scholarly journals Impact of preoperative antibiotics and other variables on integrated microbiome-host transcriptomic data generated from colorectal cancer resections

2021 ◽  
Vol 27 (14) ◽  
pp. 1465-1482
Author(s):  
Sarah A Malik ◽  
Chencan Zhu ◽  
Jinyu Li ◽  
Joseph F LaComb ◽  
Paula I Denoya ◽  
...  
Keyword(s):  
Colorectal Cancer ◽  
Transcriptomic Data ◽  
Preoperative Antibiotics

scholarly journals Proteoform Identification by Combining RNA-Seq and Top-down Mass Spectrometry

2020 ◽  
Author(s):  
Wenrong Chen ◽  
Xiaowen Liu
Keyword(s):  
Colorectal Cancer ◽  
Mass Spectrometry ◽  
Genetic Alterations ◽  
Mass Spectrometry Data ◽  
Rna Seq ◽  
Top Down ◽  
Protein Databases ◽  
Transcriptomic Data ◽  
Colorectal Cancer Cells ◽  
Top Down Mass Spectrometry

ABSTRACTIn proteogenomic studies, genomic and transcriptomic variants are incorporated into customized protein databases for the identification of proteoforms, especially proteoforms with sample-specific variants. Most proteogenomic research has been focused on combining genomic or transcriptomic data with bottom-up mass spectrometry data. In the last decade, top-down mass spectrometry has attracted increasing attention because of its capacity to identify various proteoforms with alterations. However, top-down proteogenomics, in which genomic or transcriptomic data are combined with top-down mass spectrometry data, has not been widely adopted, and there still lack of software tools for top-down proteogenomic data analysis. In this paper, we introduce TopPG, a proteogenomic tool for identifying proteoforms with genetic alterations and alternative splicing events. Experiments on top-down proteogenomic data of DLD-1 colorectal cancer cells showed that TopPG can confidently identify proteoforms with sample-specific alterations.

Deletion mapping on chromosome 6 in colorectal cancer associated with ulcerative colitis

2001 ◽  
Vol 120 (5) ◽  
pp. A121-A122
Author(s):  
T EZAKI ◽  
M WATANABE ◽  
S FUNAKOSHI ◽  
M NAGANUMA ◽  
T AZUMA ◽  
...  
Keyword(s):  
Colorectal Cancer ◽  
Ulcerative Colitis ◽  
Deletion Mapping ◽  
Chromosome 6

Predicting adherence to colorectal cancer surveillance after plypectomy

2001 ◽  
Vol 120 (5) ◽  
pp. A602-A602
Author(s):  
S RAWL ◽  
S BLACKBURN ◽  
L HACKWARD ◽  
N FINEBERG ◽  
T IMPERIALE ◽  
...  
Keyword(s):  
Colorectal Cancer ◽  
Cancer Surveillance ◽  
Colorectal Cancer Surveillance

Urokinase type plasminogen activator and inhibitor type-1 plasma levels in colorectal cancer

2001 ◽  
Vol 120 (5) ◽  
pp. A599-A600 ◽  
Author(s):  
L HERSZENYI ◽  
F FARINATI ◽  
G ISTVAN ◽  
M PAOLI ◽  
G ROVERONI ◽  
...  
Keyword(s):  
Colorectal Cancer ◽  
Plasminogen Activator ◽  
Plasma Levels ◽  
Type Plasminogen Activator ◽  
Urokinase Type Plasminogen Activator ◽  
Inhibitor Type

A panel of mono- and dinucleotide microsatellite markers is required for reliable determination of the MSI status in colorectal cancer

2001 ◽  
Vol 120 (5) ◽  
pp. A599-A599
Author(s):  
C ARNOLD ◽  
A GOEL ◽  
J CARETHERS ◽  
L WASSERMAN ◽  
C COMPTON ◽  
...  
Keyword(s):  
Colorectal Cancer ◽  
Microsatellite Markers ◽  
Reliable Determination

Use of plasma MMP-2 to measure response to surgery and chemoradiotherapy in colorectal cancer

2001 ◽  
Vol 120 (5) ◽  
pp. A159-A159
Author(s):  
M TUTTON ◽  
M GEORGE ◽  
S ECCLES ◽  
I SWIFT ◽  
M ABULAFI
Keyword(s):  
Colorectal Cancer
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