Bevacizumab Antibody Affinity Maturation to Improve Ovarian Cancer Immunotherapy: In Silico Approach

2018 ◽  
Vol 25 (4) ◽  
pp. 1417-1430
Author(s):  
Shirin Eyvazi ◽  
Zahra Payandeh ◽  
Saeed Khalili ◽  
Fatemeh Sefid ◽  
Elaheh Ouladsahebmadarek
Keyword(s):  
Ovarian Cancer ◽  
Cancer Immunotherapy ◽  
In Silico ◽  
Affinity Maturation ◽  
Antibody Affinity

scholarly journals Performance of In Silico Prediction Tools for the Detection of Germline Copy Number Variations in Cancer Predisposition Genes in 4208 Female Index Patients with Familial Breast and Ovarian Cancer

Cancers ◽  
2021 ◽  
Vol 13 (1) ◽  
pp. 118
Author(s):  
Louisa Lepkes ◽  
Mohamad Kayali ◽  
Britta Blümcke ◽  
Jonas Weber ◽  
Malwina Suszynska ◽  
...  
Keyword(s):  
Ovarian Cancer ◽  
In Silico ◽  
Copy Number ◽  
Gc Content ◽  
Copy Number Variations ◽  
Cancer Predisposition ◽  
Predictive Values ◽  
Prediction Tools ◽  
Predisposition Genes ◽  
Female Index

The identification of germline copy number variants (CNVs) by targeted next-generation sequencing (NGS) frequently relies on in silico CNV prediction tools with unknown sensitivities. We investigated the performances of four in silico CNV prediction tools, including one commercial (Sophia Genetics DDM) and three non-commercial tools (ExomeDepth, GATK gCNV, panelcn.MOPS) in 17 cancer predisposition genes in 4208 female index patients with familial breast and/or ovarian cancer (BC/OC). CNV predictions were verified via multiplex ligation-dependent probe amplification. We identified 77 CNVs in 76 out of 4208 patients (1.81%); 33 CNVs were identified in genes other than BRCA1/2, mostly in ATM, CHEK2, and RAD51C and less frequently in BARD1, MLH1, MSH2, PALB2, PMS2, RAD51D, and TP53. The Sophia Genetics DDM software showed the highest sensitivity; six CNVs were missed by at least one of the non-commercial tools. The positive predictive values ranged from 5.9% (74/1249) for panelcn.MOPS to 79.1% (72/91) for ExomeDepth. Verification of in silico predicted CNVs is required due to high frequencies of false positive predictions, particularly affecting target regions at the extremes of the GC content or target length distributions. CNV detection should not be restricted to BRCA1/2 due to the relevant proportion of CNVs in further BC/OC predisposition genes.

Antibody affinity maturation using bacterial surface display

1998 ◽  
Vol 11 (9) ◽  
pp. 825-832 ◽  
Author(s):  
P. S. Daugherty ◽  
G. Chen ◽  
M. J. Olsen ◽  
B. L. Iverson ◽  
G. Georgiou
Keyword(s):  
Surface Display ◽  
Affinity Maturation ◽  
Antibody Affinity ◽  
Bacterial Surface ◽  
Bacterial Surface Display

scholarly journals Impaired Antibody Affinity Maturation Process Characterizes a Subset of Patients with Common Variable Immunodeficiency

2000 ◽  
Vol 165 (8) ◽  
pp. 4725-4730 ◽  
Author(s):  
D. Bonhomme ◽  
L. Hammarström ◽  
D. Webster ◽  
H. Chapel ◽  
O. Hermine ◽  
...  
Keyword(s):  
Common Variable Immunodeficiency ◽  
Affinity Maturation ◽  
Maturation Process ◽  
Antibody Affinity ◽  
Common Variable
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