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Ana Conesa

@anaconesa.bsky.social
942 followers 559 following 131 posts

Computer scientist at I2SysBio-CSIC. Transcriptomics, long-reads, multiomics, tool developer. Promoter of Green Science. Finally happy!

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Ana Conesa @anaconesa.bsky.social · 17h
New lab paper in @natcomms.nature.com!!! With many replicates in long-read RNA-seq, do you pool reads before calling transcripts (Join & Call) or call per sample and merge (Call & Join)? We tested both with 6 tools, PacBio & ONT. It depends on the tool! doi.org/10.1038/s414...
doi.org
Handling biological replicates in long-read RNA sequencing data by joining or not joining - Nature Communications
When combining long-read RNA sequencing data from multiple samples, transcripts can be identified either before or after merging. This study shows that neither approach is universally optimal and prov...
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Ana Conesa @anaconesa.bsky.social · 30/09/2026
I will be speaking at the @embo.org Scientists' Forum, back in Croatia after 17 years: Dubrovnik, 28 to 30 Oct. For PhD students, postdocs, and early-stage PIs. Every participant can present a poster. Registration extended to 5 Oct: event.fourwaves.com/eysf
event.fourwaves.com
EMBO Scientists’ Forum (ESF) 2026
Join EMBO Scientists’ Forum (ESF) 2026, October 28-30, 2026. Learn more on Fourwaves.
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Ana Conesa @anaconesa.bsky.social · 02/09/2026
🎉 New paper from our lab in Nature Comms! We compare 2 strategies—Join & Call vs Call & Join—across PacBio and ONT data, tissues, and 6 lrRNAseq transcript reconstruction tools. Take away: 👉Join & Call 4 novel isoforms 👉Call & Join 4 2 obtain highly replicated signals. www.nature.com/articles/s41...
nature.com
Handling biological replicates in long-read RNA sequencing data by joining or not joining - Nature Communications
When combining long-read RNA sequencing data from multiple samples, transcripts can be identified either before or after merging. This study shows that neither approach is universally optimal and prov...
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Sina Majidian @sinamajidian.bsky.social · 01/09/2026
Ana Conesa @anaconesa.bsky.social is sharing her scientific journey to a full house at #ECCB2026, from the challenges of being a young PI to the success of BLAST2GO and much more on long read
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Ana Conesa @anaconesa.bsky.social · 30/08/2026
Finishing your PhD, or thinking of starting one? The Conesa Lab (I2SysBio, CSIC–UV, Valencia) hosts PhD students and postdocs on competitive personal fellowships: long-read transcriptomics, single-cell, multi-omics, ML for genomics. Calls close Sep 2026–Apr 2027. → conesalab@csic.es
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Ana Conesa @anaconesa.bsky.social · 30/07/2026
🚨 Want to do your PhD or postdoc with us? Taking candidates for @GVA APOSTD (postdoc) & CIACIF (predoc) applications 🧬 long reads · single-cell & spatial · multi-omics · AI for biology 🧑‍⚕️🐭🐙🌍 human disease · model & non-model species · One Health 📩 conesalab@gmail.com, don't wait until the deadline!
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Ana Conesa @anaconesa.bsky.social · 14/07/2026
🎉 Our TUSCO paper is out in Nature Communications! A new benchmarking framework for long-read transcriptome reconstruction using curated single-isoform genes as internal ground truth — no spike-ins needed, by talented @tianyuanliu.bsky.social 🧬🔗 nature.com/articles/s41467-026-72089-1
nature.com
TUSCO: benchmarking transcriptome reconstruction with endogenous single-isoform controls - Nature Communications
Long-read sequencing enables comprehensive transcriptome characterization but remains challenging to benchmark due to sequencing errors, sample variability, and the limited scope of existing evaluatio...
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Ana Conesa @anaconesa.bsky.social · 29/05/2026
Excited to share the latest preprint from @conesalab.bsky.social. A new tool to visualize and filter isoforms based on SQANTI things within the UCSC Genome Browser. Awesome work led by @carolinamonzo.bsky.social and with collaboration from @ucscgenomics.bsky.social tinyurl.com/SQANTI-br #longreads
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I2SysBio @i2sysbio.es · 28/05/2026
Ya está disponible la información del proyecto Squanti-epi en Converge del @csic.es. Este proyecto, liderado por @anaconesa.bsky.social y en colaboración con Longseq, es uno de los proyectos COCREA 2025. Más información: www.i2sysbio.es/communicatio... converge.csic.es/project/sqan...
converge.csic.es
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Ana Conesa @anaconesa.bsky.social · 27/05/2026
Forgot spike-ins in your lrRNA-seq experiment? 😅 No problem! Our TUSCO benchmarks your transcript models using endogenous single-isoform genes as internal ground truth. Integrated in SQANTI3 for human & mouse. 🧬 Just out in @natcomms.nature.com @pacbio.bsky.social @nanoporetech.com rdcu.be/fkZCb
rdcu.be
TUSCO: benchmarking transcriptome reconstruction with endogenous single-isoform controls
Nature Communications - Long-read sequencing enables comprehensive transcriptome characterization but remains challenging to benchmark due to sequencing errors, sample variability, and the limited...
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Ana Conesa @anaconesa.bsky.social · 25/05/2026
Delighted to share that the new @csic.es Ranking of Spanish Women Researchers places me in the top 2% Grateful for this recognition, and deeply aware that it reflects years of work, learning, and collaboration with my team and international colleagues @bcbhubcsic.bsky.social tinyurl.com/RankingCSIC
tinyurl.com
Ranking de mujeres investigadoras españolas y en España. Edición GS-ORCID OPENALEX Abril 2026
El ranking de investigadoras españolas y en España incluye los 11 000 perfiles en Google Scholar con mejores indicadores métricos (índice h y citas) con identificador ORCID asignado de las mujeres españolas que investigan en España o fuera y de las mujeres investigadoras extranjeras con afiliación a instituciones españolas. Esta edición incluye los indicadores equivalentes de Openalex
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I2SysBio @i2sysbio.es · 07/05/2026
El grupo de investigación de @anaconesa.bsky.social en el #I2SysBio participa en un proyecto europeo para mejorar el trigo frente a la sequía y la falta de nutrientes. www.i2sysbio.es/communicatio...
i2sysbio.es
I2SysBio (CSIC-UV) is taking part in a European project to improve wheat’s resilience to drought and nutrient deficiency
<p><strong>&bull; The Institute of Integrative Systems Biology is participating in one of the projects funded by the European Innovation Council to develop innovative, high-risk technologies</strong><...
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BCBHubCSIC @bcbhubcsic.bsky.social · 06/05/2026
@anaconesa.bsky.social @i2sysbio.es participa en la mesa “Digitalización y uso de la IA” del Congreso de Sostenibilidad y Economía Circular Aplicada-CSECA @pti-sosecocir.bsky.social, destacando cómo reducir la huella de carbono en computación para impulsar la sostenibilidad y la economía circular.
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Ana Conesa @anaconesa.bsky.social · 01/05/2026
🏆 La @sebibc.bsky.social lanza la I Edición del Premio Nacional de Bioinformática y Biología Computacional . 🗓️ Candidaturas hasta el 30 junio 2026 💶 Premio: 5.000 € + keynote en SEBiBC 2026 (Toledo) 🔗 Bases: www.sebibc.es/premio-nacio... @bcbhubcsic.bsky.social
sebibc.es
Premio Nacional Bioinformática – SEBiBC
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Ana Conesa @anaconesa.bsky.social · 21/04/2026
Excited to start the Third General Assembly of the @bcbhubcsic.bsky.social with top tier talks, collaborative lectures and important @csic.es computational insights. And of course discussing how to move ahead another year!!
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Ana Conesa @anaconesa.bsky.social · 16/04/2026
Muy orgullosa de anunciar la Escuela de Verano en Bioinformática Avanzada @bcbhubcsic.bsky.social, junto a @sebibc.bsky.social. Presenta avances recientes en formato “train the trainer”, con materiales reutilizables, ideal para profesionales y docentes que enseñan bioinformática. tinyurl.com/EscVern
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Ana Conesa @anaconesa.bsky.social · 26/03/2026
The “curse of interdisciplinarity”: Fields like bioinformatics fall between the cracks in grant evaluation. 🧬 For bios: Too little mechanistic validation 🧮 For math: Not enough new theory 💻 For computing: “Just” applied computing Interdisciplinarity is essential, but evaluation hasn’t caught up.
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Ana Conesa @anaconesa.bsky.social · 18/03/2026
How do host-microbe interactions are affected in spaceflight? This question can be addressed with squids, RNA-seq and bioinformatics! Read the whole paper here. Memorable collaboration with @jamiefoster.bsky.social from @ifas.ufl.edu @bcbhubcsic.bsky.social @i2sysbio.es
links.email.frontiersin.org
Frontiers | Beneficial microbes mitigate molecular stress responses and accelerate developmental pathways in host animals during spaceflight
As humans continue the manned exploration of space, it is critical to understand the impact of this harsh environment on the beneficial microbes that interac...
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Ana Conesa @anaconesa.bsky.social · 13/03/2026
🤔 ¿Estas buscando tu primer contacto real con el mundo de la investigación? Entonces, ¡deja de buscar más y aprovecha esta oportunidad! En el ConesaLab ofrecemos dos posiciones dentro de las becas hashtag#JAEIntro del CSIC. 20 horas/semana / 7 meses / 600 € mensuales tinyurl.com/JAE-ConesaLab
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Ana Conesa @anaconesa.bsky.social · 12/03/2026
Tomorrow I will be delivering a keynote talk at the Swiss Bioinformatics Workshop @ Göteborg, discussing how multiomics research advances thanks to tool development. Love the fun facts, b.t.w @bcbhubcsic.bsky.social @hitseq.bsky.social @iscb.bsky.social
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Ana Conesa @anaconesa.bsky.social · 05/03/2026
Presentación del informe Science4Policy elaborado por la @bcbhubcsic.bsky.social y PTI neuroenvejecimiento. “La IA va a ser fundamental para abordar los retos de una sociedad que envejece” Javier de las Rivas explica este trabajo en nombre del equipo de redacción.
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Ana Conesa @anaconesa.bsky.social · 28/02/2026
Euphoric for my institute @i2sysbio.es receiving the 2nd @csic.es Sustainability Prize. Proud of the tireless & impactful work of our Committee. Especially happy to share recognition with friends from IDAEA & @geo3bcn-csic.bsky.social. Congrats @icmabcsic.bsky.social and @ibmb-csic.bsky.social
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Ana Conesa @anaconesa.bsky.social · 20/02/2026
Yesterday I had the privilege of joining the “fishbowl” at the AX Aula Forum in Murcia. Inspiring conversations on technology, humanism, aging, and global health.
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Ana Conesa @anaconesa.bsky.social · 19/02/2026
Honored to assume the Presidency of the Spanish Society of Bioinformatics and Computational Biology (SEBiBC). Looking forward to working with our members and the broader bioinformatics ecosystem in Spain to strengthen collaboration and visibility @bcbhubcsic.bsky.social www.sebibc.es/quienes-somos/
sebibc.es
Quiénes somos – SEBiBC
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Ana Conesa @anaconesa.bsky.social · 22/01/2026
🚀 Registration is now OPEN! longtrec.eu/VALT/ Join us in Valencia, Spain for the first symposium dedicated to #LongReadsTranscriptomics 🧬, with a dream set of keynote speakers. @pacbio.bsky.social @nanoporetech.com @elixir-europe.org @iscb.bsky.social @hitseq.bsky.social @i2sysbio.es
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LongTREC @longtrec.bsky.social · 22/01/2026
We can't wait to see you in Valencia this summer at VALT! Abstract submission deadline 📅 March 31st. #LongReadsTranscriptomics
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ISCB News @iscb.bsky.social · 30/01/2026
🧬🌍 #ISMB2026 is accepting abstracts! Share new, in-progress, or recently published work in #bioinformatics and #computationalbiology with a global audience.  Deadline: Thursday, April 9, 2026 📥Submit here: www.iscb.org/ismb2026/call-for-subm… @anaconesa.bsky.social
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Maria Dzunkova @dzunkovam.bsky.social · 29/01/2026
Congratulations, @anaconesa.bsky.social ! #rnaseq #longreads #bioinformatics
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Ana Conesa @anaconesa.bsky.social · 22/01/2026
🚀 Registration is now OPEN! longtrec.eu/VALT/ Join us in Valencia, Spain for the first symposium dedicated to #LongReadsTranscriptomics 🧬, with a dream set of keynote speakers. @pacbio.bsky.social @nanoporetech.com @elixir-europe.org @iscb.bsky.social @hitseq.bsky.social @i2sysbio.es
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ISCB News @iscb.bsky.social · 12/01/2026
📣 Abstract submissions for #ISMB2026 are open! Submit your #computationalbiology research for a chance to present at the premier conference in the field. 📅 Submission deadline: Thurs, April 9, 2026 📥Submit here: www.iscb.org/ismb2026/call-for-subm… @anaconesa.bsky.social
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Nature Reviews Genetics @natrevgenet.nature.com · 17/12/2025
Transcriptomics in the era of long-read sequencing #Review by @carolinamonzo.bsky.social, Tianyuan Liu & @anaconesa.bsky.social @conesalab.bsky.social @csic.es Free to read here: rdcu.be/efBjP
rdcu.be
Transcriptomics in the era of long-read sequencing
Nature Reviews Genetics - Advances in long-read sequencing are driving the implementation of these technologies for transcriptome profiling. The authors provide a comprehensive guide to long-read...
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Ana Conesa @anaconesa.bsky.social · 13/12/2025
Our latest preprint on how to best combine multiple samples in lrRNA-seq experiment. Not, trivial as your capacity for detecting known and novel transcripts is affected. We discovered that results depend on data and reconstruction algorithm. @nanoporetech.com @pacbio.bsky.social tinyurl.com/4pnnbd92
biorxiv.org
To join or not to join: handling biological replicates in long-read RNA sequencing data
Long-read RNA sequencing (lrRNA-seq) has revolutionized transcriptomics facilitating the study of alternative splicing and resulting in identification of thousands of novel transcripts. While isoform ...
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Ana Conesa @anaconesa.bsky.social · 10/12/2025
I am SOOO excited to welcome our brand-new VEGA instrument, made possible through a collaboration among @uv.es @i2sysbio.es and @pacbio.bsky.social . Months ago, we fantasized about having one, and now this is a reality. I can´t wait to run the many projects we have in the pipeline!
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Albert Vilella, PhD. @albertvilella.bsky.social · 10/12/2025
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Albert Vilella, PhD. @albertvilella.bsky.social · 10/12/2025
. @patrickoshag.bsky.social discusses data centers on space with @gavinsbaker
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Ana Conesa @anaconesa.bsky.social · 08/12/2025
Looking for a postdoc in computational biology? We are looking for a postdoc candidate apply for the fellowship 'Juan de la Cierva' for a project on long-read transcriptomics, multiomics, spatial transcriptomics, single-cell long-reads. Deadline is approaching!! (December 10th)
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Ana Conesa @anaconesa.bsky.social · 20/11/2025
This is a very exciting opportunity to connect researchers working on RNA data analysis issues. I can´t wait to see this community growing!!! @bcbhubcsic.bsky.social @i2sysbio.es @hitseq.bsky.social @conesalab.bsky.social
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Ana Conesa @anaconesa.bsky.social · 13/11/2025
Hoy participo en las Conversaciones Sostenibles del @csic.es en el IDAEA-CSIC para discutir la huella (in)sostenible de la computación @bcbhubcsic.bsky.social @i2sysbio.es @conesalab.bsky.social
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Ana Conesa @anaconesa.bsky.social · 05/11/2025
And we are not alone!!! Our project on LrRNASeq benchmarking gathered an amazing team of hackers here in Berlin and in Australia!! @conesalab.bsky.social @bcbhubcsic.bsky.social
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Ana Conesa @anaconesa.bsky.social · 28/10/2025
We’re thrilled to announce the first symposium dedicated to #LongReadsTranscriptomics, taking place in Valencia, Spain! More information available at: 👉 longtrec.eu/VALT/ If you want to keep updated, sign up here: 👉 shorturl.at/Qmb5D. @pacbio.bsky.social @hitseq.bsky.social @iscb.bsky.social
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Ana Conesa @anaconesa.bsky.social · 02/10/2025
Looking for scientists working with long-read transcriptomics technologies to join a COST action proposal. Contact us!!! @nanoporetech.com @pacbio.bsky.social
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Ana Conesa @anaconesa.bsky.social · 19/09/2025
Yesterday, I had the absolute pleasure of joining the National Genetics Course of @segenetica.bsky.social at the stunning Cristalera, teaching about long-read transcriptomics. 🧬✨ Inspiring discussions with brilliant young scientists and a joy to reconnect with old friends. Huge thanks! 🙌
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Ana Conesa @anaconesa.bsky.social · 29/08/2025
Comparto este reportaje en Las Provincias sobre el trabajo de nuestro laboratorio www.lasprovincias.es/sociedad/can... @bcbhubcsic.bsky.social @i2sysbio.es @conesalab.bsky.social @csic.es
lasprovincias.es
La revolución de la secuenciación génica: una lupa sobre el envejecimiento y las enfermedades que nos afectan al cumplir años | Las Provincias
La secuenciación de lectura larga permite analizar el envejecimiento celular con precisión inédita, abriendo nuevas vías para comprender y retrasar este proceso
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I2SysBio @i2sysbio.es · 26/08/2025
🎉 @anaconesa.bsky.social, researcher at #I2SysBio ( @csic.es/@uv.es), has been elected Vice President of the ISCB (@iscb.bsky.social) one of the most influential organizations in the field of bioinformatics and computational biology. 👏 Congratulations, Ana! www.i2sysbio.es/communicatio...
i2sysbio.es
Ana Conesa, researcher at I2SysBio, elected Vice-President of the International Society for Computational Biology
<p><strong>Ana Conesa, a researcher at the Institute of Systems Biology (I2SysBio, a joint UV/CSIC centre), has been appointed Vice-President of the International Society for Computational Biology (IS...
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BCBHubCSIC @bcbhubcsic.bsky.social · 25/08/2025
BCBHub congratulates our Coordinator Ana Conesa on becoming the new Vice-President of ISCB! @bcbhubcsic.bsky.social @anaconesa.bsky.social @i2sysbio.es @iscb.bsky.social
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Ana Conesa @anaconesa.bsky.social · 14/08/2025
I’m truly honored to be elected Vice President of ISCB, and heartfelt thank all ISCB members for your trust and support. I’m excited to work alongside Bonnie and the rest of the EC to keep building a strong, sustainable, inclusive, and forward-looking community for computational biologists worldwide
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Ana Conesa @anaconesa.bsky.social · 08/08/2025
I enjoyed reading this paper by @hubertr.bsky.social lab comparing artifacts in scRNAseq vs sc-Isoseq @pacbio.bsky.social Concluded standard pigeon filtering may remove too many isoforms, a problem we address in SQANTI3 through our Resue step. Any plans to try this? pubmed.ncbi.nlm.nih.gov/40630932/
pubmed.ncbi.nlm.nih.gov
Comparison of single-cell long-read and short-read transcriptome sequencing via cDNA molecule matching: quality evaluation of the MAS-ISO-seq approach - PubMed
Single-cell RNA sequencing is used for profiling gene expression differences between cells. It can be performed with short reads, which provide high-throughput and high-quality information at the gene...
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Ana Conesa @anaconesa.bsky.social · 06/08/2025
🎉 Proud to announce that @conesalab.bsky.social has a new website! Explore our research, news, and projects — and now also listen our brand-new podcast 🎙️. Whether you are commuting to work or biking 🚴‍♀️ to a conference, you can now take us with you! First podcast is, of course,.... The #SQANTIverse
conesalab.org
Main Page of the ConesaLab research group
Main Page of the ConesaLab research group where we present the tools and research lines developed by the group.
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Ana Conesa @anaconesa.bsky.social · 04/08/2025
The July blog-post of the @conesalab.bsky.social is out! Intense activities right before the break: visits, conferences, @longtrec.bsky.social summer school, and biking for sustainable science @i2sysbio.es @hitseq.bsky.social @bcbhubcsic.bsky.social @iscb.bsky.social conesalab.uv.es/july-from-va...
conesalab.uv.es
July: From Valencia’s pool to Liverpool | Genomics of Gene Expression
As summer has finally arrived, things in the ConesaLab have taken a more relaxed tone. To begin the month, Roc Martin came to visit us to learn about long-read transcriptomics. Roc was a participant…
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Ana Conesa @anaconesa.bsky.social · 23/07/2025
@hitseq.bsky.social is kicking off with our first keynote @valboeva.bsky.social talking about "Learning variant effects on chromatin accessibility and 3D structure without matched Hi-C data". #ISMBECCB2025
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