Current Progress in Investigating Mature T- and NK-Cell Lymphoma Gene Aberrations by Next-Generation Sequencing (NGS)

Figures & data

Figure 1 The construction of second-generation sequencing libraries and sequencing process. NGS library is prepared by fragmenting a gDNA sample and ligating specialized adapters to both fragment ends. Sequencing reagents, including fluorescently labeled nucleotides, are added and the first based is incorporated, The flow cell is imaged and the emission from each cluster is recorded. The emission wavelength and intensity are used to identify the base. This cycle is repeated “n” times to create a read length of “n” base.

Figure 2 Information analysis process. The library was sequenced and a large number of short fragments were obtained reads, Through bioinformatics analysis software, the reads was compared to the reference genome to obtain the location information of each read on the reference genome. Comprehensive reads comparison information to analyze the variation. Clinical NGS data analysis aims to detect, annotate, and provide a clear, professional and reliable report interpretation and ultimately as an important reference for clinical diagnosis and treatment.

Table 1 Common Related Gene Mutations in Mature T- and NK-Cell Lymphoma

Mature T-and NK-cell Lymphoma	Major Mutant Genes
T-cell prolymphocytic leukemia^Citation26^–^Citation28	(t14;14)(q11; q32), IL2RG, JAK1/3, STAT5B, EZH2, FBXW10, CHEK2
Adult T-cell leukemia-lymphoma^Citation34^–^Citation36	PLCG1, PRKCB, CARD11, VAV1, IRF4, FYN, CCR4, CCR7, GATA3, HNRNPA2B1, GPR183, CSNK2A1, CSNK2B
Extranodal natural killer/T-cell lymphoma, nasal type^Citation42,Citation43,Citation46,Citation53	TP53, DDX3X, MGA, STAT3, STAT5B, MLL2, ARID1A, EP300, ASXL3, BCOR, MSN, JAK3, KMT2D
Intestinal T-cell lymphoma^Citation57,Citation58	STAT5B, SETD2, JAK1, JAK3, STAT3, SOCS1, KRAS, TP53
Mycosis fungoides^Citation64	TCR
Sezary’s syndrome^Citation67	MYC, TOX, TP53, NCOR1, PTEN, FAS, DNMT3A, USP28, CAAP1, TMEM244, EHD1, MTMR2, RNF123, TOX, BAIAP2, CPN2, GPR128, CAPN12, FIGLA
Subcutaneous panniculitis-like T-cell lymphoma^Citation75	mTOR/AKT/PI3K
Peripheral T- cell lymphoma, NOS^Citation77,Citation80	TP53, TP63, CDKN2A, WWOX, ANKRD11, pY-STAT3
Angioimmunoblastic T-cell lymphoma and other nodal^Citation83,Citation90 lymphomas of T follicular helper (TFH) cell origin	RHOA, TET2, IDH2, DNMT3A, CD28
Anaplastic large cell lymphoma^Citation94	miRNA
Breast Implant-Associated Anaplastic Large Cell Lymphoma^Citation97	JAK1, STAT3

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