Preparation and characterization of fetal rat renal cell peptides for their antitumor activity DOI Creative Commons
Zhe Zhang, Yuan Cao,

Jing Du

и другие.

Research Square (Research Square), Год журнала: 2024, Номер unknown

Опубликована: Ноя. 14, 2024

Abstract Background The therapeutic efficacy of traditional chemotherapies and advanced targeted therapies is unsatisfactory due to systemic adverse effects. Bioactive peptides are attractive reagents because their high antitumor activity safety profiles. Currently, bioactive can be derived from various organisms. This study aimed prepare characterize fetal rat renal cell (RCPs) for activities in vitro. Methods kidneys were dissected SD rats digested with collagenase obtain cells, which further trypsin, alkaline protease, papain, protamex, respectively. Following filtration 3 10-K filters, the enzyme-digested products measured protein concentrations tested cytotoxicity against MCF-7 cells. individual enzyme predicted using http://distilldeep.ucd.ie/PeptideRanker. top synthesized different types tumor cells vitro by CCK-8 assays. Finally, IC50 values calculated accuracy was estimated ROC curve. Results Digestion resulted epithelial morphology digestion or protease led percentages a molecular weight < 3k, 3-10k, > 10k. Preliminary screening revealed that treatment but not protease-digested 3k reduced viability dose-dependent manner. Functionally, many ten (RCPs 1–10) synthesized. Interestingly, RCP1, 5, 6 displayed preferable human cancer MCF-7, A549, HCT-116, Hela, HepG2, SGC-7901 time- dose-dependent. Conclusion RCPs prepared embryonic potent preferably These may valuable malignant tumors.

Язык: Английский

A Survey of K-mer Methods and Applications in Bioinformatics DOI Creative Commons
Camille Moeckel, Manvita Mareboina, Maxwell A. Konnaris

и другие.

Computational and Structural Biotechnology Journal, Год журнала: 2024, Номер 23, С. 2289 - 2303

Опубликована: Май 21, 2024

The rapid progression of genomics and proteomics has been driven by the advent advanced sequencing technologies, large, diverse, readily available omics datasets, evolution computational data processing capabilities. vast amount generated these advancements necessitates efficient algorithms to extract meaningful information. K-mers serve as a valuable tool when working with large offering several advantages in speed memory efficiency carrying potential for intrinsic biological functionality. This review provides an overview methods, applications, significance k-mers genomic proteomic analyses, well utility absent sequences, including nullomers nullpeptides, disease detection, vaccine development, therapeutics, forensic science. Therefore, highlights pivotal role addressing current problems underscores their future breakthroughs research.

Язык: Английский

Процитировано

25
Utilizing nullomers in cell-free RNA for early cancer detection DOI Creative Commons
Austin Montgomery,

Georgios Christos Tsiatsianis,

Ioannis Mouratidis

и другие.

Cancer Gene Therapy, Год журнала: 2024, Номер 31(6), С. 861 - 870

Опубликована: Фев. 14, 2024

Abstract Early detection of cancer can significantly improve patient outcomes; however, sensitive and highly specific biomarkers for are currently missing. Nullomers the shortest sequences that absent from human genome but emerge due to somatic mutations in cancer. We examine over 10,000 whole exome sequencing matched tumor-normal samples characterize nullomer emergence across exonic regions genome. also identify emerging mutational hotspots within tumor genes. Finally, we provide evidence identification nullomers cell-free RNA peripheral blood samples, enabling multiple types. show classification models with an AUC greater than 0.9, including a hepatocellular carcinoma classifier 0.99.

Язык: Английский

Процитировано

5
Space exploration and risk of Parkinson’s disease: a perspective review DOI Creative Commons
Nilufar Ali, Afshin Beheshti,

Greg Hampikian

и другие.

npj Microgravity, Год журнала: 2025, Номер 11(1)

Опубликована: Янв. 3, 2025

Systemic mitochondrial dysfunction, dopamine loss, sustained structural changes in the basal ganglia including reduced tyrosine hydroxylase, and altered gait- these effects observed space-flown animals astronauts mirrors Parkinson's disease (PD). Evidence of human cells, examined through lens PD, suggests that spaceflight-induced PD-like molecular are important to monitor during deep space exploration. These changes, may potentially elevate risk PD astronauts.

Язык: Английский

Процитировано

0
A review of the pathogenesis of mitochondria in breast cancer and progress of targeting mitochondria for breast cancer treatment DOI Creative Commons

Aoling Huang,

Hao Xue, Ting Xie

и другие.

Journal of Translational Medicine, Год журнала: 2025, Номер 23(1)

Опубликована: Янв. 15, 2025

With breast cancer being the most common tumor among women in world today, it is also leading cause of cancer-related deaths. Standard treatments include chemotherapy, surgery, endocrine therapy, and targeted therapy. However, heterogeneity, drug resistance, poor prognosis highlight an urgent need for further exploration its underlying mechanisms. Mitochondria, highly dynamic intracellular organelles, play a pivotal role maintaining cellular energy metabolism. Altered mitochondrial function plays critical various diseases, recent studies have elucidated pathophysiological mechanisms carcinogenesis. This review explores dysfunction pathogenesis assesses potential mitochondria-targeted therapies.

Язык: Английский

Процитировано

0
Unraveling diversity by isolating peptide sequences specific to distinct taxonomic groups DOI Creative Commons
Eleftherios Bochalis,

Michail Patsakis,

Nikol Chantzi

и другие.

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2025, Номер unknown

Опубликована: Фев. 8, 2025

Abstract The identification of succinct, universal fingerprints that enable the characterization individual taxonomies can reveal insights into trait development and have widespread applications in pathogen diagnostics, human healthcare, ecology biomes. Here, we investigated existence peptide k-mer sequences are exclusively present a specific taxonomy absent every other taxonomic level, termed quasi-primes. By analyzing proteomes across 24,073 species, identified quasi-prime peptides to superkingdoms, kingdoms, phyla, uncovering their distributions functional relevance. These exhibit remarkable sequence uniqueness at six- seven-amino- acid lengths, offering evolutionary divergence lineage-specific adaptations. Moreover, show loci more prone harboring pathogenic variants, underscoring significance. This study introduces quasi-primes offers contributions proteomic diversity, pathways, adaptations tree life, while emphasizing potential impact on health disease.

Язык: Английский

Процитировано

0
Cellular Activity of CQWW Nullomer-Derived Peptides DOI Creative Commons
Steven Shave, Rebecka Isaksson, Nhan T. Pham

и другие.

ACS Omega, Год журнала: 2025, Номер 10(7), С. 6794 - 6800

Опубликована: Фев. 11, 2025

Analysis of observed protein sequences across all species within the UniProtKB/Swiss-Prot data set reveals CQWW as shortest absent stretch amino acids. While DNA can be found encoding sequence, it has never been to translated or included in manually curated sets proteins, existing only predicted, tentative and a single mature antibody sequence. We have synthesized this "nullomer" peptide, along with 13 derivatives, reversed, truncated, stereoisomers, alanine-scanning peptides, conjugated polyarginine stretches increase cellular uptake. their impact against healthy neuronal line six patient-derived glioblastoma cell lines spanning three clinical subtypes. Results reveal IC50 values averaging 4.9 μM for inhibition survival tested oncogenic lines. High-content phenotypic analysis features reverse-phase arrays failed discern clear mode action nullomer peptide but suggests mitochondrial impairment through GSK3 isoforms, supported by observations reduced stain intensities. With recent interest we see results study starting point further investigation into potentially therapeutic class.

Язык: Английский

Процитировано

0
In Vivo Studies of Anticancer Peptides for Breast Cancer Therapy DOI Open Access

Parsa Golestannejad,

Mohamad-Parsa Monkaresi,

Farzaneh Alizadeh-Khabaz

и другие.

Jundishapur Journal of Natural Pharmaceutical Products, Год журнала: 2025, Номер 20(2)

Опубликована: Март 18, 2025

Context: Breast cancer is a major cause of mortality worldwide. It involves the proliferation cells within breast tissues and metastasis to other organs. Currently, several strategies exist address this challenging disease, but none are both promising safe, often exposing patients complications. Consequently, alternative therapeutic agents urgently needed. Anticancer peptides (ACPs), due their considerable efficacy low toxicity, hold high value in combating cancer. Reviewing activity, mechanisms ACPs, as reported original articles from era, can lead better judgment regarding implementation clinical trials. Evidence Acquisition: We conducted search PubMed database for published English 1963 2025. The strategy outlined Appendix 1 Supplementary File. This study included that investigated anticancer effects vivo. Excluded analysis were studies only vitro or those properties peptide, such delivery, imaging, vaccination, without examining peptide on tumors. Additionally, written languages than English, well reviews duplicates, excluded. Results: A yielded 3,552 articles. After removing duplicates review papers, 3,147 deemed suitable qualified analysis. Following screening process based titles abstracts, 3,080 publications excluded lack relevance, leaving 67 met our inclusion criteria full-text (Appendix 2 File). reviewed summarized 3 Conclusions: development ACPs represents hopeful innovative frontier fight against Through ongoing research, could emerge vital component treatment options, providing new hope

Язык: Английский

Процитировано

0
kmerDB: A database encompassing the set of genomic and proteomic sequence information for each species DOI Creative Commons

Ioannis Mouratidis,

Fotis A. Baltoumas, Nikol Chantzi

и другие.

Computational and Structural Biotechnology Journal, Год журнала: 2024, Номер 23, С. 1919 - 1928

Опубликована: Апрель 21, 2024

The decrease in sequencing expenses has facilitated the creation of reference genomes and proteomes for an expanding array organisms. Nevertheless, no established repository that details organism-specific genomic proteomic sequences specific lengths, referred to as kmers, exists our knowledge. In this article, we present kmerDB, a database accessible through interactive web interface provides kmer-based information from systematic way. kmerDB currently contains 202,340,859,107 base pairs 19,304,903,356 amino acids, spanning 54,039 21,865 proteomes, respectively, well 14,658,776 149,264,442 species-specific sequences, termed quasi-primes. Additionally, provide access 5,186,757 nucleic 214,904,089 peptide absent every genome proteome, primes. features user-friendly offering various search options filters easy parsing searching. service is available at: www.kmerdb.com.

Язык: Английский

Процитировано

2
Ecology and environmental omics DOI
Minu Kesheri, Swarna Kanchan, Upasna Srivastava

и другие.

Elsevier eBooks, Год журнала: 2024, Номер unknown, С. 315 - 331

Опубликована: Янв. 1, 2024

Язык: Английский

Процитировано

2
Endhered Patterns in Matchings and RNA DOI

Célia Biane,

Greg Hampikian, Sergey Kirgizov

и другие.

Journal of Computational Biology, Год журнала: 2024, Номер unknown

Опубликована: Дек. 23, 2024

An

Язык: Английский

Процитировано

1