Ying Chen

Let’s do genome assembly 🧬

Do I know any journalists interested in covering a story about a highway and the last population of a frog? Please message me

Butterflies in the U.S. are disappearing at a ‘catastrophic’ rate The number of butterflies in the contiguous United States declined by 22 percent this century, a collapse with potentially dire implications.

Butterflies are vanishing from the face of the Earth because of us.

First of four screen grabs showing “Safari can’t open the page because the server can’t be found” error messages on NIH, NCBI, GenBank and BLAST websites.

Second of four screen grabs showing “Safari can’t open the page because the server can’t be found” error messages on NIH, NCBI, GenBank and BLAST websites.

Third of four screen grabs showing “Safari can’t open the page because the server can’t be found” error messages on NIH, NCBI, GenBank and BLAST websites.

Fourth of four screen grabs showing “Safari can’t open the page because the server can’t be found” error messages on NIH, NCBI, GenBank and BLAST websites.

The NIH website, including NCBI, GenBank, and BLAST are down. I thought it might be a brief outage so waited 12 hours and checked again before posting this. They’re still down.

It is hard to express just how fundamental these tools are to biology and medicine: research, applied, public and private.

Global sea ice continues to set new record daily lows. Yesterday's record low extent was 2,053,000 square kilometers below the 1991-2020 average.

I know I've been posting these images a lot lately, but the ongoing collapse of global sea ice is quite obviously the top story on the planet right now.

Darwin Tree of Life Impact Assessment This form is used to share information within DToL about case studies, ongoing research, and funding awards that demonstrate the impact the Darwin Tree of Life consortium project has had on Global and...

Do you use Darwin Tree of Life (DToL) genomes for your work or grant applications? If so, can you please fill out this form? docs.google.com/forms/d/e/1F... We are gathering info on how DToL genomes are used. It will help us raise money to continue producing publicly available high-quality genomes.

CiFi: Accurate long-read chromatin conformation capture with low-input requirements | bioRxiv bioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution

NEW: HiFi now brings Hi-C to #HiFisequencing with CiFi. Traditional short-read Hi-C falls short in repetitive and low-complexity regions, but #PacBio HiFi delivers with superior accuracy and lower input needs. bit.ly/4b8k10m

#AGBT #AGBTGM

A male pied flycatcher perching on a branch

📣 New PhD position on flycatchers with @qvarnstromlab.bsky.social — spread the word!

Combine bioinformatics, long-term datasets and field work to explore climate adaptation and speciation in the lovely flycatchers. Join us in Uppsala, Sweden! Apply by Mar 18: www.uu.se/en/about-uu/...

#ecoevojob

The Idiot's Guide to Effective Population Size This is a reference manual for the elegant, yet hideously complex concept of effective population size (Ne), inspired by a classic, self-published manual of automotive repair ‘for the compleat idiot’...

Robin Waples' reference manual for the elegant, yet hideously complex concept of effective population size (Ne) #biodiversity #genomics #conservation #evolution onlinelibrary.wiley.com/doi/10.1111/...

BREAKING: Wyoming woman hospitalized after testing positive for H5N1 bird flu, health department says

Please share!

Avoidable false PSMC population size peaks occur across numerous studies Hilgers et al. detect and solve a common artifact in PSMC and related methods for historical population size inference. Analyses of real and simulated genomes show that ill-set default parameters fals...

‼️These #PSMC #peaks are #artifacts‼️

Seen #PSMC results like this🤔?
They are caused by ill-set parameters, #very #common, and #easy #to #solve!

For details see 🧵& OA paper @currentbiology.bsky.social
🙂🐢🧬🎉!

cell.com/current-biol...

Endangered frog dads 'give birth' after 7,000-mile trip Male frogs carrying tadpoles made an incredible journey to the UK by boat, plane, and car.

"The successful parent-rearing of these froglets is a powerful symbol of hope for the species [and] highlights what can be achieved when conservationists work together." <---- positive news!
www.bbc.co.uk/news/article...

Career Opportunity: Genome Prairie is accepting applications for Manager, Sector Innovation. This full-time, permanent position is an exciting and challenging position, focusing on developing new genomics research projects in Western Canada. Click below to find out more: genomeprairie.ca/careers/

Travel awards (up to $5,000) are available to support the study of collections in the United States National Herbarium. Applications are due on 15 January: naturalhistory.si.edu/research/bot...

The Nachman lab seeks a postdoc for an NIH-funded project on house mice adaptation. Candidates will work with genomic data and have project development opportunities. For details, visit: https://aprecruit.berkeley.edu/JPF04754. #postdoc

Postdoctoral Fellow (Microbiomes of Tree of Life) Do you want to help us improve human health and understand life on Earth? Make your mark by shaping the future to enable or deliver life-changing science to solve some of humanity’s greatest challenges. We have an exciting opportunity for a Postdoctoral Fellow to work with Tree of Life and Parasites and Microbes teams to identify cobionts in genome sequence datasets as they are generated and thus build a catalogue of host-microbe associations. This PDF contract will be 3 years fixed term at the Sanger Institute Life on planet Earth is a complex web of interactions between organisms, some mutualistic, some harmful, some neutral. While sequencing diverse eukaryotic species, the Tree of Life programme at the Sanger Institute is also able to assemble the genomes of many (often unexpected) bacterial, archaeal and eukaryotic microbial organisms. We already have assemblies for over 6,000 bacterial, archaeal and eukaryotic microbes. These “cobionts” represent a subsampling of the organisms associated with the target species, and may be pathogens, parasites, components of the microbiome or chance encounters. To understand these cobionts more fully, we are seeking a Postdoctoral Fellow to work in a collaboration between the Tree of Life (ToL) and the Parasites and Microbes (PaM) programmes to collate, annotate and explore the biology of the bacterial and archaeal cobionts we discover. About the Role: You will work with ToL and PaM teams to identify cobionts in genome sequence datasets as they are generated and thus build a catalogue of host-microbe associations. You will explore the evolutionary and systems biology of host-microbiome interactions, including identification of phylogenetic associations between hosts and microbes, exploration of virulence and other phenotypes in pathogens, exploration of phage metagenomes, definition and functional analysis of horizontal DNA transfers into host genomes, and other topics. Where required, additional data will be commissioned to better evidence particular aspects of host and microbe. About Us: The post is shared between the Blaxter group (which has a focus on large scale analysis of genome evolution across diversity) and groups within PaM who have interests in (respectively) the genomic epidemiology of human pathogens and human microbiomes in health and disease. You will be embedded in a supportive and dynamic environment to produce significant work of wide impact. About You: You should have a PhD in Biomedical science, statistical genetics, microbial genomics, computational biology or similar related discipline or equivalent working experience in bioinformatics. You will have the ability to analyse and interpret data with strong quantitative/computational skills. You will have relevant programming skills in modern languages including Python and R and experience with software development and good practice in coding. Applicants should have excellent communication and organisational skills, and have the ability to work collaboratively with a range of stakeholders. When you join us as a Postdoctoral Fellow, you will benefit from a unique and well-resourced learning environment that will equip you for your future career. We are proud to produce and analyse genetic and cellular data on a scale unmatched by other institutes in Europe to advance biological and medical science. Essential Scientific and Technical Skills: PhD in relevant subject area, or on track to be awarded your PhD within 6 months of starting the role Proven ability to deliver research projects A track record of demonstrating research excellence and expertise in your area of research Knowledge, skills and experience as appropriate to the research area including: Ability to analyse and interpret data with strong quantitative/computational skills Programming in relevant, modern languages, including Python and R; experience with software development and good practice in coding Excellent communication and organisation skills Ability to work collaboratively and inclusively with a range of stakeholders Essential Competencies and Behavioural Skills: Proven ability to develop and maintain effective working relationships with wide range of persons of differing level, abilities and knowledge Foster an inclusive culture where all can thrive and diversity is celebrated Team player with the ability to work with others in a collegiate and collaborative environment Ability to effectively communicate ideas and results and present orally to groups Commitment to personal development and updating of knowledge and skills Ability to prioritise, multi-task and work independently Detail-orientated, with strong organisational and problem-solving skills Other information Please apply with your CV and a Cover Letter outlining how you would meet the criteria set out above. Salary: PDF £38,000 - £49,156 Role profile Closing Date: 26th January 2025 Recruitment Process: Zoom interviews w/c 3rd Feb, Face to face Interviews w/c 10th Feb Contract Type: 3 years fixed term contract Hybrid Working at Wellcome Sanger: We recognise that there are many benefits to Hybrid Working; including an improved work-life balance, with more focused time, as well as the ability to organise working time so that collaborative opportunities and team discussions are facilitated on campus. The hybrid working arrangement will vary for different roles and teams. The nature of your role and the type of work you do will determine if a hybrid working arrangement is possible. Equality, Diversity and Inclusion: We aim to attract, recruit, retain and develop talent from the widest possible talent pool, thereby gaining insight and access to different markets to generate a greater impact on the world. We have a supportive culture with the following staff networks, LGBTQ+, Parents and Carers, Disability and Race Equity to bring people together to share experiences, offer specific support and development opportunities and raise awareness. The networks are also a place for allies to provide support to others. We want our people to be whoever they want to be because we believe people who bring their best selves to work, do their best work. That’s why we’re committed to creating a truly inclusive culture at Sanger Institute. We will consider all individuals without discrimination and are committed to creating an inclusive environment for all employees, where everyone can thrive. Our Benefits: We are proud to deliver an awarding campus-wide employee wellbeing strategy and programme. The importance of good health and adopting a healthier lifestyle and the commitment to reduce work-related stress is strongly acknowledged and recognised at Sanger Institute. Sanger Institute became a signatory of the International Technician Commitment initiative In March 2018. The Technician Commitment aims to empower and ensure visibility, recognition, career development and sustainability for technicians working in higher education and research, across all disciplines. Life at the Sanger Institute is unique. We are tackling some of the most difficult challenges in genomic research. Our people are shaping the future by delivering life-changing science with the reach, scale, and creativity to solve some of humanity’s greatest challenges. We aim to attract, recruit, retain and develop talent from the widest possible talent pool, thereby gaining insight and access to different markets to generate a greater impact on the world.

Two postdoctoral positions at the Wellcome Sanger Institute focus on symbiosis genomics, analyzing eukaryotic and prokaryotic cobionts. Closing date: Jan 26, … https://sanger.wd103.myworkdayjobs.com/en-US/WellcomeSangerInstitute/details/Postdoctoral-Fellow--Microbiomes-of-Tree-of-Life-_JR102528 #job

Louisiana reports first U.S. death from H5N1 bird flu - BNO News A patient in Louisiana who was hospitalized with a severe case of H5N1 bird flu has succumbed to the illness, according to local health officials, making it the first reported death in the United Stat...

A patient in Louisiana who was hospitalized with a severe case of H5N1 bird flu has succumbed to the illness, according to local health officials, making it the first reported death in the United States. bnonews.com/index.php/20...

Fish Biologist <p><strong>This is a Direct Hire Public Notice. Please read this Public Notice in its entirety prior to submitting your application for consideration.</strong><br> </p>

Genomics job at NOAA Southeast Fisheries Science Center being hired off the fish biologist call. They are looking for scientists to lead, plan, and conduct research in the Marine Mammal Molecular Genomics program to support marine mammal conservation 🧬 🦭
#ConservationGenetics #marinemammals

🚨 We’re hiring! 🚨

The Simons Center for Quantitative Biology at Cold Spring Harbor Laboratory is looking for a Research Technician to join our team.

If you’re passionate about genomics, AI, and experimental science, we want to hear from you.

Help us spread the word!

jobrxiv.org/job/cold-spr...

Join us in Cambridge! This evolutionary genomics professorship (lecturer/reader level) has an emphasis on introgression and gene flow. If you study any aspect of evolutionary genomics then please apply! www.jobs.cam.ac.uk/job/49389/

Postdoctoral Scholar: Center for Diverse Leadership in Science (CDLS) - UCLA - Los Angeles, California job with University of California Los Angeles | 12834425 UCLA Mentor/Scholar Postdoctoral Position in Environmental DNA metabarcoding and metagenomics with a community engagement focus

Job Alert: Post doc in environmental genomics #academicsky 🧪 www.nature.com/naturecareer...

A new open postdoc position in population genomics! Reposting appreciated. Demography of human beings and crop plants. Attached is a group picture during a lab retreat in Lichtenstein. Job description:
jobs.uzh.ch/job-vacancie...
@nccrlanguage.bsky.social

Common misconceptions of speciation Abstract. Speciation is a complex process that can unfold in many different ways. Speciation researchers sometimes simplify core principles in their writin

My entire team wrote an opinion paper about Common misconceptions of speciation research. Each section is written by 1-2 team members. The bulk of the writing happened during two writing retreats. It was a lot of fun and I am very happy with the result. academic.oup.com/evolinnean/a...

Illinois Natural History Survey is hiring a new Director (my boss!)

illinois.csod.com/ux/ats/caree...

Come lead an amazing organization that has a really powerful applied mission, and some excellent scientists :)

🧬🐭🐴🐻Job Alert🐻🐴🐭🧬

We are hiring 3 postdoctoral researchers in DeepTime Palaeogenomics!

All positions are for 2 years (extension possible), & are fully funded both in terms of employment and project costs.

Deadline: 2 Dec 2024

Please RT!

Apply:
www.su.se/english/abou...

A yellow-browed warbler caught for ringing purposes in Germany in 2023.

🚨PhD ALERT! 🚨 We are looking for a highly motivated student to use 🧬 genomic approaches 🧬 to unravel the mysteries of migration using yellow-browed warblers. Think this is you or someone you know? Then come to our Q&A session at on 02/12 and check out the ad below!

Insights on macrosynteny, 'rebel' genes, and a new sex-linked region in anurans from comparative genomics and a new chromosome-level genome for the western chorus frog https://www.biorxiv.org/content/10.1101/2024.10.27.620512v1 Amphibians have unique genome characteristics including slow karyotypic evolution and cytogeneticall

Insights on macrosynteny, 'rebel' genes, and a new sex-linked region in anurans from comparative genomics and a new chromosome-level genome for the western chorus frog https://www.biorxiv.org/content/10.1101/2024.10.27.620512v1

I made a starter pack of many of the scientists, anglers, science communicators, and fish people that I used to interact with on Twtter that have made it over here! If I missed you, let me know 🐡🦈🦑🐠🧪🐟#SciComm go.bsky.app/6PaPRSn

I started an #eDNA starter pack as one didn’t exist yet. Feel free to message me to get your name added. Open to all! go.bsky.app/U2vgV5Q