A New Method for Mapping Short DNA Sequencing Reads by Using Quality Scores

2009 ◽  
Author(s):  
Hatice Gulcin Ozer ◽  
Terry Camerlengo ◽  
Tim Huang ◽  
Kun Huang
Keyword(s):  
Dna Sequencing ◽  
New Method

Computational investigation on DNA sequencing using functionalized graphene nanopores

2018 ◽  
Vol 20 (14) ◽  
pp. 9063-9069 ◽  
Author(s):  
You-sheng Yu ◽  
Xiang Lu ◽  
Hong-ming Ding ◽  
Yu-qiang Ma
Keyword(s):  
Dna Sequencing ◽  
Molecular Dynamic ◽  
Underlying Mechanism ◽  
New Method ◽  
Dna Bases ◽  
Molecular Dynamic Simulations ◽  
Functionalized Graphene ◽  
Computational Investigation ◽  
Dynamic Simulations

Using all-atom molecular dynamic simulations, we herein not only propose a new method for efficient DNA sequencing using functionalized graphene nanopores, but also reveal the underlying mechanism of interactions among ions, DNA bases and functionalized graphene.

A New Method of DNA Sequencing Using Deoxynucleoside α-Thiotriphosphates

DNA ◽  
1986 ◽  
Vol 5 (2) ◽  
pp. 173-177 ◽  
Author(s):  
SIEGFRIED LABEIT ◽  
HANS LEHRACH ◽  
ROGER S. GOODY
Keyword(s):  
Dna Sequencing ◽  
New Method

A New Method of Synthesis of Fluorescently Labelled Oligonucleotides and Their Application in DNA Sequencing

1992 ◽  
Vol 11 (10) ◽  
pp. 1703-1711 ◽  
Author(s):  
Wojciech T. Markiewicz ◽  
Gabriele Gröger ◽  
Rudi Rösch ◽  
Anna Zebrowska ◽  
Hartmut Seliger
Keyword(s):  
Dna Sequencing ◽  
New Method

scholarly journals A new method of synthesis of fluorescently labelled oligonucleotides and their application in DNA sequencing

1997 ◽  
Vol 25 (18) ◽  
pp. 3672-3680 ◽  
Author(s):  
W. T. Markiewicz ◽  
G. Groger ◽  
R. Rosch ◽  
A. Zebrowska ◽  
M. Markiewicz ◽  
...  
Keyword(s):  
Dna Sequencing ◽  
New Method

Purification of circular YACs from yeast cells for DNA sequencing

Genome ◽  
2008 ◽  
Vol 51 (2) ◽  
pp. 155-158 ◽  
Author(s):  
S.-H. Leem ◽  
Y.-H. Yoon ◽  
S. I. Kim ◽  
V. Larionov
Keyword(s):  
Dna Sequencing ◽  
Human Genome ◽  
Yeast Artificial Chromosome ◽  
Artificial Chromosome ◽  
Genome Project ◽  
New Method ◽  
Yeast Cells ◽  
Enzyme Analysis ◽  
Restriction Enzyme Analysis ◽  
The Human Genome Project

We describe a method for the purification of circular yeast artificial chromosome (YAC) DNA 120–150 kilobases (kb) in size that is of sufficient quantity and quality for restriction enzyme analysis and DNA sequencing. This method preferentially enriches for circular YAC DNA and avoids the time-consuming step of centrifugation in CsCl – ethidium bromide (EtBr) gradients. We applied this method to the purification of circular YACs carrying DNA segments that are extremely unstable in E. coli, including those that correspond to GAP2 and GAP3 on human chromosome 19. We showed that YAC DNA (GAP2 and GAP3) purified using this new method is clearly resolved in EtBr-stained gels. The sequence of YAC-GAP3 was obtained, representing the first GAP clone sequenced in YAC form. At present, it is estimated that there are more than 1000 gaps in the human genome that cannot be cloned using bacterial vectors. Thus, our new method may be very useful for completing the last stage of the human genome project.

scholarly journals Mammo Screen Artificial Intelligence (AI) Tool Improves Diagnostic Performance of Radiologists in Detecting Breast Cancer

2021 ◽  
pp. 327-370
Author(s):  
Elena Locci ◽  
Silvia Raymond
Keyword(s):  
T Cells ◽  
T Lymphocytes ◽  
Dna Sequencing ◽  
Cancer Cells ◽  
Dna Sequences ◽  
Immune Cells ◽  
Cancer Control ◽  
New Method ◽  
Response To Treatment ◽  
Sequencing Data

The abundance of T cells helps predict the patient's response to immunotherapy, so researchers hope this new method could provide specific and more effective treatments for cancer. Scientists analyzed DNA sequencing data from patients 'cancerous tumors to see if they could detect T cell deficiency. DNA sequencing is often performed on cancerous patients' tumors. It is done to classify them and understand how the cancer progresses. Estimation of immune cells, which are important for cancer control, affects patient survival and guides treatment. Our goal was to be able to develop a new method for annotating immune cells directly from DNA sequences without the need for further data. DNA sequencing allows scientists to see the history and evolution of tumors. In this study, scientists developed a way to calculate the historical levels of T cells; By reassembling or modifying them, they are provided with tools that allow them to detect attackers. In particular, the scientists found a "signal" for the loss of TREC cell division, and by recording this, they were able to accurately estimate the number of T cells in the tumor. In recent years, screening inhibitors (IPCs), a type of immunotherapy, have emerged as a revolutionary treatment for many types of cancer. ICPs work by blocking proteins called checkpoints made by T lymphocytes. These checkpoints prevent strong immune responses, as they can sometimes prevent T lymphocytes from killing cancer cells. When these checkpoints are closed, T cells are better able to kill cancer cells. One of the biomarkers showed that the potential success of immunotherapy was predicted by the number of T cells available, and that the more T cells available to IPCs, the more cancer cells were killed. It provides the patient's response to treatment without the need for additional data. In fact, the process we have developed can go beyond the standard DNA sequence at no extra time or cost. Our tools also make it possible to study the immune system more than just cancer. Keywords: Cancer; Cells; Tissues; Tumors; Prevention; Prognosis; Diagnosis; Imaging; Screening; Treatment; Management

Selective Sampling and Orientation of Non-Homogeneous Tissues

1968 ◽  
Vol 26 ◽  
pp. 98-99
Author(s):  
C. C. Clawson ◽  
L. W. Anderson ◽  
R. A. Good
Keyword(s):  
Electron Microscopy ◽  
Electron Microscope ◽  
Light Microscopy ◽  
Random Sampling ◽  
New Method ◽  
Microscope Examination ◽  
Small Areas ◽  
Selective Sampling ◽  
Large Numbers ◽  
Specific Orientation

Investigations which require electron microscope examination of a few specific areas of non-homogeneous tissues make random sampling of small blocks an inefficient and unrewarding procedure. Therefore, several investigators have devised methods which allow obtaining sample blocks for electron microscopy from region of tissue previously identified by light microscopy of present here techniques which make possible: 1) sampling tissue for electron microscopy from selected areas previously identified by light microscopy of relatively large pieces of tissue; 2) dehydration and embedding large numbers of individually identified blocks while keeping each one separate; 3) a new method of maintaining specific orientation of blocks during embedding; 4) special light microscopic staining or fluorescent procedures and electron microscopy on immediately adjacent small areas of tissue.

Imaging polymers, proteins and dna in aqueous solutions with the atomic force microscope

1989 ◽  
Vol 47 ◽  
pp. 32-33
Author(s):  
S.A.C. Gould ◽  
B. Drake ◽  
C.B. Prater ◽  
A.L. Weisenhorn ◽  
S.M. Lindsay ◽  
...  
Keyword(s):  
Amino Acids ◽  
Dna Sequencing ◽  
Aqueous Solutions ◽  
Atomic Force Microscope ◽  
Piezoelectric Crystal ◽  
Atomic Force ◽  
Structure Of Molecules ◽  
Optical Lever

The atomic force microscope (AFM) is an instrument that can be used to image many samples of interest in biology and medicine. Images of polymerized amino acids, polyalanine and polyphenylalanine demonstrate the potential of the AFM for revealing the structure of molecules. Images of the protein fibrinogen which agree with TEM images demonstrate that the AFM can provide topographical data on larger molecules. Finally, images of DNA suggest the AFM may soon provide an easier and faster technique for DNA sequencing.The AFM consists of a microfabricated SiO2 triangular shaped cantilever with a diamond tip affixed at the elbow to act as a probe. The sample is mounted on a electronically driven piezoelectric crystal. It is then placed in contact with the tip and scanned. The topography of the surface causes minute deflections in the 100 μm long cantilever which are detected using an optical lever.

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