keyword
MENU ▼
Read by QxMD icon Read
search

Protein import

keyword
https://www.readbyqxmd.com/read/29036922/microrna-and-mrna-dysregulation-in-astrocytes-infected-with-zika-virus
#1
Robert A Kozak, Anna Majer, Mia J Biondi, Sarah J Medina, Lee W Goneau, Babu V Sajesh, Jessy A Slota, Vanessa Zubach, Alberto Severini, David Safronetz, Shannon L Hiebert, Daniel R Beniac, Timothy F Booth, Stephanie A Booth, Gary P Kobinger
The Zika virus (ZIKV) epidemic is an ongoing public health concern. ZIKV is a flavivirus reported to be associated with microcephaly, and recent work in animal models demonstrates the ability of the virus to cross the placenta and affect fetal brain development. Recent findings suggest that the virus preferentially infects neural stem cells and thereby deregulates gene expression, cell cycle progression, and increases cell death. However, neuronal stem cells are not the only brain cells that are susceptible to ZIKV and infection of other brain cells may contribute to disease progression...
October 14, 2017: Viruses
https://www.readbyqxmd.com/read/29036915/stat3-but-not-hif-1%C3%AE-is-important-in-mediating-hypoxia-induced-chemoresistance-in-mda-mb-231-a-triple-negative-breast-cancer-cell-line
#2
Hoda Soleymani Abyaneh, Nidhi Gupta, Aneta Radziwon-Balicka, Paul Jurasz, John Seubert, Raymond Lai, Afsaneh Lavasanifar
Hypoxia-induced chemoresistance (HICR) is a well-recognized phenomenon, and in many experimental models, hypoxia inducible factor-1α (HIF-1α) is believed to be a key player. We aimed to better understand the mechanism underlying HICR in a triple negative breast cancer cell line, MDA-MB-231, with a focus on the role of HIF-1α. In this context, the effect of hypoxia on the sensitivity of MDA-MB-231 cells to cisplatin and their stem-like features was evaluated and the role of HIF-1α in both phenomena was assessed...
October 14, 2017: Cancers
https://www.readbyqxmd.com/read/29036914/molecular-characterization-and-functional-analysis-of-a-ferritin-heavy-chain-subunit-from-the-eri-silkworm-samia-cynthia-ricini
#3
Hai-Zhong Yu, Shang-Zhi Zhang, Yan Ma, Dong-Qiong Fei, Bing Li, Li-Ang Yang, Jie Wang, Zhen Li, Azharuddin Muhammad, Jia-Ping Xu
Ferritins are conserved iron-binding proteins that are primarily involved in iron storage, detoxification and the immune response. Despite the importance of ferritin in organisms, little is known about their roles in the eri-silkworm (Samia cynthia ricini). We previously identified a ferritin heavy chain subunit named ScFerHCH in the S. c. ricini transcriptome database. The full-length S. c. ricini ferritin heavy chain subunit (ScFerHCH) was 1863 bp and encoded a protein of 231 amino acids with a deduced molecular weight of 25...
October 14, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/29036807/obtaining-and-characterization-of-monoclonal-antibodies-against-recombinant-extracellular-domain-of-human-epidermal-growth-factor-receptor-2
#4
Sarina Nurgul, Abeldenov Sailau, Turgimbayeva Aigerim, Zhylkibayev Assylbek, Ramankulov Erlan, Khassenov Bekbolat, Eskendirova Saule
Human epidermal growth factor receptor 2 (HER2) is an important biomarker for detection and treatment of different types of cancers such as breast, ovarian, stomach cancer. In this study, we developed a monoclonal antibody against the extracellular domain (ECD) of HER2 biomarker of breast cancer. For this purpose, the ECD-HER2 gene was amplified and cloned into an expression vector. Gene was generated in Escherichia coli BL21 (DE3) strain for expression of recombinant protein. The expressed protein was separated by SDS-PAGE and detected by anti-his monoclonal antibody in immunoblotting...
September 8, 2017: Human Antibodies
https://www.readbyqxmd.com/read/29036804/rheopheresis-as-a-causal-therapy-option-for-systemic-scleroderma-ssc
#5
Stine Lutze, G Daeschlein, W Konschake, Michael Jünger
A complex pathomechanism accounts systemic sclerosis as a form of collagenosis. A triad of vasculopathy, autoinflammation, and dysbalance of the fibroblast function can be seen as cause, as well as symptomatic appearance. Comparative with other collagenoses, e.g. Lupus erythematosus, vasculopathy, instead of autoinflammation, appears to be clinically important in systemic scleroderma. The fact that autoinflammation does not represent the major role in the maintenance of the disease is also evident by the lack of therapeutic effects of classical systemic immunosuppressants...
October 7, 2017: Clinical Hemorheology and Microcirculation
https://www.readbyqxmd.com/read/29036721/blood-based-protein-changes-in-childhood-are-associated-with-increased-risk-for-later-psychotic-disorder-evidence-from-a-nested-case-control-study-of-the-alspac-longitudinal-birth-cohort
#6
Jane A English, Lorna M Lopez, Aoife O'Gorman, Melanie Föcking, Magdalena Hryniewiecka, Caitriona Scaife, Sophie Sabherwal, Kieran Wynne, Patrick Dicker, Bart P F Rutten, Glynn Lewis, Stanley Zammit, Mary Cannon, Gerard Cagney, David R Cotter
The identification of early biological changes associated with the psychotic disorder (PD) is important as it may provide clues to the underlying pathophysiological mechanisms. We undertook the first proteomic profiling of blood plasma samples of children who later develop a PD. Participants were recruited from the UK Avon Longitudinal Study of Parents and Children (ALSPAC) cohort who also participated in psychiatric assessment interviews at age 18. Protein expression levels at age 11 were compared between individuals who developed PD at age 18 (n = 37) with population-based age-matched controls (n = 38)...
July 27, 2017: Schizophrenia Bulletin
https://www.readbyqxmd.com/read/29036702/a-hyperdynamic-h3-3-nucleosome-marks-promoter-regions-in-pluripotent-embryonic-stem-cells
#7
Sharon Schlesinger, Binyamin Kaffe, Shai Melcer, Jose D Aguilera, Divya M Sivaraman, Tommy Kaplan, Eran Meshorer
Histone variants and their chaperones are key regulators of eukaryotic transcription, and are critical for normal development. The histone variant H3.3 has been shown to play important roles in pluripotency and differentiation, and although its genome-wide patterns have been investigated, little is known about the role of its dynamic turnover in transcriptional regulation. To elucidate the role of H3.3 dynamics in embryonic stem cell (ESC) biology, we generated mouse ESC lines carrying a single copy of a doxycycline (Dox)-inducible HA-tagged version of H3...
September 25, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/29036638/the-basic-tilted-helix-bundle-domain-of-the-prolyl-isomerase-fkbp25-is-a-novel-double-stranded-rna-binding-module
#8
David Dilworth, Santosh K Upadhyay, Pierre Bonnafous, Amiirah Bibi Edoo, Sarah Bourbigot, Francy Pesek-Jardim, Geoff Gudavicius, Jason J Serpa, Evgeniy V Petrotchenko, Christoph H Borchers, Christopher J Nelson, Cameron D Mackereth
Prolyl isomerases are defined by a catalytic domain that facilitates the cis-trans interconversion of proline residues. In most cases, additional domains in these enzymes add important biological function, including recruitment to a set of protein substrates. Here, we report that the N-terminal basic tilted helix bundle (BTHB) domain of the human prolyl isomerase FKBP25 confers specific binding to double-stranded RNA (dsRNA). This binding is selective over DNA as well as single-stranded oligonucleotides. We find that FKBP25 RNA-association is required for its nucleolar localization and for the vast majority of its protein interactions, including those with 60S pre-ribosome and early ribosome biogenesis factors...
September 25, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/29036616/deeploc-prediction-of-protein-subcellular-localization-using-deep-learning
#9
José Juan Almagro Armenteros, Casper Kaae Sønderby, Søren Kaae Sønderby, Henrik Nielsen, Ole Winther
Motivation: The prediction of eukaryotic protein subcellular localization is a well-studied topic in bioinformatics due to its relevance in proteomics research. Many machine learning methods have been successfully applied in this task, but in most of them, predictions rely on annotation of homologues from knowledge databases. For novel proteins where no annotated homologues exist, and for predicting the effects of sequence variants, it is desirable to have methods for predicting protein properties from sequence information only...
July 7, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29036592/gain-and-loss-of-small-rna-classes-characterization-of-small-rnas-in-the-parasitic-nematode-family-strongyloididae
#10
Anja Holz, Adrian Streit
The nematode family Strongyloididae is of particular interest because it contains important parasites of medical and veterinary relevance. In addition, species of this family can form parasitic and free-living generations and it also occupies an interesting phylogenetic position within the nematodes. Nematodes differ in several ways from other taxa with respect to their small non-coding RNAs. Recent comparative studies revealed that there is also considerable variability within the nematodes. However, no Strongyloididae species or close relative was included in these studies...
September 25, 2017: Genome Biology and Evolution
https://www.readbyqxmd.com/read/29036590/tissgdb-tissue-specific-gene-database-in-cancer
#11
Pora Kim, Aekyung Park, Guangchun Han, Hua Sun, Peilin Jia, Zhongming Zhao
Tissue-specific gene expression is critical in understanding biological processes, physiological conditions, and disease. The identification and appropriate use of tissue-specific genes (TissGenes) will provide important insights into disease mechanisms and organ-specific therapeutic targets. To better understand the tissue-specific features for each cancer type and to advance the discovery of clinically relevant genes or mutations, we built TissGDB (Tissue specific Gene DataBase in cancer) available at http://zhaobioinfo...
September 25, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/29036557/standardizing-biomass-reactions-and-ensuring-complete-mass-balance-in-genome-scale-metabolic-models
#12
Siu H J Chan, Jingyi Cai, Lin Wang, Margaret N Simons-Senftle, Costas D Maranas
Motivation: In a genome-scale metabolic model, the biomass produced is defined to have a molecular weight (MW) of 1 g mmol -1 . This is critical for correctly predicting growth yields, contrasting multiple models and more importantly modeling microbial communities. However, the standard is rarely verified in the current practice and the chemical formulae of biomass components such as proteins, nucleic acids and lipids are often represented by undefined side groups (e.g. X, R). Results: We introduced a systematic procedure for checking the biomass weight and ensuring complete mass balance of a model...
July 14, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29036535/ploc-manimal-predict-subcellular-localization-of-animal-proteins-with-both-single-and-multiple-sites
#13
Xiang Cheng, Shu-Guang Zhao, Wei-Zhong Lin, Xuan Xiao, Kuo-Chen Chou
Motivation: Cells are deemed the basic unit of life. However, many important functions of cells as well as their growth and reproduction are performed via the protein molecules located at their different organelles or locations. Facing explosive growth of protein sequences, we are challenged to develop fast and effective method to annotate their subcellular localization. However, this is by no means an easy task. Particularly, mounting evidences have indicated proteins have multi-label feature meaning that they may simultaneously exist at, or move between, two or more different subcellular location sites...
July 24, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29036515/the-jasmonate-zim-domain-gene-family-mediates-ja-signaling-and-stress-response-in-cotton
#14
Heng Sun, Lin Chen, Jianying Li, Meiling Hu, Abid Ullah, Xin He, Xiyan Yang, Xianlong Zhang
JASMONATE ZIM-domain (JAZ) family proteins are involved in regulating diverse biological processes in plants. However, their functions have not been well characterized in cotton (Gossypium spp.). In the present study, 13, 15, 25, and 30 JAZ genes were identified in Gossypium arboretum, Gossypium raimondii, Gossypium barbadense and Gossypium hirsutum respectively, based on gene homology. Selection and variation analyses showed that the SNP density of GhJAZ genes in wild species was much higher than that in domesticated species...
October 3, 2017: Plant & Cell Physiology
https://www.readbyqxmd.com/read/29036452/a-nonparametric-significance-test-for-sampled-networks
#15
Andrew Elliott, Elizabeth Leicht, Alan Whitmore, Gesine Reinert, Felix Reed-Tsochas
Motivation: Our work is motivated by an interest in constructing a protein-protein interaction network that captures key features associated with Parkinson's disease. While there is an abundance of subnetwork construction methods available, it is often far from obvious which subnetwork is the most suitable starting point for further investigation. Results: We provide a method to assess whether a subnetwork constructed from a seed list (a list of nodes known to be important in the area of interest) differs significantly from a randomly generated subnetwork...
July 7, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29036450/crosstalk-between-nitric-oxide-and-mpk1-2-mediates-cold-acclimation-induced-chilling-tolerance-in-tomato
#16
Xiangzhang Lv, Shibei Ge, Golam Jalal Ahammed, Xun Xiang, Zhixin Guo, Jingquan Yu, Yanhong Zhou
The participation of nitric oxide (NO) in the responses of plants towards biotic and abiotic stresses is well established. However, the mechanism involved particularly in cold acclimation-induced chilling tolerance remains elusive. Here we show the cold acclimation induced-chilling tolerance was associated with inductions of nitrate reductase (NR)-dependent NO production, S<iS-nitrosylated glutathione reductase (GSNOR) activity and mitogen-activated protein kinases MPK1/2 activation in tomato plants. Silencing of NR<NRi resulted in decreased GSNOR activity and MPK1/2 activation, which subsequently compromised cold acclimation-induced chilling tolerance...
September 22, 2017: Plant & Cell Physiology
https://www.readbyqxmd.com/read/29036449/resveratrol-attenuates-bone-cancer-pain-through-regulating-the-expression-levels-of-asic3-and-activating-cell-autophagy
#17
Haili Zhu, Jieqiong Ding, J Wu, Tingting Liu, Jing Liang, Qiong Tang, Ming Jiao
Bone cancer pain (BCP) is one of the most common pains in patients with malignant cancers. The mechanism underlying BCP is largely unknown. Our previous studies and the increasing evidence both have shown that acid-sensing ion channels 3 (ASIC3) is an important protein in the pathological pain state in some pain models. We hypothesized that the expression change of ASIC3 might be one of the factors related to BCP. In this study, we established the BCP model through intrathecally injecting rat mammary gland carcinoma cells (MRMT-1) into the left tibia of Sprague-Dawley female rats, and found that the BCP rats showed bone destruction, increased mechanical pain sensitivities and up-regulated ASIC3 protein expression levels in L4-L6 dorsal root ganglion...
October 3, 2017: Acta Biochimica et Biophysica Sinica
https://www.readbyqxmd.com/read/29036411/relative-validity-of-nutrient-intakes-assessed-by-questionnaire-24-hour-recalls-and-diet-records-compared-with-urinary-recovery-and-plasma-concentration-biomarkers-findings-for-women
#18
Changzheng Yuan, Donna Spiegelman, Eric B Rimm, Bernard A Rosner, Meir J Stampfer, Junaidah B Barnett, Jorge E Chavarro, Jennifer C Rood, Lisa J Harnack, Laura K Sampson, Walter C Willett
The authors evaluated the performance of a semi-quantitative food frequency questionnaire (SFFQ), web-based 24-hour recalls (ASA24s), and 7-day dietary records (7DDRs) compared to biomarkers among 627 women in Women's Lifestyle Validation Study (US, 2010-2012). Two paper SFFQs, one web-based SFFQ, four ASA24s (beta version), two 7DDRs, four 24-hour urine samples, one doubly-labeled water (repeated among 76 participants), and two fasting blood samples were collected over a 15-months-period. Dietary variables evaluated were energy, energy-adjusted intakes of protein, sodium, potassium, and specific fatty acids, carotenoids, α-tocopherol, retinol and folate...
October 4, 2017: American Journal of Epidemiology
https://www.readbyqxmd.com/read/29036382/musitedeep-a-deep-learning-framework-for-general-and-kinase-specific-phosphorylation-site-prediction
#19
Duolin Wang, Shuai Zeng, Chunhui Xu, Wangren Qiu, Yanchun Liang, Trupti Joshi, Dong Xu
Motivation: Computational methods for phosphorylation site prediction play important roles in protein function studies and experimental design. Most existing methods are based on feature extraction, which may result in incomplete or biased features. Deep learning as the cutting-edge machine learning method has the ability to automatically discover complex representations of phosphorylation patterns from the raw sequences, and hence it provides a powerful tool for improvement of phosphorylation site prediction...
August 3, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29036273/scoop-an-accurate-and-fast-predictor-of-protein-stability-curves-as-a-function-of-temperature
#20
Fabrizio Pucci, Jean Marc Kwasigroch, Marianne Rooman
Motivation: The molecular bases of protein stability remain far from elucidated even though substantial progress has been made through both computational and experimental investigations. One of the most challenging goals is the development of accurate prediction tools of the temperature dependence of the standard folding free energy Δ G ( T ). Such predictors have an enormous series of potential applications, which range from drug design in the biopharmaceutical sector to the optimization of enzyme activity for biofuel production...
June 26, 2017: Bioinformatics
keyword
keyword
106805
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"