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Fairlie Reese

@fairlie.bsky.social
178 followers 74 following 8 posts

Postdoc in the Transcriptomics and Functional Genomics Lab at the Barcelona Supercomputing Center studying the impact of human variation on the transcriptome. California -> Catalunya

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Reposted by Fairlie Reese
Centre de Regulació Genòmica (CRG) @crg.eu · 03/12/2025
Human gene maps contain major blind spots that leaves out a vast majority of the world's biological diversity, according to a new study led by the CRG's @rodericguigo.bsky.social with @bsc-cns.bsky.social. The researchers uncovered tens of thousands of new transcripts and entirely new genes.
nature.com
Long-read transcriptomics of a diverse human cohort reveals ancestry bias in gene annotation - Nature Communications
Current human gene annotations are predominantly based on individuals of European ancestry. Here, the authors use long-read RNA sequencing across diverse human populations to reveal ancestry-specific ...
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Reposted by Fairlie Reese
Guigó Lab @guigolab.bsky.social · 05/12/2025
Thrilled to share! 🧬🌍 Our 800M+ long-read RNA-seq dataset from 8 diverse populations reveals big gaps in gene annotations for non-European transcripts. Let’s build global inclusive annotations. @bsc-cns.bsky.social @crg.eu @melelab.bsky.social www.nature.com/articles/s41...
nature.com
Long-read transcriptomics of a diverse human cohort reveals ancestry bias in gene annotation - Nature Communications
Current human gene annotations are predominantly based on individuals of European ancestry. Here, the authors use long-read RNA sequencing across diverse human populations to reveal ancestry-specific ...
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Reposted by Fairlie Reese
Melé Lab @melelab.bsky.social · 04/12/2025
📣 Yesterday our study uncovering the ancestry bias in gene annotations was finally published in @natcomms.nature.com! www.nature.com/articles/s41... If you work in human genetics or transcriptomics, do not miss our tweetorial!👇 @guigolab.bsky.social @bsc-cns.bsky.social @crg.eu
nature.com
Long-read transcriptomics of a diverse human cohort reveals ancestry bias in gene annotation - Nature Communications
Current human gene annotations are predominantly based on individuals of European ancestry. Here, the authors use long-read RNA sequencing across diverse human populations to reveal ancestry-specific ...
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Reposted by Fairlie Reese
BSC-CNS @bsc-cns.bsky.social · 03/12/2025
🔴 Un estudio del BSC y @crg.eu revela por 𝗽𝗿𝗶𝗺𝗲𝗿𝗮 vez que los mapas de genes humanos están sesgados hacia poblaciones europeas. 💻 🧬Este sesgo dificulta la comprensión del funcionamiento del #genomahumano y limita el adelanto de la #MedicinaPersonalizada.
youtube.com
Los mapas de genes humanos están sesgados hacia poblaciones europeas
YouTube video by BSC CNS
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Reposted by Fairlie Reese
Melé Lab @melelab.bsky.social · 03/12/2025
📣 We are hiring postdoctoral researchers!! Come and work with our wonderful team in sunny Barcelona. 👇 auspire.eu/research-tea...
auspire.eu
BSC-PF2
Computational Transcriptomics Barcelona Supercomputing Center | RMIT University Research fields: Transcriptomics; Genomics; Human Genetics; Machine Learning; Single-cell Transcriptomics; Long-read T...
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Fairlie Reese @fairlie.bsky.social · 18/07/2025
Happy to see the ENCODE4 long-read RNA tracks now up on UCSC! Thank you to Jeltje, Mark, and any others at UCSC for working to make this happen 🤩 👉 Read the preprint: www.biorxiv.org/content/10.1...
biorxiv.org
The ENCODE4 long-read RNA-seq collection reveals distinct classes of transcript structure diversity
The majority of mammalian genes encode multiple transcript isoforms that result from differential promoter use, changes in exonic splicing, and alternative 3’ end choice. Detecting and quantifying tra...
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Reposted by Fairlie Reese
Nature @nature.com · 17/06/2025
A US judge has ordered hundreds of terminated research projects at the US National Institutes of Health to be reinstated, calling the processes that led to their cancellation “bereft of reasoning”. go.nature.com/4kOmXDy
go.nature.com
Judge rules against NIH grant cuts — and calls them discriminatory
The decision means that the US biomedical agency has to restore funding to hundreds of research projects, but the government will likely appeal.
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Niema Moshiri @niema.net · 07/06/2025
The University of California and California State University systems are two of the pinnacles of American academia. This, plus all the other attacks on scientific funding, make it clear Trump wants to just concede all of the scientific and medical excellence of the USA to the rest of the world 🤷‍♂️🙃
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Reposted by Fairlie Reese
Jose Miguel Ramirez @ramirezjmiguel.bsky.social · 28/05/2025
Just got back from Milan after attending #ESHG2025. I had a great time presenting our poster and seeing so much interest in our preprint on calling rDNA variants: shorturl.at/p1D0C. Huge thanks to everyone who stopped by, asked questions, and shared insights. Let’s keep the conversation going! 🧬
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Reposted by Fairlie Reese
European Society of Human Genetics @eshg.bsky.social · 27/05/2025
ESHG2025# Early Career awards: For outstanding science presented at the conference - Allison Newman, Exeter, UK - Hristiana Lyubenova, Berlin, Germany - Robin J. Hofmeister, Lausanne, Switzerland - Pau Clavell-Revelles, Barcelona, Spain
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Reposted by Fairlie Reese
Winona Oliveros @oliveroswinona.bsky.social · 05/05/2025
Excited to share our new preprint: The impact of sex, age, and genetic ancestry on DNA methylation across tissues. Briefly, we explored how sex, age, and genetic ancestry shape DNA methylation across tissues and individuals. Want to know a bit more? Follow this “bluetorial”! doi.org/10.1101/2025...
biorxiv.org
The impact of sex, age, and genetic ancestry on DNA methylation across tissues
Background: Understanding the consequences of individual DNA methylation variation is crucial for the study of human biology and disease. However, the collective impact of demographic traits on DNA me...
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Reposted by Fairlie Reese
Melé Lab @melelab.bsky.social · 23/05/2025
📢Menopause affects half the population — yet it's been one of the most overlooked areas in aging research. We found that aging in the female reproductive system unfolds in unexpected, organ-specific ways. 🔗 www.biorxiv.org/content/10.1... 1/8🧵
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Arun Das @arun-das.bsky.social · 15/05/2025
Our pre-print on investigating variation in South Asian genomes is now out! Thank you to @mikeschatz.bsky.social, @rajivmccoy.bsky.social and @aabiddanda.bsky.social for all their work on this. 🧵 A thread on the key results and takeaways from our work:
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Reposted by Fairlie Reese
Guigó Lab @guigolab.bsky.social · 14/05/2025
Our lab had dual presence at #BoG25 @cshlmeetings.bsky.social! 🧬 Silvia González-López spoke on chromatin dynamics & transcriptional regulation. 🌍 @fairlie.bsky.social presented ancestry-aware gene annotations — a @guigolab.bsky.social × @melelab.bsky.social collab: www.biorxiv.org/content/10.1...
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Reposted by Fairlie Reese
Human Pangenome Reference Consortium @humanpangenome.bsky.social · 12/05/2025
📢 HPRC Release 2 is here! Now with phased genomes from 200+ individuals, a 5x increase from Release 1. Explore sequencing data, assemblies, annotations & alignments in our interactive data explorer ⬇️: humanpangenome.org/hprc-data-re...
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Reposted by Fairlie Reese
Kaia Mattioli @kaiamattioli.bsky.social · 11/05/2025
had an awesome time at my first Biology of Genomes; what a privilege to be able to share my work with such a kind, smart, and welcoming group of folks. cannot wait to come back!!
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Reposted by Fairlie Reese
Hospital del Mar Research Institute @researchmar.bsky.social · 09/04/2025
A #bloodtest for early detection of #Alzheimer's disease A study involving more than 1,700 people from five hospitals in Barcelona, Sweden and Italy has validated the usefulness of a biomarker in blood to detect Alzheimer's disease in the clinical setting www.researchmar.net/news/716/a-b...
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Kristoffer Vitting-Seerup @kvittingseerup.bsky.social · 02/04/2025
The Genetics research community has a problem. Most recent articles do not consider #splicing/isoforms. Here, we analyze how important this opportunity gap is - and spoiler warning - we find it is essential for both analysis of common and rare variants More info👇 www.medrxiv.org/content/10.1...
medrxiv.org
Beyond the Gene in Genetics: How Isoform-Resolved Analysis Empowers the Study of Both Common and Rare Genetic Variation
Genetics is rapidly deepening our understanding of human health and disease by investigating common and rare genetic variants and their influence on gene expression1,2. Alternative splicing is a molec...
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Fairlie Reese @fairlie.bsky.social · 21/03/2025
I’m so excited to share the work I’ve been part of from the first year of my postdoc at the @melelab.bsky.social. We analyze a long-read RNA-seq dataset derived from genetically-diverse samples. To see what we found please read the thread below! 😁
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Reposted by Fairlie Reese
npujol.bsky.social @npujol.bsky.social · 17/03/2025
📢 Excited to share our study in @natmedicine.bsky.social 👉 www.nature.com/articles/s41... We mapped & characterized genetic risk factors for 42 female reproductive health diagnoses. What we found & why it matters? 👇🧵
nature.com
Atlas of genetic and phenotypic associations across 42 female reproductive health diagnoses - Nature Medicine
This study provides a cross-trait atlas of genetic and phenotypic associations across 42 female reproductive health diagnoses.
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Reposted by Fairlie Reese
Mike Schatz @mikeschatz.bsky.social · 18/03/2025
Still processing what this means. www.statnews.com/2025/03/17/t...
statnews.com
Eric Green is out as head of National Human Genome Research Institute
The longtime director of the National Human Genome Research Institute is stepping down, as the larger NIH braces for more changes.
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Reposted by Fairlie Reese
bioRxiv Genomics @biorxiv-genomic.bsky.social · 17/03/2025
Long-read transcriptomics of a diverse human cohort reveals widespread ancestry bias in gene annotation www.biorxiv.org/content/10.1101/202…
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Reposted by Fairlie Reese
Jacob Schreiber @jmschreiber91.bsky.social · 14/03/2025
As a field, I believe we must move towards COMIC SANS logo plots immediately. nbviewer.org/github/saket...
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Reposted by Fairlie Reese
Ana Conesa @anaconesa.bsky.social · 04/03/2025
Thrilled to see our Perspective on long-read transcriptomics Published in Advance in @genomeresearch.bsky.social, with #AdamFrankish and @carolinamonzo.bsky.social. We discuss the opportunities and challenges of LRS to uncover Transcript Divergence and for Genome Annotation. tinyurl.com/bdeteu4j
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Reposted by Fairlie Reese
Eric Topol @erictopol.bsky.social · 01/03/2025
Francis Collins, the NIH Director for 12 years, led the Human Genome Project and other NIH efforts for 32 years, resigned today. Key words from his resignation letter www.nytimes.com/2025/03/01/u...
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Mike Schatz @mikeschatz.bsky.social · 08/02/2025
Just saw this. NIH is capping indirects at 15%. This will crush so many institutions. grants.nih.gov/grants/guide...
grants.nih.gov
NOT-OD-25-068: Supplemental Guidance to the 2024 NIH Grants Policy Statement: Indirect Cost Rates
NIH Funding Opportunities and Notices in the NIH Guide for Grants and Contracts: Supplemental Guidance to the 2024 NIH Grants Policy Statement: Indirect Cost Rates NOT-OD-25-068. OD
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Reposted by Fairlie Reese
Anshul Kundaje @anshulkundaje.bsky.social · 08/02/2025
What's happening is precisely outlined in Project 2025. Read it to understand what's coming next. None of this is a surprise. Also, I know this is extremely unnerving if u weren't expecting this. But let's not panic. Let's organize & give this the best fking fight of our lives.
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Reposted by Fairlie Reese
Carl T. Bergstrom @carlbergstrom.com · 08/02/2025
1. Today the NIH director issued a new directive slashing overhead rates to 15%. I want to provide some context on what that means and why it matters. grants.nih.gov/grants/guide...
grants.nih.gov
NOT-OD-25-068: Supplemental Guidance to the 2024 NIH Grants Policy Statement: Indirect Cost Rates
NIH Funding Opportunities and Notices in the NIH Guide for Grants and Contracts: Supplemental Guidance to the 2024 NIH Grants Policy Statement: Indirect Cost Rates NOT-OD-25-068. OD
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Reposted by Fairlie Reese
Maria Sopena Rios @mariasopenarios.bsky.social · 05/02/2025
Last week, I presented my work on sex differences in immune aging at the Women's Health conference, @eventswcs.bsky.social. Great discussions and inspiring science highlighting the need for more research with a gender and sex perspective! #WomensHealth2025 @melelab.bsky.social @bsc-cns.bsky.social
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Reposted by Fairlie Reese
Axel Visel @axelvisel.bsky.social · 08/01/2025
Now available as preprint: The ENCODE 4 expanded registry of regulatory elements - 2.35M 🧍 human cCREs - 927k 🐭 mouse cCREs www.biorxiv.org/content/10.1... Led by @moorejille.bsky.social, this preprint summarizes data and analyses generated by hundreds of contributors across ENCODE 4
Schematic overview of the ENCODE 4 project's framework for identifying and classifying candidate cis-regulatory elements (cCREs). The process begins by defining regulatory anchors, such as DNase hypersensitive sites (rDHSs) and transcription factor (TF) clusters, which are filtered and classified using histone marks and other features. Elements are classified into functional categories, including promoters, proximal and distal enhancers, and CTCF-bound sites. The resulting registry includes millions of cCREs for human (GRCh38) and mouse (mm10), depicted alongside their classifications. Additional annotations, such as transcription activity, chromatin structure, genetic variation, and sequence motifs, are integrated for functional characterization. Image modified from https://www.biorxiv.org/content/10.1101/2024.12.26.629296v1.full
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Reposted by Fairlie Reese
Pau Clavell-Revelles @pclavell.bsky.social · 13/12/2024
Excited to present my latest results from my PhD project about long-read transcriptomics at Jornades de Bioinformàtica i Genòmica by @scb.iec.cat Stay tuned as in the following months @fairlie.bsky.social and I will be unveiling an exciting discovery from a human population-diverse perspective!
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Reposted by Fairlie Reese
Anna Esteve Codina @annaesteveco.bsky.social · 13/12/2024
Huge effort from @anaconesa.bsky.social at @scb.iec.cat comparing long-read RNA technologies @pacbio.bsky.social @nanoporetech.com and softwares #sqanti3, #bambu, #talon, #isoquant, for isoform discovery, still challenging to disentangle real biology from artefacts
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Fairlie Reese @fairlie.bsky.social · 03/12/2024
Hi all! I'm a computational biologist studying the impact of variation on the functional genome at @bsc-cns.bsky.social. Consortium alumnus (ENCODE, LRGASP, IGVF @igvfconsortium.bsky.social); @ucirvine.bsky.social PhD; @ucsandiego.bsky.social BS; and recent transplant from California to Barcelona.
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Reposted by Fairlie Reese
Sam Morabito @sam-morabito.bsky.social · 20/11/2024
Amazing new study led by my labmate Inés Sentís, leveraging #SingleCell 🖥️🧬 technologies to study the effects of #immunotherapy in #pediatric #cancer. Emphasis on #Tcell dynamics throughout treatment and comparing circulating vs. tumor-resident immune cells 🩸💪
biorxiv.org
Spatio-temporal T cell tracking for personalized TCR-T designs in childhood cancer
Immune checkpoint inhibition (ICI) has revolutionized oncology, offering extended survival and long-term remission in previously incurable cancers. While highly effective in tumors with high mutationa...
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Sam Morabito @sam-morabito.bsky.social · 20/11/2024
👀 Working on a #StarterPack for early career researchers (PhD students & Postdocs) in #genomics & #bioinformatics 🧬🖥️ Please share! Happy to add those working in this area so please suggest. Seeing a lot of PIs on here but would love to see more students 🎓🚀
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