Comprehensive Reanalysis of Some Data in the Reports Relate to the TCR Vβ Repertoire of Peripheral Blood in the Patients with Different Diseases

Generally, there were two Vβ genes which further divided into two subfamilies in the family of 24 TCR Vβ genes: Vβ5 and Vβ13. The former contained Vβ5.1 and Vβ5.2; the later had Vβ13.1 and Vβ13.2. In some references of this study, there were some Vβ genes else which held subfamilies, for example, Vβ7 contained Vβ7.1, Vβ7.2 and Vβ7.3. These differences probably lied on the different classification standards for the subfamilies. However, the main Vβ gene families’ classification was consistent with each other. In order to unify the classification standard and make the data convenient for counting the predominant usage, the numbers of Vβ subfamilies were counted as the total of the corresponding main Vβ gene family. Besides, a concept of Predominant Usage Frequency (Frequencies) (PUF or PUFs) was applied, and its calculation formula was as following:


Introduction
In the past fifteen years, there were some studies related to the clonalities of TCR α and β heterodimer, especially the clonal expression of Vβ genes.In these reports, the predominant usage TCR Vβ gene families usually were shown, and these genes were considered as the factors associated with the corresponding diseases by the authors.However, there was no report about an overview aiming at these reports till now.This paper just focused on the reanalysis of the data in the reports.Through this comprehensive analysis, we attempt to find some new ideas which were different from the original authors, and exhibited some novel indications for the researchers of this filed.

Discussion
As the authors shown, there were different predominant usage gene families in different diseases.For example, Vβ11 and Vβ12 expressed in HBV infection; Vβ3 and Vβ13 in CC; Vβ12, Vβ21 and Vβ23 in APL; and so on.In most viewpoints of the researchers, these different predominant usage genes were just specific to the different diseases and probably represent the different features of the corresponding diseases.However, in our opinion, there were some insufficiencies in the perfect analysis for every report, and there would be more meaning to comprehensively analyze these research results.
In 24 Vβ gene families of all the cases, TCR Vβ3 was the most advantageous usage gene in the diseases except HBV and HIV infections.This probably indicated that Vβ3 always was the predominantly used in most of diseases beside virus infections.Vβ9 and Vβ13 even existed in all the diseases which except for APL and AML, respectively.This result showed that there were no specificities for their expression to the diseases; but if the expression absence of the two genes could indicate the occurrence of APL or AML needed for further study.As the gene families of low PUFs, Vβ4 was predominantly used in HBV infection, CC and APL; while Vβ16 was the advantageous expression gene for HBV infection, AML and CML.These results showed that Vβ4 and Vβ16 probably were the diagnosis indices for HBV, CC, APL, AML and CML; especially, Vβ4 plus Vβ16 may be more helpful for the diagnosis of HBV infection because both had relative high PUFs in this disease.
According to different PUFs of TCR Vβ in different diseases, the histograms were designed.As Figure 2 shown, the columns of different heights in the histogram represented the predominant usage frequencies of Vβ subfamilies.Obviously, the panorama of each histogram looked like a key, and the prominent columns were as same as the kits of the key.There were different kits in different diseases, for example, the components of the kits for HBV infection were Vβ2-Vβ4-Vβ5-Vβ8-Vβ9-Vβ10-Vβ11-Vβ12-Vβ13-Vβ15-Vβ16-Vβ17-Vβ18-Vβ21-Vβ22-Vβ23-Vβ24; those were Vβ5-Vβ7-Vβ9-Vβ13-Vβ20 in HIV infection; while those were Vβ2-Vβ7-Vβ9-Vβ21 in AMOL.Except for the components, and the height of the column determined by PUF was also the factor which determined the key's feature.The higher the frequency of the TCR Vβ gene family was, the higher the kit of the key would be.Therefore, to some extent, the key presented the total characterization of TCR Vβ skewness of the patients with certain a disease.As we known, the skewness of TCR Vβ specific to the associated antigen of the corresponding disease, so the key formed with the predominant usage genes could be taken as the whole skewness of TCR Vβ; in another words, it was a specific key to the certain a disease.There is a proverb in China which says that 'Open different locks with different keys'.Accordingly, there should be a key specific to every disease, such as various pathogen infections, colorectal cancer, leukemia, and so on.

Conclusion
Through the reanalysis of the data in the articles related to TCR Vβ predominant usage, we found the total usage characteristics of 24 Vβ gene families in the different diseases, and the individual features of the gene usage in each of the disease.To our understanding, these results probably pose a new idea or a novel viewpoint for analyzing and using the skewness of TCR for the researchers.For example, if the histogram of TCR In all the patients, Vβ3 were the highest usage genes, the PUF was 18% (36/200); Vβ9 was next to it with the PUF of 17% (34/200), which was followed by Vβ5 with the PUF of 13% (26/200).Both PUFs of Vβ13 and Vβ21 were 11.5% (23/200).In all of the 24 Vβ genes, the lowest usage gene was Vβ4 with PUF of 1.5% (3/200); Vβ16 and Vβ24 were second to it and which PUFs were both 2.5% (5/200).Vβ of a patient looks like that of AMoL, this may be helpful for the physician to make a diagnosis; and if the heights of predominant columns decrease, this may, indicate that the treatment is proper for the patient in clinic.Of course, this hypothesis needs lots of studies to prove by the researchers in future.

Figure 1 :
Figure 1: The total predominant usage frequencies of TCR Vβ genes summed from the patients with different diseases.

Figure 2 :
Figure 2: The different "keys" specific to different disease formed with the predominant usage frequencies of TCR Vβ genes in PBMC of the corresponding patients.