Thesis/slides-notes.org

• Notes from lab meeting practice run
  • Mechanical issues
  • Presentation issues
  • Content issues
• Notes from Sabah
• Useful links

Notes from lab meeting practice run

DONE Mechanical issues

• Blurry slide changes

  • Solution: use Acrobat for presenting

• Use widescreen aspect ratio – option to show 2 figures side by side

• Header is hard to read/easy to ignore because of color scheme. Consider dark text on white bg instead.

• No figure numbers

• No chapter numbers, just "3 parts"

• Way to display speaker notes alongside slides? Maybe import into PPT?

  • https://pandoc.org/MANUAL.html#speaker-notes

TODO Presentation issues

• Bigger axis labels

• Better cluster ordering, labeling, and transpose violin plots for consistency

• Whenever possible: micro first to introduce the plot, then macro to show the full plot

• For PCoA plots, show just one donor at a time first to show the trend in a simpler context

TODO Content issues

• Maybe show more preprocessing, batch correction, etc.

• Tie conclusions back to intro, add future directions

• Intro slide for MOFA: how and why

• Too many bullet points. Don't need to write everything I say. Move to speaker notes.

• Intro the histone marks and why we picked them

• Brief 30 second intro to RNA-seq & ChIP-seq

• Rephrase 3 topics as questions/hypotheses

• Talk about 3 main take-home points at the beginning as well as the end

• On summary slides, bullets on left, image on right for each bullet

• Time was around 40 minutes, so add at least 5 minutes of content

• Keep reserve slides at the end with cut figures in case they come in handy for answering audience questions

DONE Notes from Sabah

• Slide 1: Is the title final? If not, would adjust to (also note space in title slide for bioinformaticsanalysis) "Bioinformatic analysis of genomic and epigenomic data in the context of CD4+T-cell differentiation and diagnosis and treatment of transplant rejection"

• Slide with organ bar chart: Adjust title to 'Organ donation statistics for the USA in 2018', remove from bottom and make image itself bigger

• What's the connection between organ transplant, graft rejection, and immune response? Make that clear in the transition between slides. We now want to know about graft rejection because…. why? what about what we just learned with the organ transplants directly connects?

• Condense these bullet points. The previous set of bullet points is a perfect example of spacing and length readable in a short amount of time for the audience

• More time on allografting and less time on graft rejection. What is it? How does it work? Provide a brief example/image right before the chart

• Rejection and immmuno suppressive drugs – this is a great transition (well explained) but again the bullet points need to be condensed. Bring in an image with these as well to give the audience 'a visual break' before you intro your topics

• I like the update to thesis topics. I would adjust such that 'my thesis topics' is replaced with the overarching question you want to answer for these 3 topics and make that the heading.

• Then, introduce the 3 topics in the next slide (blue font of topic 1, 2… etc)

• Then, introduce the additional text for each topic in the next slide

• You have the 'memory cells' slides repeated 4x, and I see that you're highlighting different sections each time. Pair the heading to match with this (what you want to say in each as the take-home) > having the same heading repeated

Useful links

• https://pandoc.org/MANUAL.html#speaker-notes