Ricardo O. Ramirez Flores

1.1K posts

Ricardo O. Ramirez Flores

Ricardo O. Ramirez Flores

@roramirezf94

🇲🇽 Scientist @saezlab in @emblebi studying the molecular biology of multicellular disease processes ⌾ @lcgunam @UNAM_MX @UF @UniHeidelberg alumni

Heidelberg, Alemania Katılım Eylül 2015
699 Takip Edilen626 Takipçiler
Sabitlenmiş Tweet
Ricardo O. Ramirez Flores
Ricardo O. Ramirez Flores@roramirezf94·
Writing this piece has been quite fulfilling (and scary). I spent half of last year putting in order some of my thoughts regarding how to study multicellular coordination with single-cell and spatial data. If you are interested please read the manuscript below. 😊
Saez-Rodriguez Group@saezlab

How to link single-cell diversity and the emergence and maintenance of robust multicellular processes in developed tissues? 🤔 What can we learn about multicellular coordination in tissues from single-cell omics data? Read about our view: arxiv.org/abs/2403.06753

English
2
19
76
12.8K
Ricardo O. Ramirez Flores retweetledi
Saez-Rodriguez Group
Saez-Rodriguez Group@saezlab·
What does single-cell transcriptomics reveal about individual patients with acute (AKI) and chronic (CKD) kidney 🫘 disease? Can we use it to find new biomarkers? In our new preprint, we asked this using biopsies from 150+ participants from the Kidney Precision Medicine Project.
Saez-Rodriguez Group tweet media
English
1
8
41
2.7K
Ricardo O. Ramirez Flores retweetledi
🇲🇽 Leonardo Collado-Torres
🇲🇽 Leonardo Collado-Torres@lcolladotor·
I'm thrilled to share with you that #visiumStitched led by Nick Eagles has now been published Our #RStats / @Bioconductor 📦provides a framework for stitching together multiple #Visium @10xgenomics capture areas together doi.org/10.1186/s12864…
🇲🇽 Leonardo Collado-Torres@lcolladotor

Is your tissue larger than a @10xGenomics Visium capture area? If you need to stitch together the images but also the gene expression data, check our new preprint describing #visiumStitched We also shared example postmortem human brain data (3 samples) doi.org/10.1101/2024.0…

English
1
8
26
3.3K
Ricardo O. Ramirez Flores
Ricardo O. Ramirez Flores@roramirezf94·
@jan_lanzer and I have been preparing this work for a while, and happy that we can finally share with you all. Please don't hesitate to provide feedback on the pre-print ☺️
English
0
0
1
87
Ricardo O. Ramirez Flores
Ricardo O. Ramirez Flores@roramirezf94·
As the philosopher Celine Dion once said: My heart will go on🫀🔬 We've expanded our multi-study heart failure reference and proposed new multicellular analyses to get the best from scell and bulk data, all of this while learning how cells cooperate and divide labor in tissues!
Saez-Rodriguez Group@saezlab

What are the key disrupted multicellular processes in heart failure? In our new work we combine 23 years of molecular data with recent single-cell atlases to draw a cross-study patient map. How did we navigate the heart failure space? 🧵⬇️ doi.org/10.1101/2024.1…

English
1
1
25
1.4K
Ricardo O. Ramirez Flores retweetledi
Saez-Rodriguez Group
Saez-Rodriguez Group@saezlab·
📢 Introducing CORNETO: a unified, knowledge-driven framework for multi-sample network learning & modeling via constrained optimization, supporting a wide variety of network methods and prior knowledge 💻Code: github.com/saezlab/corneto 📜Paper: doi.org/10.1101/2024.1… 🧵👇
Saez-Rodriguez Group tweet media
English
1
35
119
9K
Ricardo O. Ramirez Flores
Ricardo O. Ramirez Flores@roramirezf94·
Starting today as a Staff Scientist at @emblebi! I will continue my work @saezlab on multicellular processes with multi-scale omics. Excited to join the Genome Campus community and see where the science takes us! ☺️ Happy to catch up with friends and colleagues in Cambridge.
English
0
3
60
1.7K
Ricardo O. Ramirez Flores retweetledi
Saez-Rodriguez Group
Saez-Rodriguez Group@saezlab·
How good is our understanding of signaling pathways? In this study together w/ @savitski_lab @EMBL, we combine multiple state-of-the-art resources to evaluate signaling pathway inference using phosphoproteomics and kinase-substrate networks tinyurl.com/2n43jsc4
Saez-Rodriguez Group tweet media
English
2
23
90
12.2K
Ricardo O. Ramirez Flores retweetledi
Richard Sever
Richard Sever@cshperspectives·
"Several members of my faculty [told] me, 'You can't get a job at Berkeley without a Cell, Science or Nature paper'. These [same] people had gotten jobs at Berkeley without a [CNS] paper...We believe this to be true to an extent that's irrational" @mbeisen youtube.com/watch?v=lg0-IR…
YouTube video
YouTube
English
0
6
17
2.5K
Ricardo O. Ramirez Flores retweetledi
Richard Sever
Richard Sever@cshperspectives·
And they cost ~1% of journal articles (~0.01% of research). So whatever you think of peer review (we need more vs less vs different vs none), supporting a mechanism that provides rapid and universal free access to knowledge should be a no-brainer journals.plos.org/plosbiology/ar…
Alfonso Martinez Arias@AMartinezArias

#Preprints are important and valued in (most) job and fellowship applications. Also, they are the best currency for exchange of information, feedback and proof of what we are doing with funding.

English
3
17
81
15.7K
Ricardo O. Ramirez Flores retweetledi
Shalek Lab
Shalek Lab@shaleklab·
🚀 Excited to share our new publication in @NatureBiotech! We explore scalable strategies for phenotypic screening using innovative methods with to address the challenges when the number of candidates is simply too large. Check out the details tinyurl.com/5f8vjhpp! (1/10)
English
3
36
121
26.7K
Ricardo O. Ramirez Flores retweetledi
Richard Sever
Richard Sever@cshperspectives·
"When I suggested the data were uninterpretable given the sample size and methods, she responded that the journal had an Impact factor in the high 30s (suggesting that regardless of my opinion, it was worth attention)" journals.biologists.com/jcs/article/13…
English
1
1
6
1.1K
Ricardo O. Ramirez Flores retweetledi
EMBL-EBI
EMBL-EBI@emblebi·
🚀 Exciting postdoc opportunity in collaboration with @AstraZeneca. Our EAZPOD fellowships push the boundaries of cutting-edge computational biology in oncology. Combine method development & modelling with preclinical multiomics data. Find out more 👇 ebi.ac.uk/research/postd…
EMBL-EBI tweet media
English
1
5
11
2.7K
Ricardo O. Ramirez Flores retweetledi
Saez-Rodriguez Group
Saez-Rodriguez Group@saezlab·
👉Consider joining us for a post-doc at @emblebi & @ASTRAZENECAUK as part of the EAZPOD program to study multicellular mechanisms associated with #cancer treatment resistance! #postdoc ebi.ac.uk/research/postd…
EMBL-EBI Jobs@EMBLEBIjobs

Apply to the 2024 EAZPOD Programme at EMBL-EBI & AstraZeneca in Cambridge. Work on cutting-edge computational biology in oncology with world-class scientists & access to state-of-the-art facilities! Learn more & apply: embl.org/jobs/position/… #Postdoc #Oncology

English
0
15
28
4.4K
Ricardo O. Ramirez Flores retweetledi
Richard Sever
Richard Sever@cshperspectives·
Posting a preprint only after your paper is rejected by a journal is not the way to do it..
English
2
4
39
7.1K
Ricardo O. Ramirez Flores
Ricardo O. Ramirez Flores@roramirezf94·
For those interested in repurposing factor models for patient-level comparisons and inference of multicellular programs have a look at the great overview given by Leo of the foundation work and the applications/packages that we have built! Thanks for this 😊
🇲🇽 Leonardo Collado-Torres@lcolladotor

I presented at @LIBDrstats an overview on Multicellular Factor Analysis #MFA & Multi-Omics Factor Analysis #MOFA 🧫 Includes shoutouts to @OliverStegle @wolfgangkhuber @saezlab @roramirezf94 🗒️ docs.google.com/document/d/1fk… 📽️ youtu.be/PN6q_uaVCjI #MOFAcellulaR #LIANA+ #RStats

English
0
3
20
1.7K

Keşfet

@Bioconductor @10xGenomics @jan_lanzer @CDSBMexico @nnb_unam @RBioinformatica @lcgunam @ccg_unam