@AaronRamirez02

Single-cell, Genomics and more - PhD

 Groningen, Nederland
Joined December 2012
  • Tweets932
  • Following282
  • Followers165
8Media
Have you encountered the problem to process gut tissue to obtain single-cell suspensions suitable for scRNAseq (or other follow-up studies)? Do you want to store gut samples for years until you complete your cohort? Check our new paper rdcu.be/cPGbl
Werna Uniken Venema@Werna_UV15 Jun 2022
Dissociation methods matter. Happy to share our paper in @SciReports on the effects of gut mucosal biopsy dissociation methods on celltype composition and single cell gene expression DOI: 10.1038/s41598-022-13812-y
1
1
Dr. Aarón Ramírez retweeted
Anders Sejr Hansen@Anders_S_HansenSep 28
Very nice new paper from Paggi, Long, Zhang using physical modeling of RCMC data to reconstruct physical structures of euchromatin at the nucleosome scale: Euchromatin forms condensed domains and E-P interactions largely occur on the surface! nature.com/articles/s41588-0…
26
1
142
7,156
Dr. Aarón Ramírez retweeted
BioTender
@Junioryu136689Sep 10
A virtual cell that predicts proteins, not just RNA. Published in Nature, ProteinTalks is trained on >38 million temporal protein-abundance measurements from drug perturbations. The key shift: from static expression snapshots to modeling how protein networks evolve over time — and using that to predict drug response, combinations, resistance and patient-specific outcomes. Virtual cells are starting to look less like benchmarks, and more like operational models of biology. nature.com/articles/s41586-0…
3
26
1
126
8,130
Dr. Aarón Ramírez retweeted
Ming "Tommy" Tang@tangming2005Sep 10
Mechanisms underlying disease-causing variants in promoters and enhancers nature.com/articles/s41588-0…
3
42
199
12,673
Dr. Aarón Ramírez retweeted
Bruno Ramos-Molina, PhD@Brunorm84Sep 10
Happy to share our new publication, out now in @Gut_BMJ (IF=24.6)!! “#Ferroptosis, immune activation and #MASH-related #HCC”. Proud to have worked with @drshafikuchay and @CUBEROlab on this review. @IMIB_RMurcia @FFIS_CARM gut.bmj.com/content/early/20…
7
21
77
3,721
Dr. Aarón Ramírez retweeted
Anders Sejr Hansen@Anders_S_HansenSep 7
Really enjoyed reading this excellent and thought-provoking new review on long-range enhancer-mediated gene regulation: nature.com/articles/s41588-0…
27
142
8,346
Dr. Aarón Ramírez retweeted
Adrian Bozal-Leorri@amoAdrian_BLSep 7
🌍 No single path toward sustainable Nitrogen use. New preprint: N transitions in 130 countries: 🌾 No universal N transition 📉 35.4% increased protein while reducing N surplus 🌍 Decoupling across development levels Improvement ≠ convergence. 🔗 doi.org/10.64898/2026.09.03.…
7
7
386
Dr. Aarón Ramírez retweeted
Ken-ichi Kudo, Ph.D.
@KenichiKudoPhDSep 5
FlowJoのライセンスをどうするべきか悩んでましたが、今はFloreadaという解析ツールがあるんですね。使った感触はかなりよい。しかも無料！ floreada.io/analysis
5
102
1
567
39,197
Dr. Aarón Ramírez retweeted
Ｊｕｎ　Ｙａｓｕｄａ@jyasuda1Sep 5
光学顕微鏡の進歩についてこれまでも触れてきたが、今週のNatureの表紙を取った、蛍光ではなく、発光を利用することでより緻密な画像が得られるという論文。 nature.com/articles/s41586-0…

Luminescent-reaction-enabled super-resolution imaging

Nature - A new chemistry-based super-resolution imaging framework is described, enabling 3D, laser-free, highly sensitive and ultralong-term imaging of live cells which overcomes the limitations in...

nature.com
1
32
1
220
17,544
Dr. Aarón Ramírez retweeted
Ｊｕｎ　Ｙａｓｕｄａ@jyasuda1Sep 5
ENCODE計画の多数のデータにCRISPR-CAS9ゲノム編集データを正解セットにして、enhancer機能の予測モデルを作ったという論文。enhancerの百科事典を作ったというタイトル。Nature。 nature.com/articles/s41586-0…

An encyclopedia of human enhancer–gene regulatory interactions

Nature - An encyclopedia of more than 92 million enhancer–gene regulatory interactions created as part of the ENCODE4 project provides a valuable resource for future studies of gene...

nature.com
19
94
8,630
Dr. Aarón Ramírez retweeted
Molecular Cell@MolecularCellSep 4
Molecular co-accessibility identifies coordinated regulation between distant cis-regulatory elements dlvr.it/TVKZzv
13
67
6,833
Dr. Aarón Ramírez retweeted
Cell@CellCellPressSep 4
In the latest issue! The regulatory logic linking inflammation and fibrosis dlvr.it/TVKYv5

The regulatory logic linking inflammation and fibrosis

Fibrosis is a major contributor to disease and mortality yet lacks effective therapies. This review proposes that fibrotic states are maintained by chromatin-regulated circuits in fibroblasts and...

cell.com
1
30
2
108
14,041
Dr. Aarón Ramírez retweeted
MRehMan
@_Wienman_Sep 3
Everyone check out this great paper I read, published yesterday. The creating of messenger-ribosomal RNA (mrRNA). Creating ribosomes capable of translating their own RNA! nature.com/articles/s41586-0…

Rewiring the ribosome to translate proteins encoded in its own RNA

Nature - Bacterial ribosomes can synthesize proteins encoded within their own RNA.

nature.com
12
47
3,454
Dr. Aarón Ramírez retweeted
nature
@NatureSep 3
Nature research paper: 3D epigenome of glial cell types in developing human cortex go.nature.com/46zvSTQ

3D epigenome of glial cell types in developing human cortex

Nature - Integrative 3D epigenomic profiling of four glial cell types from the mid-gestation human cortex reveals cell-type-specific regulatory elements and chromatin interactions that illuminate...

nature.com
1
16
108
35,599
Dr. Aarón Ramírez retweeted
Ranit Kedmi@KedmiRanitSep 2
Mind blowing! - Functional chimeric mRNAs encode proteins in mammalian immunity | Nature nature.com/articles/s41586-0…

Functional chimeric mRNAs encode proteins in mammalian immunity

Nature - Inflammation induces interchromosomal DNA interactions that bring parent genes into close proximity, facilitating the formation of chimeric mRNAs that encode physiologically relevant,...

nature.com
2
37
3
185
17,246
Dr. Aarón Ramírez retweeted
Cell@CellCellPressSep 3
In the latest issue! Metabolite buffering of labile iron governs ferroptosis dlvr.it/TVK0lZ
9
35
10,813
Dr. Aarón Ramírez retweeted
Cell@CellCellPressSep 3
New issue is out👉cell.com/cell/current On the cover: the complete connectome of the male adult D. melanogaster central nervous system. The cover depicts a single representative cell from each of the 11,710 neuron types in the dataset, which contains 166,700 neurons in total.
4
60
9
215
16,345
Dr. Aarón Ramírez retweeted
Nature Methods@naturemethodsSep 3
Spatial-ATAC-Hi-C enables profiling chromatin accessibility and spatial organization, as shown in mouse and human brain samples. nature.com/articles/s41592-0…

Spatial chromatin architecture and accessibility co-profiling of mammalian tissues

Nature Methods - Spatial-ATAC-Hi-C enables the profiling of both chromatin accessibility and organization in a spatially resolved manner, as demonstrated on mouse brain and human glioblastoma and...

nature.com
1
13
81
6,740
Dr. Aarón Ramírez retweeted
Cell@CellCellPressSep 2
Now online! Tabula Sapiens 2.0: A comprehensive transcriptomic atlas of human cell types dlvr.it/TVJ3yK

Tabula Sapiens 2.0: A comprehensive transcriptomic atlas of human cell types

An expanded atlas of human cells maps the expression of nearly all human transcription factors across 701 cell-type/tissue combinations and uncovers the heterogeneous nature of senescence across...

cell.com
1
121
4
395
40,513
Dr. Aarón Ramírez retweeted
Ming "Tommy" Tang@tangming2005Aug 24
Here is how I would start learning bioinformatics. 👇 read it in my old chatomics blog: divingintogeneticsandgenomic…
2
48
1
245
12,465
Dr. Aarón Ramírez retweeted
nature
@NatureAug 21
Nature research paper: Human brain organoids record the passage of time over multiple years go.nature.com/4gnGNV4

Human brain organoids record the passage of time over multiple years

Nature - Human brain organoids were developed for over five years in culture to demonstrate that brain cells can continue to mature and record the passage of time, following human-specific...

nature.com
4
72
13
373
67,877
Load more