John Prensner
@johnprensner.bsky.social
Pediatric neuro-oncologist, Asst Prof U-Michigan | Cancer researcher | RNA & ribosome enthusiast | Broad Institute, DFCI alum | book & music & tea lover | Dad | Views are mine (he/him). https://prensnerlab.org
Supporting the #chadtough run to support #DMG/DIPG research for children with #childhoodcancer. What a great run!
September 28, 2025 at 5:52 PM
Supporting the #chadtough run to support #DMG/DIPG research for children with #childhoodcancer. What a great run!
Back to school shopping with kids, and seeing the 90s baggy sign, and remembering that my 90s baggy pants are actually from the 90s, and reflecting on how time passes….
August 30, 2025 at 7:26 PM
Back to school shopping with kids, and seeing the 90s baggy sign, and remembering that my 90s baggy pants are actually from the 90s, and reflecting on how time passes….
Either way I turn, it looks like home 😉
August 22, 2025 at 9:39 PM
Either way I turn, it looks like home 😉
Saying goodbye to Giraffe the cat at the conclusion of the first ever #GRC on #microproteins #darkproteome. What a FANTASTIC meeting with worldwide and world class experts on all domains of the dark proteome. Get ready for 2027 because that is when the next of these fantastic meetings will occur!
August 22, 2025 at 7:27 AM
Saying goodbye to Giraffe the cat at the conclusion of the first ever #GRC on #microproteins #darkproteome. What a FANTASTIC meeting with worldwide and world class experts on all domains of the dark proteome. Get ready for 2027 because that is when the next of these fantastic meetings will occur!
Day 5 of the Gordon Conference on #Microproteins! Ask yourself the question, does your conference have a cat apparently named “giraffe”?
@rna-julie.bsky.social
@rna-julie.bsky.social
August 21, 2025 at 6:31 AM
Day 5 of the Gordon Conference on #Microproteins! Ask yourself the question, does your conference have a cat apparently named “giraffe”?
@rna-julie.bsky.social
@rna-julie.bsky.social
Day 3 of the #GRC on #microproteins #darkproteome with a lively discussion on mega big data analyses for human #ncORFs #sORFs! What a great group!!
August 19, 2025 at 1:19 PM
Day 3 of the #GRC on #microproteins #darkproteome with a lively discussion on mega big data analyses for human #ncORFs #sORFs! What a great group!!
Loving day 2 of the #GRC for microproteins with @rna-julie.bsky.social! Great talks this mornjng and now I can’t wait until the next one in 2027!
August 18, 2025 at 11:47 AM
Loving day 2 of the #GRC for microproteins with @rna-julie.bsky.social! Great talks this mornjng and now I can’t wait until the next one in 2027!
tl;dr
This is a new authoritative catalog of #ncORFs for your #darkproteome research. We have updated many features, and expanded substantially from the original release. You can choose to use either a Comprehensive and Primary set.
This catalog will be supported by #GENCODE in forthcoming updates.
This is a new authoritative catalog of #ncORFs for your #darkproteome research. We have updated many features, and expanded substantially from the original release. You can choose to use either a Comprehensive and Primary set.
This catalog will be supported by #GENCODE in forthcoming updates.
July 7, 2025 at 1:24 PM
tl;dr
This is a new authoritative catalog of #ncORFs for your #darkproteome research. We have updated many features, and expanded substantially from the original release. You can choose to use either a Comprehensive and Primary set.
This catalog will be supported by #GENCODE in forthcoming updates.
This is a new authoritative catalog of #ncORFs for your #darkproteome research. We have updated many features, and expanded substantially from the original release. You can choose to use either a Comprehensive and Primary set.
This catalog will be supported by #GENCODE in forthcoming updates.
Yet, we know this is ongoing work. The Primary set is biased: it's got an overrepresentation of very short ncORFs, most of which are uORFs.
Still, our goal is to democratize work on these #ncORFs, so that you can pick either the Comprehensive or Primary sets based on your needs.
Still, our goal is to democratize work on these #ncORFs, so that you can pick either the Comprehensive or Primary sets based on your needs.
July 7, 2025 at 1:24 PM
Yet, we know this is ongoing work. The Primary set is biased: it's got an overrepresentation of very short ncORFs, most of which are uORFs.
Still, our goal is to democratize work on these #ncORFs, so that you can pick either the Comprehensive or Primary sets based on your needs.
Still, our goal is to democratize work on these #ncORFs, so that you can pick either the Comprehensive or Primary sets based on your needs.
What this does is enable us to find 7,888 ncORFs with metrics similar to known protein-coding genes. This is our Primary set. We are VERY confident that these exist and they could be used for benchmarking.
July 7, 2025 at 1:24 PM
What this does is enable us to find 7,888 ncORFs with metrics similar to known protein-coding genes. This is our Primary set. We are VERY confident that these exist and they could be used for benchmarking.
But perhaps the most important aspect of this work (in my opinion) is that we provide a systematic scoring system for each ORF, so you can see how much evidence one might have.
We've got 3 of these scores
- P-sites in Frame
- Uniformity
- Drop-off score
We've got 3 of these scores
- P-sites in Frame
- Uniformity
- Drop-off score
July 7, 2025 at 1:24 PM
But perhaps the most important aspect of this work (in my opinion) is that we provide a systematic scoring system for each ORF, so you can see how much evidence one might have.
We've got 3 of these scores
- P-sites in Frame
- Uniformity
- Drop-off score
We've got 3 of these scores
- P-sites in Frame
- Uniformity
- Drop-off score
The Comprehensive Set includes >28,000 ncORFs. Notably, we now expand this reference catalog to include many of the most interesting #ncORFs that have been overlooked:
- nonAUG ORFs, such as those using CUG, GUG and UUG start codons
- tiny ORFs that are 15 codons or less.
- nonAUG ORFs, such as those using CUG, GUG and UUG start codons
- tiny ORFs that are 15 codons or less.
July 7, 2025 at 1:24 PM
The Comprehensive Set includes >28,000 ncORFs. Notably, we now expand this reference catalog to include many of the most interesting #ncORFs that have been overlooked:
- nonAUG ORFs, such as those using CUG, GUG and UUG start codons
- tiny ORFs that are 15 codons or less.
- nonAUG ORFs, such as those using CUG, GUG and UUG start codons
- tiny ORFs that are 15 codons or less.
Hey #AACR2025 if you think #microproteins and the #darkproteome might be cool, come check out my session at 12:30pm today room S406!
April 28, 2025 at 1:01 PM
Hey #AACR2025 if you think #microproteins and the #darkproteome might be cool, come check out my session at 12:30pm today room S406!
Ok not sure why the other flyer displayed as all black but here is try #2!
April 8, 2025 at 5:41 PM
Ok not sure why the other flyer displayed as all black but here is try #2!
The speaker line-up is 👀 👀 👀
Submit and abstract now using the link below, before time is up. Spots are limited!
Submit and abstract now using the link below, before time is up. Spots are limited!
April 8, 2025 at 5:40 PM
The speaker line-up is 👀 👀 👀
Submit and abstract now using the link below, before time is up. Spots are limited!
Submit and abstract now using the link below, before time is up. Spots are limited!
FIVE MONTHS UNTIL THE 2025 GORDON CONFERENCE ON MICROPROTEINS.
Sign up now, submit an abstract, and be considered for an oral abstract. You won't want to miss this:
www.grc.org/decoding-mic...
#RNAsky
#genomics
#bioinformatics
#academicsky
#microproteins
#Ribosome
#Ribo-Seq
#GENESky
🧪
🧬 💻
Sign up now, submit an abstract, and be considered for an oral abstract. You won't want to miss this:
www.grc.org/decoding-mic...
#RNAsky
#genomics
#bioinformatics
#academicsky
#microproteins
#Ribosome
#Ribo-Seq
#GENESky
🧪
🧬 💻
March 17, 2025 at 12:14 PM
FIVE MONTHS UNTIL THE 2025 GORDON CONFERENCE ON MICROPROTEINS.
Sign up now, submit an abstract, and be considered for an oral abstract. You won't want to miss this:
www.grc.org/decoding-mic...
#RNAsky
#genomics
#bioinformatics
#academicsky
#microproteins
#Ribosome
#Ribo-Seq
#GENESky
🧪
🧬 💻
Sign up now, submit an abstract, and be considered for an oral abstract. You won't want to miss this:
www.grc.org/decoding-mic...
#RNAsky
#genomics
#bioinformatics
#academicsky
#microproteins
#Ribosome
#Ribo-Seq
#GENESky
🧪
🧬 💻
I have been grappling with this question since I became an associate editor at a reputable journal. This is not MPDI or Frontiers. Getting anyone to say "yes" and then actually complete peer review is like pulling teeth. See screenshot.
Given my experiences, yes we should pay people.
Given my experiences, yes we should pay people.
March 17, 2025 at 11:40 AM
I have been grappling with this question since I became an associate editor at a reputable journal. This is not MPDI or Frontiers. Getting anyone to say "yes" and then actually complete peer review is like pulling teeth. See screenshot.
Given my experiences, yes we should pay people.
Given my experiences, yes we should pay people.
Piece of (unintended) street art, part 2
I call it:
“Hi, you’ve reached the Senate Democrats, please leave a message at the tone”
2025
I call it:
“Hi, you’ve reached the Senate Democrats, please leave a message at the tone”
2025
March 14, 2025 at 9:29 PM
Piece of (unintended) street art, part 2
I call it:
“Hi, you’ve reached the Senate Democrats, please leave a message at the tone”
2025
I call it:
“Hi, you’ve reached the Senate Democrats, please leave a message at the tone”
2025
I saw a piece of (unintended) public art today.
I call it:
"The mood in small college town, USA"
Sculpture on porch swing, 2025
#AcademicSky
I call it:
"The mood in small college town, USA"
Sculpture on porch swing, 2025
#AcademicSky
March 11, 2025 at 11:52 PM
I saw a piece of (unintended) public art today.
I call it:
"The mood in small college town, USA"
Sculpture on porch swing, 2025
#AcademicSky
I call it:
"The mood in small college town, USA"
Sculpture on porch swing, 2025
#AcademicSky
This is genius.
February 28, 2025 at 4:30 PM
This is genius.
Not the most reassuring message to receive from @verison.bsky.social when landing in Philadelphia.
I know there is a lot going on right now so I guess country borders might be shifting 🤷♂️
Anyways, #USHUPO2025 here I come!
I know there is a lot going on right now so I guess country borders might be shifting 🤷♂️
Anyways, #USHUPO2025 here I come!
February 25, 2025 at 2:01 PM
Not the most reassuring message to receive from @verison.bsky.social when landing in Philadelphia.
I know there is a lot going on right now so I guess country borders might be shifting 🤷♂️
Anyways, #USHUPO2025 here I come!
I know there is a lot going on right now so I guess country borders might be shifting 🤷♂️
Anyways, #USHUPO2025 here I come!
Where else will you get access to the leaders and best in #RiboSeq, #Immunopeptidomics, and the #DarkProteome?
It's a once-a-year chance to get into this new field and don't miss out!
It's a once-a-year chance to get into this new field and don't miss out!
February 19, 2025 at 12:50 PM
Where else will you get access to the leaders and best in #RiboSeq, #Immunopeptidomics, and the #DarkProteome?
It's a once-a-year chance to get into this new field and don't miss out!
It's a once-a-year chance to get into this new field and don't miss out!