aidanva (aida.andrades@gmail.com)
2023-06-30 14:02:29

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James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-06-30 14:02:45

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2023-06-30 14:02:45

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2023-07-01 15:33:35

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2023-07-05 14:19:35

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Pete Heintzman (peteheintzman@gmail.com)
2023-07-10 10:03:00

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Pete Heintzman (peteheintzman@gmail.com)
2023-07-10 10:10:43

Here’s a fun one: https://iiif.elifesciences.org/lax/73346%2Felife-73346-fig2-figsupp8-v2.tif/full/1500,/0/default.jpg

This is in line with the DNA nucleotide misincorporation profiles expected for the type of DNA library constructed (Seguin-Orlando et al., 2015), which was caused by the Q5 polymerase being unable to read through 5' uracils, thereby excluding the typical 5' excess of C-to-T.

aidanva (aida.andrades@gmail.com)
2023-07-10 10:12:40

oh, that’s a cool one indeed

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-10 10:32:51

Which paper is that from?

Pete Heintzman (peteheintzman@gmail.com)
2023-07-10 10:36:31

https://elifesciences.org/articles/73346

eLife
❤️ James Fellows Yates
James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-10 10:40:48

Do you happen to know/have/see the BAMs/raw damage patterns?

Pete Heintzman (peteheintzman@gmail.com)
2023-07-10 10:58:50

BAMs are here: https://www.ebi.ac.uk/ena/browser/view/PRJEB44527

ebi.ac.uk
❤️ James Fellows Yates
Nihan D Dagtas (dagtas.nd@gmail.com)
2023-07-18 20:51:23

@Nihan D Dagtas has joined the channel

Nihan D Dagtas (dagtas.nd@gmail.com)
2023-07-18 20:54:22

Hi, made this 101-level sketch for 'Single stranded DNA Libraries'. If you like it I may try to improve 😅

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-18 21:54:39

*Thread Reply:* YEEEASSSAS

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-18 21:54:46

*Thread Reply:* Keep going!

Nihan D Dagtas (dagtas.nd@gmail.com)
2023-07-25 11:14:20

*Thread Reply:* How bout this?

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-25 11:23:43

*Thread Reply:* LOVE IT

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-25 11:24:01

*Thread Reply:* However now I think about it... could we have some rights/permissions issues for using his likeness... do you know?

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-25 11:25:24

*Thread Reply:* 😕

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-25 11:25:37

*Thread Reply:* But I really love the concept and idea 😄

Nihan D Dagtas (dagtas.nd@gmail.com)
2023-07-25 12:19:32

*Thread Reply:* Haha have no clue about the rights issue...wish I thought about it before drawing for hours 😂

Nihan D Dagtas (dagtas.nd@gmail.com)
2023-07-25 12:34:10

*Thread Reply:* This is where I took the pic from, and they say it's Fair Use. Would that be okay? https://www.wikiart.org/en/philippe-halsman/salvador-dali-1953

www.wikiart.org
James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-25 12:44:49

*Thread Reply:* Mmmmm

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-25 12:44:59

*Thread Reply:*

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-25 12:45:04

*Thread Reply:* I guess we won't make money off of it...

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-25 12:45:51

*Thread Reply:* I'll just put a big disclaimer 😄

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-25 12:46:01

*Thread Reply:* Could you send me the raw file(S)?

Nihan D Dagtas (dagtas.nd@gmail.com)
2023-07-25 13:11:10

*Thread Reply:* What format is preferred?

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-25 13:11:33

*Thread Reply:* Inkscape SVG would be perfect 😄

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-25 13:11:42

*Thread Reply:* As then I can re-export/convert as necessary (I also use it 🙂 )

Nihan D Dagtas (dagtas.nd@gmail.com)
2023-07-25 13:17:56

*Thread Reply:* Here it is. Hope it won't cause trouble, apologies in advance 🥲

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-25 13:19:22

*Thread Reply:* 🎉

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-25 13:19:34

*Thread Reply:* You're based in Israel atm, right? (work wise)

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-25 13:22:00

*Thread Reply:* Eheheheh that's so cool, thank you @Nihan D Dagtas

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-25 13:22:04

*Thread Reply:* OPened perfectly 🙂

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-25 13:22:10

*Thread Reply:* (did you manually draw all the cells?!)

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-25 13:30:28

*Thread Reply:* Oooh actually, could you make a very slight tweak?

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-25 13:30:36

*Thread Reply:* Could you make the upper lip blue 😬

Nihan D Dagtas (dagtas.nd@gmail.com)
2023-07-25 13:31:46

*Thread Reply:* Yes I can, and I'm in Tel Aviv yep

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-25 13:32:39

*Thread Reply:* But otherwise will look like this 😄

:mask_parrot: Nihan D Dagtas
Nihan D Dagtas (dagtas.nd@gmail.com)
2023-07-25 13:41:26

*Thread Reply:* Here with blue lip. I apparently ignored the contaminated sample completely 😂

🤩 James Fellows Yates
James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-25 13:50:21

*Thread Reply:* https://github.com/SPAAM-community/little-book-of-smiley-plots/pull/21

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-25 13:50:44

*Thread Reply:* All good @Nihan D Dagtas? and IC an merge it in 🙂

Nihan D Dagtas (dagtas.nd@gmail.com)
2023-07-25 14:03:39

*Thread Reply:* Yes perfect, thanks for the opportunity. It was fun to make 🤗

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-07-25 14:03:51

*Thread Reply:* 🎉

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2023-07-18 23:12:00

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2023-07-19 16:40:10

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2023-07-23 10:53:15

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2023-07-25 00:55:51

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2023-07-27 14:38:34

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2023-07-27 15:55:48

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2023-08-04 10:24:51

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2023-08-04 14:51:25

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2023-08-25 23:59:03

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Keri Burge (keri.burge@gmail.com)
2023-08-26 00:04:58

Sorry if this is the wrong place to ask, but I've noticed that all my damage plots for single stranded libraries are not symmetric on the y-axis (figure attached). The 3' end consistently has a lower frequency across all my samples. I do see symmetry for my double stranded samples though. Could anyone explain why this is? The examples I have seen for single stranded libraries seem to be symmetric on the 5' and 3' ends.

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-08-26 16:17:53

*Thread Reply:* I would also like to know!

James Fellows Yates (james_fellows_yates@eva.mpg.de)
2023-08-26 16:18:14

*Thread Reply:* I vaguely remember someone describing it at some point but I can't remember who

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2023-10-12 04:39:40

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2024-05-09 14:40:51

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2024-05-23 12:12:09

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2024-05-27 17:39:15

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