scholarly journals Chromatin network markers of leukemia

2020 ◽  
Vol 36 (Supplement_1) ◽  
pp. i455-i463
Author(s):  
N Malod-Dognin ◽  
V Pancaldi ◽  
A Valencia ◽  
N Pržulj
Keyword(s):  
Lymphocytic Leukemia ◽  
Supplementary Information ◽  
Cell Of Origin ◽  
Complement Protein ◽  
Driver Genes ◽  
Chromosome Conformation ◽  
The Road ◽  
Cellular Processes ◽  
Dna Elements ◽  
And Control

Abstract Motivation The structure of chromatin impacts gene expression. Its alteration has been shown to coincide with the occurrence of cancer. A key challenge is in understanding the role of chromatin structure (CS) in cellular processes and its implications in diseases. Results We propose a comparative pipeline to analyze CSs and apply it to study chronic lymphocytic leukemia (CLL). We model the chromatin of the affected and control cells as networks and analyze the network topology by state-of-the-art methods. Our results show that CSs are a rich source of new biological and functional information about DNA elements and cells that can complement protein–protein and co-expression data. Importantly, we show the existence of structural markers of cancer-related DNA elements in the chromatin. Surprisingly, CLL driver genes are characterized by specific local wiring patterns not only in the CS network of CLL cells, but also of healthy cells. This allows us to successfully predict new CLL-related DNA elements. Importantly, this shows that we can identify cancer-related DNA elements in other cancer types by investigating the CS network of the healthy cell of origin, a key new insight paving the road to new therapeutic strategies. This gives us an opportunity to exploit chromosome conformation data in healthy cells to predict new drivers. Availability and implementation Our predicted CLL genes and RNAs are provided as a free resource to the community at https://life.bsc.es/iconbi/chromatin/index.html. Supplementary information Supplementary data are available at Bioinformatics online.

A Unique Case of Cutaneous Cunninghamella infection in an Immunocompromised Patient (Preprint)

2020 ◽  
Author(s):  
Mauricio Portillo ◽  
Shyam Allamaneni ◽  
Richard Goodman
Keyword(s):  
Fungal Infections ◽  
Immunocompromised Patient ◽  
Lymphocytic Leukemia ◽  
Peripherally Inserted Central Catheter ◽  
Central Catheter ◽  
Unique Case ◽  
Systemic Complications ◽  
Prompt Treatment ◽  
Mode Of Transmission ◽  
And Control

UNSTRUCTURED Cunninghamella species are an extremely rare cause of fungal infections. The usual mode of transmission is through inhalation however rare cases of cutaneous spread have been reported. The objective of this clinical case report is to highlight the uniqueness of which the patient acquired the infection, the progression, and control of it. A 57-year-old male with chronic lymphocytic leukemia was found to have an abscess next to his peripherally inserted central catheter (PICC) line. The abscess culture grew back Cunninghamella and was debrided and treated with a novel antifungal. The fungal infection was controlled and the total timeframe took 28 days. Rapid recognition and prompt treatment demonstrate the prevention of rapidly progressive angioinvasian and further systemic complications. This case also proves that a novel antifungal may be appropriate in controlling the spread of Cunninghamella species.

scholarly journals Inferring perturbation profiles of cancer samples

2021 ◽  
Author(s):  
Martin Pirkl ◽  
Niko Beerenwinkel
Keyword(s):  
Indirect Evidence ◽  
R Package ◽  
The Cancer Genome Atlas ◽  
Supplementary Information ◽  
Patient Specific ◽  
Driver Genes ◽  
Cancer Driver ◽  
Molecular Alterations ◽  
Incomplete Coverage ◽  
Gene Perturbations

Abstract Motivation Cancer is one of the most prevalent diseases in the world. Tumors arise due to important genes changing their activity, e.g. when inhibited or over-expressed. But these gene perturbations are difficult to observe directly. Molecular profiles of tumors can provide indirect evidence of gene perturbations. However, inferring perturbation profiles from molecular alterations is challenging due to error-prone molecular measurements and incomplete coverage of all possible molecular causes of gene perturbations. Results We have developed a novel mathematical method to analyze cancer driver genes and their patient-specific perturbation profiles. We combine genetic aberrations with gene expression data in a causal network derived across patients to infer unobserved perturbations. We show that our method can predict perturbations in simulations, CRISPR perturbation screens and breast cancer samples from The Cancer Genome Atlas. Availability and implementation The method is available as the R-package nempi at https://github.com/cbg-ethz/nempi and http://bioconductor.org/packages/nempi. Supplementary information Supplementary data are available at Bioinformatics online.

Optimization of Energy Management and Control for a Hybridized Through-The-Road Car

2021 ◽  
Author(s):  
Francesco Antonio Tiano ◽  
Gianfranco Rizzo ◽  
Matteo Marino
Keyword(s):  
Energy Management ◽  
The Road ◽  
And Control

scholarly journals The road ahead for cervical cancer prevention and control

2014 ◽  
Vol 21 (2) ◽  
pp. 255 ◽  
Author(s):  
J.E. Tota ◽  
A.V. Ramana–Kumar ◽  
Z. El-Khatib ◽  
E.L. Franco
Keyword(s):  
Cervical Cancer ◽  
Cancer Prevention ◽  
Prevention And Control ◽  
Cervical Cancer Prevention ◽  
Cancer Prevention And Control ◽  
The Road ◽  
And Control

scholarly journals Chaos and Control in Coronary Artery System

2012 ◽  
Vol 2012 ◽  
pp. 1-15 ◽  
Author(s):  
Yanxiang Shi
Keyword(s):  
Coronary Artery ◽  
Feedback Control ◽  
Numerical Simulations ◽  
Melnikov Method ◽  
Phase Portraits ◽  
Bifurcation Diagrams ◽  
Nonlinear Dynamical ◽  
The Road ◽  
Two Systems ◽  
And Control

Two types of coronary artery system N-type and S-type, are investigated. The threshold conditions for the occurrence of Smale horseshoe chaos are obtained by using Melnikov method. Numerical simulations including phase portraits, potential diagram, homoclinic bifurcation curve diagrams, bifurcation diagrams, and Poincaré maps not only prove the correctness of theoretical analysis but also show the interesting bifurcation diagrams and the more new complex dynamical behaviors. Numerical simulations are used to investigate the nonlinear dynamical characteristics and complexity of the two systems, revealing bifurcation forms and the road leading to chaotic motion. Finally the chaotic states of the two systems are effectively controlled by two control methods: variable feedback control and coupled feedback control.

Chronic lymphocytic leukemia: revelations from the B-cell receptor

Blood ◽  
2004 ◽  
Vol 103 (12) ◽  
pp. 4389-4395 ◽  
Author(s):  
Freda K. Stevenson ◽  
Federico Caligaris-Cappio
Keyword(s):  
Chronic Lymphocytic Leukemia ◽  
B Cell ◽  
Cell Receptor ◽  
B Cell Receptor ◽  
Lymphocytic Leukemia ◽  
Cell Of Origin ◽  
Regulatory B Cell ◽  
V Genes

Abstract The finding that chronic lymphocytic leukemia (CLL) consists of 2 clinical subsets, distinguished by the incidence of somatic mutations in the immunoglobulin (Ig) variable region (V) genes, has clearly linked prognosis to biology. Antigen encounter by the cell of origin is indicated in both subsets by selective but distinct expression of V genes, with evidence for continuing stimulation after transformation. The key to distinctive tumor behavior likely relates to the differential ability of the B-cell receptor (BCR) to respond. Both subsets may be undergoing low-level signaling in vivo, although analysis of blood cells limits knowledge of critical events in the tissue microenvironment. Analysis of signal competence in vitro reveals that unmutated CLL generally continues to respond, whereas mutated CLL is anergized. Differential responsiveness may reflect the increased ability of post-germinal center B cells to be triggered by antigen, leading to long-term anergy. This could minimize cell division in mutated CLL and account for prognostic differences. Unifying features of CLL include low responsiveness, expression of CD25, and production of immunosuppressive cytokines. These properties are reminiscent of regulatory T cells and suggest that the cell of origin of CLL might be a regulatory B cell. Continuing regulatory activity, mediated via autoantigen, could suppress Ig production and lead to disease-associated hypogammaglobulinemia. (Blood. 2004;103:4389-4395)

A discussion on ship technology in the 1980s - Shipbuilding in the future

1972 ◽  
Vol 273 (1231) ◽  
pp. 13-21 ◽  
Keyword(s):  
Industrial Development ◽  
Manufacturing Industry ◽  
Group Technology ◽  
Modern Technology ◽  
Point Of View ◽  
Production Lines ◽  
The Road ◽  
Craft Industry ◽  
And Control ◽  
Capital Intensive

The growth in world trade and hence the demand for shipping is expected to continue into the 1980s despite the present temporary recession. Many countries in the Mediterranean and Pacific area and in South and Central America see shipbuilding as their way to start along the road to industrial development, and will be favoured by good climatic and labour conditions which can now be joined to imported modern technology. Conventional shipbuilding will therefore grow rapidly in these countries. Western countries will be able to preserve their shipbuilding industries by keeping in the forefront ol technical development and by a rigorous examination of designs from the production point of view, in order to reduce the labour content, and make the management and control simpler. This means changing from a largely labour intensive craft industry to a capital intensive, manufacturing industry. In order to sustain this type of industry long runs of similar ships, standard components, modulai constructions much of it in production lines, using group technology, will be the pattern in the 1980s. Much research and development is already devoted to these techniques and the industry is already at the early stages of changing over to this type of working.

scholarly journals OPERATION AND CONTROL OF SPLIT-PARALLEL, THROUGH-THE- ROAD HYBRID ELECTRIC VEHICLE WITH IN-WHEEL MOTORS

2015 ◽  
Vol 11 ◽  
pp. 2793-2808 ◽  
Author(s):  
Saiful A. Zulkifli ◽  
◽  
Syaifuddin Mohd ◽  
Nordin Saad ◽  
A. Rashid A. Aziz ◽  
...  
Keyword(s):  
Electric Vehicle ◽  
Hybrid Electric Vehicle ◽  
The Road ◽  
Hybrid Electric ◽  
And Control

scholarly journals BioPartsBuilder: a synthetic biology tool for combinatorial assembly of biological parts

2015 ◽  
Vol 32 (6) ◽  
pp. 937-939 ◽  
Author(s):  
Kun Yang ◽  
Giovanni Stracquadanio ◽  
Jingchuan Luo ◽  
Jef D. Boeke ◽  
Joel S. Bader
Keyword(s):  
Large Scale ◽  
Supplementary Information ◽  
Market Place ◽  
Design Standards ◽  
Reusable Components ◽  
Assembly Design ◽  
Amazon Web Services ◽  
Dna Elements ◽  
Combinatorial Assembly ◽  
The Cost

Abstract Summary: Combinatorial assembly of DNA elements is an efficient method for building large-scale synthetic pathways from standardized, reusable components. These methods are particularly useful because they enable assembly of multiple DNA fragments in one reaction, at the cost of requiring that each fragment satisfies design constraints. We developed BioPartsBuilder as a biologist-friendly web tool to design biological parts that are compatible with DNA combinatorial assembly methods, such as Golden Gate and related methods. It retrieves biological sequences, enforces compliance with assembly design standards and provides a fabrication plan for each fragment. Availability and implementation: BioPartsBuilder is accessible at http://public.biopartsbuilder.org and an Amazon Web Services image is available from the AWS Market Place (AMI ID: ami-508acf38). Source code is released under the MIT license, and available for download at https://github.com/baderzone/biopartsbuilder. Contact: [email protected] Supplementary information: Supplementary data are available at Bioinformatics online.

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