Ashley B. Cohen
@ashleybrookecohen.bsky.social
NRC Research Fellow at the U. S. Naval Research Laboratory. Machine learning, AI x bioinformatics, Stony Brook University alumna, Low-O2 biogeochemistry. Drummer! Athletics. Native NYer. Proud cat mom.
https://www.researchgate.net/profile/Ashley-Cohen-4
https://www.researchgate.net/profile/Ashley-Cohen-4
Pinned
(PDF) Vertical microbial fluxes in a modern permanently redox-stratified lake provide insights into organic carbon sequestration and benthic-pelagic coupling during the Proterozoic Eon
PDF | Microbial processes regulating carbon cycling in ancient oceans remain poorly understood, yet characterizing these processes is critical for... | Find, read and cite all the research you need on...
www.researchgate.net
I am so pleased to share our newest publication in Limnology and Oceanography! We characterized the microbial community composition of sinking particles regulating the carbon flux in Fayetteville Green Lake, an early earth analogue environment.
www.researchgate.net/publication/...
www.researchgate.net/publication/...
Reposted by Ashley B. Cohen
Diving through the purple sulfur bacteria layer of Fayetteville Green Lake with our ROV last month. This is the most intense density of PSB that I've seen in many years!
November 8, 2025 at 6:30 PM
Diving through the purple sulfur bacteria layer of Fayetteville Green Lake with our ROV last month. This is the most intense density of PSB that I've seen in many years!
Reposted by Ashley B. Cohen
Last call for applications! Please send to any bioinformatics Masters students seeking an internship ❄️🧬 🦠
📢 PLEASE RT!
❄️ M2 Masters Internship: Metagenomic analysis of microbial cold adaptation in the cryosphere
🧬 Compile & curate ice nucleation & cold-adaptation protein database
🖥️ Build HMM profiles
🦠 Analyze existing metagenomic data using HMMs
☀️ Marseille, France
Apply by 15 Oct
❄️ M2 Masters Internship: Metagenomic analysis of microbial cold adaptation in the cryosphere
🧬 Compile & curate ice nucleation & cold-adaptation protein database
🖥️ Build HMM profiles
🦠 Analyze existing metagenomic data using HMMs
☀️ Marseille, France
Apply by 15 Oct
October 13, 2025 at 2:34 PM
Last call for applications! Please send to any bioinformatics Masters students seeking an internship ❄️🧬 🦠
Karaoke is always good for the soul 🤟🏻
October 6, 2025 at 11:38 PM
Karaoke is always good for the soul 🤟🏻
Nice study revisiting nirK: www.frontiersin.org/journals/mic...
Frontiers | Aquatic copper-containing nitrite reductase gene (nirK) phylogeny and environmental distribution
Nitrite reduction is an essential step in the oceanic Nitrogen cycle. Nitrite reductase genes, mainly nirS and nirK, are found in dozens of phyla, are often ...
www.frontiersin.org
September 26, 2025 at 1:58 PM
Nice study revisiting nirK: www.frontiersin.org/journals/mic...
Reposted by Ashley B. Cohen
Volta experiment at the GRC AEM with @jjmarlow.bsky.social and @dkountz.bsky.social (video by Zackary Jay)
July 16, 2025 at 11:29 AM
Volta experiment at the GRC AEM with @jjmarlow.bsky.social and @dkountz.bsky.social (video by Zackary Jay)
Oliver giving his best “come hither” look
July 17, 2025 at 1:28 PM
Oliver giving his best “come hither” look
A great review article about deep learning methods applied to metagenomic analyses: www.microbiologyresearch.org/content/jour...
Deep learning methods in metagenomics: a review
The ever-decreasing cost of sequencing and the growing potential applications of metagenomics have led to an unprecedented surge in data generation. One of the most prevalent applications of metagenom...
www.microbiologyresearch.org
June 28, 2025 at 1:58 PM
A great review article about deep learning methods applied to metagenomic analyses: www.microbiologyresearch.org/content/jour...
Reposted by Ashley B. Cohen
My interview with @nature.com
“A new direction in our work is to understand the microbial inhabitants of the atmosphere. Is it just a dispersal mechanism for dormant cells, or does it harbour active microbes that grow and divide?”
Thanks James Crow & @jacopaso.bsky.social ❄️
tinyurl.com/42u5tz5c
“A new direction in our work is to understand the microbial inhabitants of the atmosphere. Is it just a dispersal mechanism for dormant cells, or does it harbour active microbes that grow and divide?”
Thanks James Crow & @jacopaso.bsky.social ❄️
tinyurl.com/42u5tz5c
Ice society: looking for life at unlikely altitudes
James Bradley studies the microbes thriving in extremely cold environments.
tinyurl.com
June 26, 2025 at 7:39 AM
My interview with @nature.com
“A new direction in our work is to understand the microbial inhabitants of the atmosphere. Is it just a dispersal mechanism for dormant cells, or does it harbour active microbes that grow and divide?”
Thanks James Crow & @jacopaso.bsky.social ❄️
tinyurl.com/42u5tz5c
“A new direction in our work is to understand the microbial inhabitants of the atmosphere. Is it just a dispersal mechanism for dormant cells, or does it harbour active microbes that grow and divide?”
Thanks James Crow & @jacopaso.bsky.social ❄️
tinyurl.com/42u5tz5c
Reposted by Ashley B. Cohen
I'll defend my HDR (Habilitation à diriger des recherches) on 1st September at @mioceanologie.bsky.social 🦠❄️🌊⛰️🌨️🧬🔬🌡️✨
(also I don't have much of a clue about the HDR process in France so if you can give me some advice please do 🤪)
(also I don't have much of a clue about the HDR process in France so if you can give me some advice please do 🤪)
Soutenance HDR | 🔴 @drbradbrad.bsky.social @mioceanologie.bsky.social #MEB @cnrs.fr soutiendra son HDR sur le sujet suivant : Biosphere-geosphere interactions and microbial life in extreme environments 🌊
📆 Lundi 1er septembre 2025 à 14h00 - Amphithéâtre OCEANOMED
➡️ urls.fr/wCUNlg
📆 Lundi 1er septembre 2025 à 14h00 - Amphithéâtre OCEANOMED
➡️ urls.fr/wCUNlg
James Bradley (CNRS - MIO MEB) soutiendra son HDR le lundi 1er septembre 2025 à 14h00 - Amphithéâtre OCEANOMED - Institut Méditerranéen d'Océanologie
urls.fr
June 26, 2025 at 11:25 AM
I'll defend my HDR (Habilitation à diriger des recherches) on 1st September at @mioceanologie.bsky.social 🦠❄️🌊⛰️🌨️🧬🔬🌡️✨
(also I don't have much of a clue about the HDR process in France so if you can give me some advice please do 🤪)
(also I don't have much of a clue about the HDR process in France so if you can give me some advice please do 🤪)
Are you stressed about the world? Look at my cute kitties :)
June 22, 2025 at 4:33 PM
Are you stressed about the world? Look at my cute kitties :)
so cool! academic.oup.com/gbe/article/... Nice work @martinsteinegger.bsky.social et al :)
Unicore Enables Scalable and Accurate Phylogenetic Reconstruction with Structural Core Genes
Abstract. The analysis of single-copy core genes, common to most members of a clade, is important for key tasks in biology including phylogenetic reconstru
academic.oup.com
June 19, 2025 at 7:03 PM
so cool! academic.oup.com/gbe/article/... Nice work @martinsteinegger.bsky.social et al :)
Reposted by Ashley B. Cohen
What is that👇? ?
Ancient birch gum which preserved enough DNA to reconstruct the full human genome of the chewer, identify her mouth microbes, and her last prehistoric meal!
Researchers including Michael Dee @rug.nl chewed the cud on this 😉. #FrontierResearch
👉 buff.ly/EhRzZ3y
Ancient birch gum which preserved enough DNA to reconstruct the full human genome of the chewer, identify her mouth microbes, and her last prehistoric meal!
Researchers including Michael Dee @rug.nl chewed the cud on this 😉. #FrontierResearch
👉 buff.ly/EhRzZ3y
June 7, 2025 at 10:02 AM
What is that👇? ?
Ancient birch gum which preserved enough DNA to reconstruct the full human genome of the chewer, identify her mouth microbes, and her last prehistoric meal!
Researchers including Michael Dee @rug.nl chewed the cud on this 😉. #FrontierResearch
👉 buff.ly/EhRzZ3y
Ancient birch gum which preserved enough DNA to reconstruct the full human genome of the chewer, identify her mouth microbes, and her last prehistoric meal!
Researchers including Michael Dee @rug.nl chewed the cud on this 😉. #FrontierResearch
👉 buff.ly/EhRzZ3y
Reposted by Ashley B. Cohen
I am hiring a research/technical specialist/manager to help us make the most out of new LC-MS instrumentation at USC! Please share the word and write me for more details. usc.wd5.myworkdayjobs.com/en-US/Extern...
Assistant Director of the Center for Proteomics Discovery (Research Program Administrator)
The USC Dana and David Dornsife College of Letters, Arts and Sciences is seeking a Research Program Administrator (non-Clinical) and Assistant Director of the USC Center for Proteomics Discovery. This...
usc.wd5.myworkdayjobs.com
June 5, 2025 at 4:43 PM
I am hiring a research/technical specialist/manager to help us make the most out of new LC-MS instrumentation at USC! Please share the word and write me for more details. usc.wd5.myworkdayjobs.com/en-US/Extern...
Reposted by Ashley B. Cohen
It somehow is June already, which means that the abstract deadline for the 28th European Nitrogen Cycle meeting #ENC28 is less than two weeks away…
Register now, and join us for an amazing program in lovely Vienna in September!
univie.eventsair.com/enc2025/
Register now, and join us for an amazing program in lovely Vienna in September!
univie.eventsair.com/enc2025/
June 3, 2025 at 8:20 PM
It somehow is June already, which means that the abstract deadline for the 28th European Nitrogen Cycle meeting #ENC28 is less than two weeks away…
Register now, and join us for an amazing program in lovely Vienna in September!
univie.eventsair.com/enc2025/
Register now, and join us for an amazing program in lovely Vienna in September!
univie.eventsair.com/enc2025/
Are you a microbial ecologist who wants to use machine learning but not sure how/when to do so? This is a great article to consult! journals.asm.org/doi/full/10....
Nine (not so simple) steps: a practical guide to using machine learning in microbial ecology | mBio
Microbial ecologists are increasingly turning to machine learning (ML) models to better
identify and predict meaningful biological patterns and relationships in molecular
microbial community data (inc...
journals.asm.org
June 3, 2025 at 7:25 PM
Are you a microbial ecologist who wants to use machine learning but not sure how/when to do so? This is a great article to consult! journals.asm.org/doi/full/10....
Reposted by Ashley B. Cohen
🥁NEW publication from our lab:
the largest meta-analysis of gut microbiome associations with CRC!
www.nature.com/articles/s41...
🧵⬇️
1/6
the largest meta-analysis of gut microbiome associations with CRC!
www.nature.com/articles/s41...
🧵⬇️
1/6
Pooled analysis of 3,741 stool metagenomes from 18 cohorts for cross-stage and strain-level reproducible microbial biomarkers of colorectal cancer - Nature Medicine
An analysis of 18 metagenomic datasets of individuals with colorectal cancer, adenomas and healthy controls yields improved cancer prediction accuracy based solely on gut metagenomics, as well as the ...
www.nature.com
June 3, 2025 at 10:43 AM
🥁NEW publication from our lab:
the largest meta-analysis of gut microbiome associations with CRC!
www.nature.com/articles/s41...
🧵⬇️
1/6
the largest meta-analysis of gut microbiome associations with CRC!
www.nature.com/articles/s41...
🧵⬇️
1/6
Reposted by Ashley B. Cohen
One month left to apply for a PhD position in my group on the ERC funded project EcoMEMO.
Link to the PhD course and application: unibo.it/en/study/phd...
Please contact me if you need more info on the project, the group and life in Italy in general.
More info below⬇️
Link to the PhD course and application: unibo.it/en/study/phd...
Please contact me if you need more info on the project, the group and life in Italy in general.
More info below⬇️
Earth, Life and Environmental Sciences - University of Bologna
unibo.it
June 3, 2025 at 11:58 AM
One month left to apply for a PhD position in my group on the ERC funded project EcoMEMO.
Link to the PhD course and application: unibo.it/en/study/phd...
Please contact me if you need more info on the project, the group and life in Italy in general.
More info below⬇️
Link to the PhD course and application: unibo.it/en/study/phd...
Please contact me if you need more info on the project, the group and life in Italy in general.
More info below⬇️
Reposted by Ashley B. Cohen
Simons Graduate Fellowships in Ecology and Evolution www.simonsfoundation.org/grant/simons...
Application Deadline July 31, 2025
Application Deadline July 31, 2025
Simons Graduate Fellowships in Ecology and Evolution
The purpose of these awards is to provide support for students entering U.S.-based Ph.D. programs with a plan to perform research in ecology and evolution. While we will consider all projects in ecolo...
www.simonsfoundation.org
June 2, 2025 at 4:35 PM
Simons Graduate Fellowships in Ecology and Evolution www.simonsfoundation.org/grant/simons...
Application Deadline July 31, 2025
Application Deadline July 31, 2025
Reposted by Ashley B. Cohen
Fantastic study of the evolution of epistasis in paralogs!
How does cryptic genetic variation influence the long-term fate of gene duplicates (paralogs)?
Our new study addresses this question by dissecting the evolutionary potential of redundant myosin paralogs in yeast nature.com/articles/s41... (1/12)
Our new study addresses this question by dissecting the evolutionary potential of redundant myosin paralogs in yeast nature.com/articles/s41... (1/12)
Cryptic genetic variation shapes the fate of gene duplicates in a protein interaction network - Nature Communications
Over time, paralogous genes accumulate changes in their sequences that do not affect their function, which is called cryptic variation. Using paralogous myosins, this study shows how cryptic variation...
nature.com
June 2, 2025 at 11:27 AM
Fantastic study of the evolution of epistasis in paralogs!
Reposted by Ashley B. Cohen
On May 28, the small Alpine village of Blatten, Switzerland, was almost entirely buried under a massive landslide, following the collapse of a nearby glacier.
A Swiss Village, Destroyed by a Landslide
On May 28, the small Alpine village of Blatten, Switzerland, was almost entirely buried under a massive landslide, following the collapse of a nearby glacier.
bit.ly
May 29, 2025 at 7:15 PM
On May 28, the small Alpine village of Blatten, Switzerland, was almost entirely buried under a massive landslide, following the collapse of a nearby glacier.
Reposted by Ashley B. Cohen
Microbial biofilms can contribute to the deterioration of steel-reinforced concrete structures and significantly impact their service life. Kop et al. researched communities of nitrifiers living within these biofilms and their role in concrete degradation.
buff.ly/9Ad1gDh
#FEMSMicrobiolEcol
buff.ly/9Ad1gDh
#FEMSMicrobiolEcol
May 30, 2025 at 8:01 AM
Microbial biofilms can contribute to the deterioration of steel-reinforced concrete structures and significantly impact their service life. Kop et al. researched communities of nitrifiers living within these biofilms and their role in concrete degradation.
buff.ly/9Ad1gDh
#FEMSMicrobiolEcol
buff.ly/9Ad1gDh
#FEMSMicrobiolEcol
Reposted by Ashley B. Cohen
We are happy to release LocScale2.0: a tool for context-aware, confidence-weighted cryoEM map optimisation.
Taking two half maps as input, LcoScale-2.0 produces feature-enhanced maps along with a robust confidence score that guides objective map interpretation.
cryotud.github.io/locscale/
Taking two half maps as input, LcoScale-2.0 produces feature-enhanced maps along with a robust confidence score that guides objective map interpretation.
cryotud.github.io/locscale/
May 27, 2025 at 6:42 AM
Reposted by Ashley B. Cohen
