Results 41 to 50 of about 1,488,867 (343)

Biophysical Fitness Landscapes for Transcription Factor Binding Sites [PDF]

PLoS Comput Biol 10:e1003683, 2014, 2013
Evolutionary trajectories and phenotypic states available to cell populations are ultimately dictated by intermolecular interactions between DNA, RNA, proteins, and other molecular species. Here we study how evolution of gene regulation in a single-cell eukaryote S.
arxiv   +1 more source

ATAC-Seq Data for Genome-Wide Profiling of Transcription Factor Binding Sites in the Rice False Smut Fungus Ustilaginoidea virens

Molecular Plant-Microbe Interactions, 2021
Identification of transcription factor binding sites is one of the most important steps in understanding the function of transcription factors and regulatory networks in organisms. The assay for transposase accessible chromatin sequencing (ATAC-seq) is a
Xiaoyang Chen, Hao Liu, Xiaolin Chen, Junbin Huang, Tom Hsiang, Lu Zheng   +5 more
doaj   +1 more source

Leveraging current insights on IL‐10‐producing dendritic cells for developing effective immunotherapeutic approaches

FEBS Letters, EarlyView.
In vivo IL‐10 produced by tissue‐resident tolDC is involved in maintaining/inducing tolerance. Depending on the agent used for ex vivo tolDC generation, cells acquire common features but prime T cells towards anergy, FOXP3+ Tregs, or Tr1 cells according to the levels of IL‐10 produced. Ex vivo‐induced tolDC were administered to patients to re‐establish/
Konstantina Morali, Gloria Giacomello, Michela Vuono, Silvia Gregori   +3 more
wiley   +1 more source

FoxO1 signaling in B cell malignancies and its therapeutic targeting

FEBS Letters, EarlyView.
FoxO1 has context‐specific tumor suppressor or oncogenic character in myeloid and B cell malignancies. This includes tumor‐promoting properties such as stemness maintenance and DNA damage tolerance in acute leukemias, or regulation of cell proliferation and survival, or migration in mature B cell malignancies.
Krystof Hlavac, Petra Pavelkova, Laura Ondrisova, Marek Mraz   +3 more
wiley   +1 more source

Accurate Sequence-Based Prediction of Deleterious nsSNPs with Multiple Sequence Profiles and Putative Binding Residues

Biomolecules, 2021
Non-synonymous single nucleotide polymorphisms (nsSNPs) may result in pathogenic changes that are associated with human diseases. Accurate prediction of these deleterious nsSNPs is in high demand.
Ruiyang Song, Baixin Cao, Zhenling Peng, Christopher J. Oldfield, Lukasz Kurgan, Ka-Chun Wong, Jianyi Yang   +6 more
doaj   +1 more source

The influence of transcription factor competition on the relationship between occupancy and affinity [PDF]

PLoS ONE 8:9 (2013) e73714, 2013
Transcription factors (TFs) are proteins that bind to specific sites on the DNA and regulate gene activity. Identifying where TF molecules bind and how much time they spend on their target sites is key for understanding transcriptional regulation. It is usually assumed that the free energy of binding of a TF to the DNA (the affinity of the site) is ...
arxiv   +1 more source

Insights into PI3K/AKT signaling in B cell development and chronic lymphocytic leukemia

FEBS Letters, EarlyView.
This Review explores how the phosphoinositide 3‐kinase and protein kinase B pathway shapes B cell development and drives chronic lymphocytic leukemia, a common blood cancer. It examines how signaling levels affect disease progression, addresses treatment challenges, and introduces novel experimental strategies to improve therapies and patient outcomes.
Maike Buchner
wiley   +1 more source

Effect of Tetraphenylborate on Physicochemical Properties of Bovine Serum Albumin

Molecules, 2021
The binding interactions of bovine serum albumin (BSA) with tetraphenylborate ions ([B(Ph)4]−) have been investigated by a set of experimental methods (isothermal titration calorimetry, steady-state fluorescence spectroscopy, differential scanning ...
Ola Grabowska, Małgorzata M. Kogut, Krzysztof Żamojć, Sergey A. Samsonov, Joanna Makowska, Aleksandra Tesmar, Katarzyna Chmur, Dariusz Wyrzykowski, Lech Chmurzyński   +8 more
doaj   +1 more source

Site2Vec: a reference frame invariant algorithm for vector embedding of protein-ligand binding sites [PDF]

, 2020
Protein-ligand interactions are one of the fundamental types of molecular interactions in living systems. Ligands are small molecules that interact with protein molecules at specific regions on their surfaces called binding sites. Tasks such as assessment of protein functional similarity and detection of side effects of drugs need identification of ...
arxiv   +1 more source

Diphthamide synthesis is linked to the eEF2‐client chaperone machinery

FEBS Letters, EarlyView.
The diphthamide modification of eukaryotic translation elongation factor 2 (eEF2) is important for accurate protein synthesis. We addressed the potential coordination of de novo eEF2 synthesis with simultaneous or subsequent diphthamide modification. Our work reveals that the co‐chaperones Hgh1 and Cpr7, which are known to support folding of nascent ...
Lars Kaduhr, Klaus Mayer, Raffael Schaffrath, Johannes Buchner, Ulrich Brinkmann   +4 more
wiley   +1 more source