Results 51 to 60 of about 602,244 (307)

Modelling stem cell differentiation related processes—A practical overview for biologists

FEBS Letters, EarlyView.
Stem cell differentiation is complex and difficult to control experimentally. This review introduces suitable computational modelling approaches that can support stem cell research, from mechanistic ODE and abstract models to multiscale and deep learning methods.
Ricco Zeegelaar, Xinqi Yan, Lucas F. Jansen Klomp, Stefano Schivo, Janine N. Post   +4 more
wiley   +1 more source

Transcriptome-wide comparisons.

, 2017
Comparisons of transcriptome-scale SNV profiles for every cell line investigated, with a colour gradient for increasing concordance. The average concordance of non-related cell lines is 67.9%.
Susan Kennedy (424972), Walter Kolch (116087), Pär Lundin (3743371), Erik Fasterius (3743380), Nora Rauch (3743374), Cristina Al-Khalili Szigyarto (3743377), Cinzia Raso (365363), Mathias Uhlén (2427553)   +7 more
core   +1 more source

Approaching the holistic transcriptome—convolution and deconvolution in transcriptomics

Briefings in Bioinformatics
Abstract Tissues, organs, and entire organisms are composed of diverse cell populations, which are characterized by cell-type-specific gene activities. Bulk RNA-seq represents a robust, cost-effective, scalable method to measure gene activity at the bulk tissue level.
Maik Wolfram-Schauerte, Thomas Vogel, Hanati Tuoken, Maria Fälth Savitski, Eric Simon, Kay Nieselt   +5 more
openaire   +3 more sources

Macromolecular crowding links ribosomal protein gene dosage to growth rate in Vibrio cholerae

BMC Biology, 2020
Background In fast-growing bacteria, the genomic location of ribosomal protein (RP) genes is biased towards the replication origin (oriC). This trait allows optimizing their expression during exponential phase since oriC neighboring regions are in higher
Alfonso Soler-Bistué, Sebastián Aguilar-Pierlé, Marc Garcia-Garcerá, Marie-Eve Val, Odile Sismeiro, Hugo Varet, Rodrigo Sieira, Evelyne Krin, Ole Skovgaard, Diego J. Comerci, Eduardo P. C. Rocha, Didier Mazel   +11 more
doaj   +1 more source

An epithelial GPR35 isoform supports tumor‐associated transcriptional and metabolic phenotypes

FEBS Letters, EarlyView.
GPR35 generates two functionally distinct isoforms with previously unresolved roles. GPR35‐short mediates immune‐cell chemotaxis, while GPR35‐long is enriched in colorectal cancer epithelium, where it supports increased metabolism, proliferation, and tumor‐associated transcriptional programs.
Jørgen D. Rønneberg, Martine Hjeltnes, Josephine Krieger, Joshua E. Elias, Maria Stensland, Kristian Holm, Xiaojun Jiang, Chuki Khangsar, Tuula A. Nyman, Arthur Kaser, Johannes R. Hov, Tom H. Karlsen, Nicole C. Kaneider, Frode L. Jahnsen, Georg Schneditz   +14 more
wiley   +1 more source

Continued discovery of transcriptional units expressed in cells of the mouse mononuclear phagocyte lineage [PDF]

, 2003
The current RIKEN transcript set represents a significant proportion of the mouse transcriptome but transcripts expressed in the innate and acquired immune systems are poorly represented.
Wells, Christine A, Carninci, Piero, John Quackenbush, Quackenbush, John, David A. Hume, Piero Carninci, Yagi, Ken, Paul A. Lyons, Timothy Ravasi, Sultana, Razvan, Ken Yagi, Hidemasa Bono, Ravasi, Timothy, Faulkner, Geoffrey, Christine A. Wells, Members, GSL, A. Wells, Christine, Group, RIKEN GER, Yasushi Okazaki, A. Hume, David, ?, ?, Okazaki, Yasushi, A. Lyons, Paul, Bono, Hidemasa, Hume, David A, Razvan Sultana, Lyons, Paul A, Geoffrey Faulkner   +27 more
core   +1 more source

Evolution: The Plastic Transcriptome [PDF]

Current Biology, 2006
Studies across a wide range of species point to a surprising degree of plasticity in the transcriptional states that organisms can adopt, suggesting that organisms often respond to environmental challenges through wholesale reprogramming of their gene expression.
openaire   +5 more sources

Decryption of sequence, structure, and functional features of SINE repeat elements in SINEUP non-coding RNA-mediated post-transcriptional gene regulation

Nature Communications
RNA structure folding largely influences RNA regulation by providing flexibility and functional diversity. In silico and in vitro analyses are limited in their ability to capture the intricate relationships between dynamic RNA structure and RNA ...
Harshita Sharma, Matthew N. Z. Valentine, Naoko Toki, Hiromi Nishiyori Sueki, Stefano Gustincich, Hazuki Takahashi, Piero Carninci   +6 more
doaj   +1 more source

Epigenetic reprogramming of lineage switching in cancer

FEBS Letters, EarlyView.
Cancer cells rarely commit to a single identity. Epigenetic mechanisms and tumor microenvironment cues push epithelial cells toward flexible, hybrid states that can shift into mesenchymal, neuroendocrine, or stem‐like fates, driving metastasis, drug resistance, and tumor heterogeneity. Targeting the epigenetic regulators behind these transitions, using
Ezgi Boyvatlı, Burcu Akman, Ezgi Bağırsakçı, Nese Atabey, Serap Erkek‐Ozhan   +4 more
wiley   +1 more source

transcriptome-­based gene models (LmTGM)

, 2016
Transcriptome-­based gene models for Lissotriton ...
Babik, Wieslaw, Michał Stuglik (3242328), Stuglik, Michał, Wieslaw Babik (648236)   +3 more
core   +1 more source