Bioinformatics tools for secretome analysis

D Caccia, M Dugo, M Callari, I Bongarzone - Biochimica et Biophysica Acta …, 2013 - Elsevier
Over recent years, analyses of secretomes (complete sets of secreted proteins) have been
reported in various organisms, cell types, and pathologies and such studies are quickly …

Comparative genome analysis of entomopathogenic fungi reveals a complex set of secreted proteins

CC Staats, A Junges, RLM Guedes, CE Thompson… - BMC genomics, 2014 - Springer
Background Metarhizium anisopliae is an entomopathogenic fungus used in the biological
control of some agricultural insect pests, and efforts are underway to use this fungus in the …

Disruption of VirB6 paralogs in Anaplasma phagocytophilum attenuates its growth

FL Crosby, UG Munderloh, CM Nelson… - Journal of …, 2020 - Am Soc Microbiol
Many pathogenic bacteria translocate virulence factors into their eukaryotic hosts by means
of type IV secretion systems (T4SS) spanning the inner and outer membranes. Genes …

In silico analysis of several signal peptides for the excretory production of reteplase in Escherichia coli

P Mousavi, Z Mostafavi-Pour, MH Morowvat… - Current …, 2017 - ingentaconnect.com
Background: Solubility of recombinant therapeutic enzymes is one of the major purpose their
production in bacterial host The factors such as metabolic system, a cellular stress response …

Comparative genomics of CytR, an unusual member of the LacI family of transcription factors

NV Sernova, MS Gelfand - 2012 - journals.plos.org
CytR is a transcription regulator from the LacI family, present in some gamma-proteobacteria
including Escherichia coli and known not only for its cellular role, control of transport and …

Label-Free Comparative Proteomics of Differentially Expressed Mycobacterium tuberculosis Protein in Rifampicin-Related Drug-Resistant Strains

N Ullah, L Hao, JL Banga Ndzouboukou, S Chen, Y Wu… - Pathogens, 2021 - mdpi.com
Rifampicin (RIF) is one of the most important first-line anti-tuberculosis (TB) drugs, and more
than 90% of RIF-resistant (RR) Mycobacterium tuberculosis clinical isolates belong to …

Potential role of chimeric genes in pathway-related gene co-expression modules

P Li, Y Li, L Ma - World Journal of Surgical Oncology, 2021 - Springer
Background Gene fusion has epigenetic modification functions. The novel proteins encoded
by gene fusion products play a role in cancer development. Therefore, a better …

Lipid exposure prediction enhances the inference of rotational angles of transmembrane helices

JS Lai, CW Cheng, A Lo, TY Sung, WL Hsu - BMC bioinformatics, 2013 - Springer
Background Since membrane protein structures are challenging to crystallize, computational
approaches are essential for elucidating the sequence-to-structure relationships. Structural …

Decoding the disease-associated proteins encoded in the human chromosome 4

LC Chen, MY Liu, YC Hsiao, WK Choong… - Journal of Proteome …, 2013 - ACS Publications
Chromosome 4 is the fourth largest chromosome, containing approximately 191 megabases
(∼ 6.4% of the human genome) with 757 protein-coding genes. A number of marker genes …

Protein secretion prediction tools and extracellular vesicles databases

D Cecconi, C Di Carlo, J Brandi - Proteomics Data Analysis, 2021 - Springer
Secreted proteins play important roles in several biological processes such as growth,
proliferation differentiation, cell-cell communication, migration, and apoptosis; moreover …