Elinne Becket, PhD
@bielleogy.bsky.social
Assoc Prof @CSUSM | 🦠⇄🦠 MGEs & coastal metagenomes | #BlueSoup 🥣🧬 🧫 | R1→Biotech→PUI | Protective mama bear of students | She/Her
Pinned
Ok I'm outing myself here but there was forgotten beef soup in our fridge we just cleaned it out and it was BLUE?!?!? Wtf contam would make it blue??? Like BRIGHT blue!! 🤢🤮 Even w/ all my years in micro I'm not handling this well.
All important #BlueSoup updates, from me or Sebastian, will be added in line with the original thread here (it's run a little long so you need to click "show replies" at the bottom):
Reposted by Elinne Becket, PhD
☕ @katerinakraft.bsky.social @sedonamurphy.bsky.social @mattjones.bsky.social et al. identify extrachromosomal DNA(ecDNA)-interacting elements (EIEs) enriched for #TransposableElements in #ColorectalCancer. EIE 14 integrated within ecDNA acts as an enhancer to promote cancer fitness.
bit.ly/49iFC7C
bit.ly/49iFC7C
Enhancer activation from transposable elements in extrachromosomal DNA - Nature Cell Biology
Kraft, Murphy, Jones et al. identify extrachromosomal DNA (ecDNA)-interacting elements (EIEs) enriched for transposable elements within ecDNA in colorectal cancer cells. They show that EIE 14 integrat...
bit.ly
November 16, 2025 at 8:29 AM
☕ @katerinakraft.bsky.social @sedonamurphy.bsky.social @mattjones.bsky.social et al. identify extrachromosomal DNA(ecDNA)-interacting elements (EIEs) enriched for #TransposableElements in #ColorectalCancer. EIE 14 integrated within ecDNA acts as an enhancer to promote cancer fitness.
bit.ly/49iFC7C
bit.ly/49iFC7C
Reposted by Elinne Becket, PhD
Sounds similar to what Allison Carruth created at UCLA IOES. One of the best courses I took as an EnviroSci student and really shaped my knowledge of SciComm.
Her personal website is also pretty great - allisoncarruth.com
Her personal website is also pretty great - allisoncarruth.com
Laboratory for Environmental Narrative Strategies — Institute of the Environment and Sustainability at UCLA
www.ioes.ucla.edu
November 16, 2025 at 11:56 PM
Sounds similar to what Allison Carruth created at UCLA IOES. One of the best courses I took as an EnviroSci student and really shaped my knowledge of SciComm.
Her personal website is also pretty great - allisoncarruth.com
Her personal website is also pretty great - allisoncarruth.com
Given current headlines, I will share that at 15 I was in a secret relationship with someone 11 years my senior, which inherently was abusive and became explicitly emotionally and physically abusive. I can categorically say that 15 yos are not capable of informed consent w/ adult relationships.
November 16, 2025 at 11:59 PM
Given current headlines, I will share that at 15 I was in a secret relationship with someone 11 years my senior, which inherently was abusive and became explicitly emotionally and physically abusive. I can categorically say that 15 yos are not capable of informed consent w/ adult relationships.
I'm stoked next semester to collab with our Literature & Writing colleagues to pilot a general education writing course that combines humanities and life science discipline-specific student learning outcomes. Let's see how this goes 🤞🏻🤞🏻
November 16, 2025 at 11:51 PM
I'm stoked next semester to collab with our Literature & Writing colleagues to pilot a general education writing course that combines humanities and life science discipline-specific student learning outcomes. Let's see how this goes 🤞🏻🤞🏻
Oh goody, a lab report with pages of vague, empty, uncited text. I wonder where these words came from.
November 16, 2025 at 10:24 PM
Oh goody, a lab report with pages of vague, empty, uncited text. I wonder where these words came from.
Reposted by Elinne Becket, PhD
I'm assembling a denovo genome of a new pseudomonadota (ONT r10), and barrnap is consistently unable to resolve the 5S site(s) from what should be a fully circularized and decently polished output. Based on the 16S and 23S hits there should at least be 3 5S.
What could be happening here? 🤔
🧫🦠
What could be happening here? 🤔
🧫🦠
November 15, 2025 at 9:23 PM
I'm assembling a denovo genome of a new pseudomonadota (ONT r10), and barrnap is consistently unable to resolve the 5S site(s) from what should be a fully circularized and decently polished output. Based on the 16S and 23S hits there should at least be 3 5S.
What could be happening here? 🤔
🧫🦠
What could be happening here? 🤔
🧫🦠
Reposted by Elinne Becket, PhD
I am constantly surprised by people, including journalists, wringing their hands when confronted with the consequences of their actions or inactions, and then turning around to still try to make a crapload of money from the experience.
November 14, 2025 at 10:21 PM
I am constantly surprised by people, including journalists, wringing their hands when confronted with the consequences of their actions or inactions, and then turning around to still try to make a crapload of money from the experience.
Reposted by Elinne Becket, PhD
A new approach to pandemic preparedness:
1️⃣ Stop preparing for pandemics
2️⃣ Rewrite history of the last major pandemic
3️⃣ Go to the gym
Simple - 🤷♂️.
www.city-journal.org/article/nih-...
1️⃣ Stop preparing for pandemics
2️⃣ Rewrite history of the last major pandemic
3️⃣ Go to the gym
Simple - 🤷♂️.
www.city-journal.org/article/nih-...
NIH Directors: The World Needs a New Pandemic Playbook
The old one failed to cope with Covid and may even have caused it.
www.city-journal.org
November 14, 2025 at 3:21 PM
A new approach to pandemic preparedness:
1️⃣ Stop preparing for pandemics
2️⃣ Rewrite history of the last major pandemic
3️⃣ Go to the gym
Simple - 🤷♂️.
www.city-journal.org/article/nih-...
1️⃣ Stop preparing for pandemics
2️⃣ Rewrite history of the last major pandemic
3️⃣ Go to the gym
Simple - 🤷♂️.
www.city-journal.org/article/nih-...
I know my dog hates the rain but I get to see her in her raincoat 🤩
November 14, 2025 at 6:58 PM
I know my dog hates the rain but I get to see her in her raincoat 🤩
👇🏻👇🏻👇🏻 This. I spend most of my time helping them unlearn bad habits, THEN teaching them good ones.
we don't talk enough about the damage that widespread chromebook adoption by schools has done to computer literacy in children
November 14, 2025 at 6:51 PM
👇🏻👇🏻👇🏻 This. I spend most of my time helping them unlearn bad habits, THEN teaching them good ones.
For the love of god, people, do NOT cut off big rigs! For so, so many reasons.
November 14, 2025 at 12:42 AM
For the love of god, people, do NOT cut off big rigs! For so, so many reasons.
Reposted by Elinne Becket, PhD
“Bin Chicken” is now published in Nature Methods! It substantially improves genome recovery through rational coassembly 🧬🖥️. Applied to public 🌍 metagenomes, we recovered 24,000 novel species 🦠, including 6 new phyla.
doi.org/10.1038/s415...
@benjwoodcroft.bsky.social @rhysnewell.bsky.social
🧵1/6
doi.org/10.1038/s415...
@benjwoodcroft.bsky.social @rhysnewell.bsky.social
🧵1/6
November 13, 2025 at 10:09 AM
“Bin Chicken” is now published in Nature Methods! It substantially improves genome recovery through rational coassembly 🧬🖥️. Applied to public 🌍 metagenomes, we recovered 24,000 novel species 🦠, including 6 new phyla.
doi.org/10.1038/s415...
@benjwoodcroft.bsky.social @rhysnewell.bsky.social
🧵1/6
doi.org/10.1038/s415...
@benjwoodcroft.bsky.social @rhysnewell.bsky.social
🧵1/6
Reposted by Elinne Becket, PhD
NSF is open again!
A few comments:
*Please be patient.
During a shutdown NSF employees cannot open computers or respond to emails.
*Merit review will continue. However panels won’t resume until after Dec 8th.
*POs remain excited and committed to advancing science and the scientific workforce.
A few comments:
*Please be patient.
During a shutdown NSF employees cannot open computers or respond to emails.
*Merit review will continue. However panels won’t resume until after Dec 8th.
*POs remain excited and committed to advancing science and the scientific workforce.
November 13, 2025 at 5:58 PM
NSF is open again!
A few comments:
*Please be patient.
During a shutdown NSF employees cannot open computers or respond to emails.
*Merit review will continue. However panels won’t resume until after Dec 8th.
*POs remain excited and committed to advancing science and the scientific workforce.
A few comments:
*Please be patient.
During a shutdown NSF employees cannot open computers or respond to emails.
*Merit review will continue. However panels won’t resume until after Dec 8th.
*POs remain excited and committed to advancing science and the scientific workforce.
Reposted by Elinne Becket, PhD
Assembly, architecture and functional roles of microbial surface layers www.nature.com/articles/s41... #jcampubs
Assembly, architecture and functional roles of microbial surface layers - Nature Reviews Microbiology
Surface layers (S-layers) are ubiquitous protein assemblies that coat prokaryotic cells, with their functional roles increasingly coming into focus. In this Review, Isbilir and colleagues discuss rece...
www.nature.com
November 13, 2025 at 7:44 PM
Assembly, architecture and functional roles of microbial surface layers www.nature.com/articles/s41... #jcampubs
Reposted by Elinne Becket, PhD
These two arguing about the proper conduct of science is like a pair of sewer rats arguing about French cooking techniques after finding a four day old soufflé in the dumpster
JD Vance: "Science as practiced in its best form is that if you disagree with it, then you ought to criticize it and you ought to argue against it."
November 12, 2025 at 9:16 PM
These two arguing about the proper conduct of science is like a pair of sewer rats arguing about French cooking techniques after finding a four day old soufflé in the dumpster
Reposted by Elinne Becket, PhD
Refinding joy in exploring streamflow data 😍 just looking at the stories gages tell about rivers.
Here’s the Allagash River (ME), 1980–2020. Each line: a year of daily flow (Jan–Dec). Colors show each day compared to normal: green ≈ normal, blue = high, red = low. 🌊💧
#Hydrology #DataViz #sciArt
Here’s the Allagash River (ME), 1980–2020. Each line: a year of daily flow (Jan–Dec). Colors show each day compared to normal: green ≈ normal, blue = high, red = low. 🌊💧
#Hydrology #DataViz #sciArt
November 12, 2025 at 6:54 PM
Refinding joy in exploring streamflow data 😍 just looking at the stories gages tell about rivers.
Here’s the Allagash River (ME), 1980–2020. Each line: a year of daily flow (Jan–Dec). Colors show each day compared to normal: green ≈ normal, blue = high, red = low. 🌊💧
#Hydrology #DataViz #sciArt
Here’s the Allagash River (ME), 1980–2020. Each line: a year of daily flow (Jan–Dec). Colors show each day compared to normal: green ≈ normal, blue = high, red = low. 🌊💧
#Hydrology #DataViz #sciArt
Just spent a sesh going over my lab student's PhD app personal statement, and omg how she's grown as a writer and scientist. My heart is absolutely singing for stuff like this.
November 13, 2025 at 3:09 AM
Just spent a sesh going over my lab student's PhD app personal statement, and omg how she's grown as a writer and scientist. My heart is absolutely singing for stuff like this.
Reposted by Elinne Becket, PhD
I feel like I spend half my life arguing with angry HPC admins who complain that our files are too big/we're filling up the nodes. Dude that's exactly why we pay 100s of 1000s of $ to purchase nodes and file systems!! Not for them to just sit around.
a gray and white cat is sitting on the floor looking at the camera .
ALT: a gray and white cat is sitting on the floor looking at the camera .
media.tenor.com
November 12, 2025 at 5:42 PM
I feel like I spend half my life arguing with angry HPC admins who complain that our files are too big/we're filling up the nodes. Dude that's exactly why we pay 100s of 1000s of $ to purchase nodes and file systems!! Not for them to just sit around.
Reposted by Elinne Becket, PhD
Reposted by Elinne Becket, PhD
Python Coding challenge - Day 840| What is the output of the following Python Code?
Answer with Explanation: www.clcoding.com/2025/11/pyth...
Answer with Explanation: www.clcoding.com/2025/11/pyth...
November 11, 2025 at 5:09 AM
Python Coding challenge - Day 840| What is the output of the following Python Code?
Answer with Explanation: www.clcoding.com/2025/11/pyth...
Answer with Explanation: www.clcoding.com/2025/11/pyth...
Reposted by Elinne Becket, PhD
Why tf am I just learning this now wtf
TIL that blood platelets have serotonin receptors, which is why anemia can mimic depression symptoms and that is absolutely fucking fascinating.
November 10, 2025 at 10:35 PM
Why tf am I just learning this now wtf
Reposted by Elinne Becket, PhD
PSA for people with NIH grant periods starting January 1st (including most NIGMS MIRAs): your RPPR is due Saturday, but they haven’t sent out the usual automated reminders, presumably due to the shutdown
November 11, 2025 at 1:20 AM
PSA for people with NIH grant periods starting January 1st (including most NIGMS MIRAs): your RPPR is due Saturday, but they haven’t sent out the usual automated reminders, presumably due to the shutdown
I really hope this is the correct interpretation
Folks, we need to have a little Civics #101 chat, because apparently the media no longer seems fit to explain to you whats happening.
So quick review:
The House passed a clean CR.
The senate has not passed anything.
So quick review:
The House passed a clean CR.
The senate has not passed anything.
November 10, 2025 at 5:17 AM
I really hope this is the correct interpretation
This exactly
How about we shut down the government for this very popular and specific goal and then, hear me out, we hold out for like a month and a half and then, ok this part is important, after a watershed election where we ran the table, ONLY THEN, fold and don't get the one thing we said we wanted.
November 10, 2025 at 5:01 AM
This exactly
I was having a good night whyyyyyyyy did I open social media
November 10, 2025 at 4:12 AM
I was having a good night whyyyyyyyy did I open social media