β-Propeller phytases: diversity, catalytic attributes, current developments and potential biotechnological applications

V Kumar, AN Yadav, P Verma, P Sangwan… - International Journal of …, 2017 - Elsevier
Phytases are phosphatases which stepwise remove phosphates from phytic acid or its salts.
β-Propeller phytase (BPPhy) belongs to a special class of microbial phytases that is …

[HTML][HTML] Review of different sequence motif finding algorithms

FA Hashim, MS Mabrouk… - Avicenna journal of …, 2019 - ncbi.nlm.nih.gov
The DNA motif discovery is a primary step in many systems for studying gene function. Motif
discovery plays a vital role in identification of Transcription Factor Binding Sites (TFBSs) that …

ER-stress-induced transcriptional regulation increases protein synthesis leading to cell death

J Han, SH Back, J Hur, YH Lin, R Gildersleeve… - Nature cell …, 2013 - nature.com
Protein misfolding in the endoplasmic reticulum (ER) leads to cell death through PERK-
mediated phosphorylation of eIF2α, although the mechanism is not understood. ChIP-seq …

Identification and localisation of the NB-LRR gene family within the potato genome

F Jupe, L Pritchard, GJ Etherington, K MacKenzie… - BMC genomics, 2012 - Springer
Background The potato genome sequence derived from the Solanum tuberosum Group
Phureja clone DM1-3 516 R44 provides unparalleled insight into the genome composition …

Predicting cell-type–specific gene expression from regions of open chromatin

A Natarajan, GG Yardımcı, NC Sheffield… - Genome …, 2012 - genome.cshlp.org
Complex patterns of cell-type–specific gene expression are thought to be achieved by
combinatorial binding of transcription factors (TFs) to sequence elements in regulatory …

CLIP-seq of eIF4AIII reveals transcriptome-wide mapping of the human exon junction complex

J Saulière, V Murigneux, Z Wang… - Nature structural & …, 2012 - nature.com
The exon junction complex (EJC) is a central effector of the fate of mRNAs, linking nuclear
processing to mRNA transport, translation and surveillance. However, little is known about …

Selective binding of nuclear alpha-synuclein to the PGC1alpha promoter under conditions of oxidative stress may contribute to losses in mitochondrial function …

A Siddiqui, SJ Chinta, JK Mallajosyula… - Free Radical Biology …, 2012 - Elsevier
Alpha-synuclein has been reported to be present in the nucleus and levels enhanced by
oxidative stress. Herein, we sought to investigate the mechanistic role of nuclear alpha …

Motif discovery and transcription factor binding sites before and after the next-generation sequencing era

F Zambelli, G Pesole, G Pavesi - Briefings in bioinformatics, 2013 - academic.oup.com
Motif discovery has been one of the most widely studied problems in bioinformatics ever
since genomic and protein sequences have been available. In particular, its application to …

PPARγ-p53-mediated vasculoregenerative program to reverse pulmonary hypertension

JK Hennigs, A Cao, CG Li, M Shi, J Mienert… - Circulation …, 2021 - Am Heart Assoc
Rationale: In pulmonary arterial hypertension (PAH), endothelial dysfunction and obliterative
vascular disease are associated with DNA damage and impaired signaling of BMPR2 (bone …

[HTML][HTML] A system of repressor gradients spatially organizes the boundaries of Bicoid-dependent target genes

H Chen, Z Xu, C Mei, D Yu, S Small - Cell, 2012 - cell.com
The homeodomain (HD) protein Bicoid (Bcd) is thought to function as a gradient morphogen
that positions boundaries of target genes via threshold-dependent activation mechanisms …