer nucleases: rescue of dystrophin synthesis in DMD muscle cell populations. (2016) Nuc Acids Res. PMID:26762977
14. Marampon, F. et al. Cyclin D1 silencing suppresses tumerigenicity, impairs DNA double strand break repair and thus radiosensitizes androgen-independent prostrate cancer cells to DNA damage. (2015) Oncotarget. PMID:26689991
15. Ohe, C. et al. Transient RNA-DNA hybrids are required for efficient double-strand break repair. (2016) Cell. PMID:27881299 [JM/TR/White]
16. Ren, C. et al. Dual-reporter surrogate systems for efficient enrichment of genetically modified cells. (2015) Cell Mol Life Sci. PMID:25725802
17. Suzuki, A. et al. Gene expression analysis using strains constructed by NHEJ-mediated one-step promoter cloning in the yeast Kluymeromyces marxianus. (2015) FEMS Yeast Res. PMID:26136515
18. Velez-Cruz, R. et al. RB localizes to DNA double-strand breaks and promotes DNA end resection and homologous recombination through the recruitment of BRG1. (2016) Genes Dev. PMID:27940962
19. Wang, G. et al. CRISPR-Cas9 can inhibit HIV-1 replication but NHEJ repair facilitates virus escape. (2016) Mol Therapy. PMID:26796669 [SC/TR/Purple]
20. Zhang, Q. et al. FBXW7 facilitates nonhomologous end-joining via K63-linked polyubiquitylation of XRCC4. (2016) Mol Cell. PMID:26774286
21. Zhang, W. et al. SIRT1 inhibition impairs non-homologous end joining DNA damage repair by increasing Ku70 acetylation in chronic myeloid leukemia cells. (2015) Oncotarget. PMID:26646449
22. Zhou, Y. et al. Regulation of the DNA damage response by DNA-PKcs inhibitory phosphorylation of ATM. (2016) Cell Press. PMID:27939942
23. Zhu, L. et al. CRISPR/Cas9-mediated knockout of factors in hon-homologous end joining pathway enhances gene targeting in silkworm cells. (2015) Nat Sci Reports. PMID:26657947

Presentation day reservation

Please put your name under the day you wish to present. The order here does not determine speaker order.

Navigation links

Next day: Induce DNA damage and apply drug treatments for cell viability and identification of regulatory motifs in RNA-seq data