Lisa Karstens
@lisakarstens.bsky.social
Microbiome bioinformatics researcher. Open data enthusiast. R and python user; Associate Professor in Medical Informatics at OHSU.
#MVIF 46 is live! ⭐️ Highlights: 🇺🇸 Rebecca L. Knoll 🇯🇵 Akito Sakanaka ⭐️ Keynote: 🇺🇸 Simon Roux @simrouxvirus.bsky.social ⭐️ Talks: 🇦🇺 Jeremy Barr @jeremyjbarr.bsky.social 🇨🇦 Erik Bakkeren @erikbakkeren.bsky.social 🇨🇳 Guanxiang Liang 📜Full abstracts: cassyni.com/s/mvif-46
Applications close this Friday (1/30) at 5 PM PST!
Lisa Karstens@lisakarstens.bsky.social · 7mo agoApplications are due 1/30/26 for the Human Microbiome Data Discovery 2-week course at OHSU! If you're a #postdoc, junior #faculty or and advanced graduate student looking to increase your #data_science skills in #microbiome science, check it out!
It's Friday! ...and a new #MVIF program is out! 🤩 Free registration: cassyni.com/s/mvif-46 Highlights: 🇺🇸 Rebecca L. Knoll 🇯🇵 Akito Sakanaka Keynote: 🇺🇸 @simrouxvirus.bsky.social ⭐️ Talks: 🇦🇺 @jeremyjbarr.bsky.social 🇨🇦 @erikbakkeren.bsky.social 🇨🇳 Guanxiang Liang
Applications are due 1/30/26 for the Human Microbiome Data Discovery 2-week course at OHSU! If you're a #postdoc, junior #faculty or and advanced graduate student looking to increase your #data_science skills in #microbiome science, check it out!
📢 JOB OPPORTUNITY We are hiring a Research Technologist (Advanced Professional) to design, implement, support, analyze, and report on rigorous research in genetics, entomology, and host-microbe interactions. Please consider and share with others in need. psu.wd1.myworkdayjobs.com/PSU_Staff/jo...
Research Technologist - Life Sciences Advance Professional - Bordenstein Lab
APPLICATION INSTRUCTIONS: CURRENT PENN STATE EMPLOYEE (faculty, staff, technical service, or student), please login to Workday to complete the internal application process. Please do not apply here, a...
psu.wd1.myworkdayjobs.com
Applications for this #microbiome #datascience short course are due next week! If you're in biomedical research, interested in building data science skills to study the microbiome and reusing publicly available data, this course is for you!
Lisa Karstens@lisakarstens.bsky.social · 7mo agoApplications are open for the Human Microbiome Data Discovery short course! This is a 2-week course for postdocs and junior faculty to learn #datascience skills in #microbiome science. Offered May 4 - 15, 2026 in Portland, OR at OHSU Learn more at bit.ly/microbiome-data-course
Applications are open for the Human Microbiome Data Discovery short course! This is a 2-week course for postdocs and junior faculty to learn #datascience skills in #microbiome science. Offered May 4 - 15, 2026 in Portland, OR at OHSU Learn more at bit.ly/microbiome-data-course
Human Microbiome Data Discovery Short Course | OHSU
The Knight Cancer Institute Human Microbiome Data Discovery is a two-week training program designed for early-career researchers.
bit.ly
Program for #GloMiNe2025 "Preservation of microbial diversity” by @microbiotavault.bsky.social and #MVIF is OUT: cassyni.com/s/mvif-glomi... 1/3
Get Ready! #MVIF 38 on Microbiome and Citizen Science is live n the Pacific time zones 🌏 in less than an hour!⏰ You can still register : cassyni.com/s/mvif-38
Cassyni | Science starts with a seminar
Seamlessly organise, run and publish academic research seminars. Get started in minutes.
cassyni.com
Don't miss today's #MVIF 38: A special event on on #citizenscience & #microbiome! @patrickveiga.bsky.social @gilbertjacka.bsky.social @waldispuhl.bsky.social Mathieu Almeida, Claudia Cappello, Daniel McDonald Mikayla Borton & Sarah Ahannach. There's still time to register👉 cassyni.com/s/mvif-38
Karstens Lab @lisakarstens.bsky.social summary of resources to identify and remove contaminated microbial DNA from seq-based microbiome studies here: github.com/KarstensLab/.... Learned this today at Urobiome 2025 @scrippsocean.bsky.social @ucsdmedschool.bsky.social
GitHub - KarstensLab/microbiome_cleaning: Summary of resources for identifying and removing contaminant microbial DNA from sequence-based microbiome studies. Includes examples of studies that have tr...
Summary of resources for identifying and removing contaminant microbial DNA from sequence-based microbiome studies. Includes examples of studies that have transparently reported their approach. ...
github.com
Today/tomorrow Pacific LIVE & on Wednesday Atlantic REPLAY! Just register here cassyni.com/s/mvif-36 We can't wait to welcome YOU & #MVIF 36 speakers: 🇯🇵 Nodoka Chiba 🇮🇩 Patsy Tasyana Fitri 🇨🇳 Ruixin Liu 🇦🇺 @aroneys.bsky.social 🇬🇧 Maria Kardakova 🇳🇿 @theoportlock.bsky.social #openscience #microbiomesky
Cassyni | Science starts with a seminar
Seamlessly organise, run and publish academic research seminars. Get started in minutes.
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The Pacific replay for #MVIF is today at 4:30 PM PT. There's still time to register!
Microbiome Virtual International Forum@microbiomevif.bsky.social · 2y agoIt's a new year! ...and a new #MVIF program is out! 🤩 Registration here: cassyni.com/s/mvif-35 ⭐️MicroTalks: Minna Chang @hariszaf.bsky.social ⭐️ Keynote: @chmoei.bsky.social ⭐️Selected talks: Pratyay Sengupta @fatimacpereira.bsky.social @cladigar.bsky.social
Know #undergrads in Portland interested in summer research? Let them know about the research opportunity fair @portlandstate Fri Jan 17th 1-3 PM. I'll be there with @billhersh.bsky.social to chat about our #biomedical #informatics #datascience summer internship! www.pdx.edu/events/under...
Undergraduate Research Opportunity Fair | Portland State University
pdx.edu
Please join us in celebrating NMDC Champion Lisa Karstens’ recent NIH R25 award! The grant will support a 3-year project to develop teaching materials for early career researchers to gain essential skills in microbiome data science🧪
Today's #Microbiome digest microbiomedigest.com/2024/12/09/d... @elisabethbik.bsky.social #MicrobiomeSky 🦠
December 10, 2024
General microbiome [COMMENT]The role of pharmacomicrobiomics in HIV prevention, treatment, and women’s health – Swanson, Basting & Klatt Early life Characterization of the Gut and Skin Mi…
microbiomedigest.com
Tomorrow Atlantic replay with live Q&A!
Microbiome Virtual International Forum@microbiomevif.bsky.social · 2y ago#MVIF 34 program👇 ⭐Microtalks 🇹🇼 Ha T. Doan 🇦🇺 Vedanth Ramji from bigdatabiology.bsky.social ⭐Keynote 🇺🇸 Sean Gibbons @gibbological.bsky.social ⭐Selected Talks 🇯🇵 Yuya Kiguchi 🇦🇺 Kurtis Budden 🇨🇭 Amit Halkhoree Free registration: cassyni.com/s/mvif-34
There's still time to register! cassyni.com/s/mvif-34
Cassyni | Science starts with a seminar
Seamlessly organise, run and publish academic research seminars. Get started in minutes.
cassyni.com
Microbiome Virtual International Forum@microbiomevif.bsky.social · 2y agoIt's Wednesday! ...and #MVIF 34 program is out! 🤩 ⭐️MicroTalks: 🇹🇼 Ha T. Doan 🇦🇺 Vedanth Ramji ⭐️ Keynote: 🇺🇸 Sean Gibbons @gibbological.bsky.social ⭐️Selected talks: 🇯🇵 Yuya Kiguchi 🇦🇺 Kurtis Budden 🇨🇭 Amit Halkhoree (#Roche) Registration: cassyni.com/s/mvif-34
#MVIF 26 program is out! 🤩 ⭐️ Keynote: 🇺🇸 Laura S. Weyrich ⭐️ Short talks: 🇨🇳 Ziye Wang 🇺🇸Kate Bowie 🇺🇸Richard Wolff 🇺🇸Ivan Zheludev More about talks here: www.microbiome-vif.org/en-US/-/futu...
📣Apps for the 2024 Undergraduate Biomedical Informatics and Data Science Summer Internship are due Feb 16th! More info: bit.ly/ohsu-informatics-interns What: PAID internships with research in data science & informatics Where: Oregon Health & Science University, Portland, OR USA
Are you an undergrad or know an undergrad interested in an internship in biomedical informatics / data science? Join our informational webinar about the OHSU summer internship program *tomorrow* Jan 9th at 1 PM PT. Info & Registration: bit.ly/DMICE_Internships
We have an early New Year present for you 🎁 the January #MVIF program with Jennifer Wargo Nikolay Oskolkov Sondra Turjeman Mireia Valles-Colomer Full program with abstracts: www.microbiome-vif.org/en-US/-/futu... Registration: hopin.com/events/micro... ✨Happy holidays ✨
Exciting! My group's paper, microshades: An R Package for Improving Color Accessibility and Organization of Microbiome Data, was highlighted as an @ASMicrobiology Top Cited paper! Congrats @erictleung.bsky.social @katebowie.bsky.social Emory neer and Erin Dahl! 📔 journals.asm.org/doi/10.1128/...
⭐That's a wrap! So many inspiring talks! A huge thanks to all of our speakers and attendees for making the meeting so enjoyable🦠! And for those who missed it, you can check out the recordings later here ▶️ www.youtube.com/channel/UCJ3...
📢 Remember that you can submit your work for: 🌎Atlantic-first event in January w/ Jennifer Wargo 🌏Pacific-first event in February w/ Laura S. Weyrich www.microbiome-vif.org/en-US/-/info...
Third talk for today at #MVIF.24 ⭐️Analyzing microbial evolution through gene and genome phylogenies by 🇺🇸 Sarah Teichman www.biorxiv.org/content/10.1...
Second selected talk at #MVIF.24 ⭐️ Wastewater sequencing reveals community and variant dynamics of the collective human virome by 🇺🇸 Mike Tisza www.nature.com/articles/s41...
NEXT, #MVIF short talks: ⭐️ Gut microbiota manipulation in neurodevelopmental disorders: implication from animal models of infantile epilepsy by 🇨🇦 Chunlong Mu Read his research at: www.thelancet.com/journals/ebi...
Our lineup of #MVIF speakers for today's dive into #microbiome science 🤩 ⭐️ Keynote: 🇺🇸 @gilbertjacka ⭐️ Short talks: 🇨🇦@ChunlongMu1 🇺🇸@MikeTisza 🇺🇸@sarah_teichman 🇺🇸@GerrickElias And thanks to our partners 🧬@Roche and 🔬@QIAGEN for supporting #MVIF!
