Single-cell transcriptome deciphers key targets of thrombopoietin receptor agonists and immune microenvironment characteristics of immune thrombocytopenia

Thrombopoietin receptor agonists (TPO-RAs) represent a cornerstone in immune thrombocytopenia (ITP) management, yet their molecular mechanisms remain incompletely elucidated. This study systematically deciphered the key targets and signaling networks of four TPO-RAs (romiplostim, eltrombopag, avatrombopag, hetrombopag) in ITP pathogenesis. Network pharmacology was integrated with single-cell high-dimensional weighted gene co-expression network analysis (hdWGCNA) using bone marrow scRNA-seq data from ITP patients and healthy controls. Metacell-based co-expression modules to hematopoietic bone marrow cells were identified. Drug targets were curated from multiple databases, and candidate genes were screened by intersecting differentially expressed genes (DEGs), cell specific modules, and TPO-RA targets. Molecular docking, pseudotime trajectory analysis, and in silico gene knockdown were employed for functional validation. Intersection analysis revealed five key genes (CACNA1A, CSF1R, PKN1, CD9, DSTYK). Molecular docking demonstrated strong binding affinities between TPO-RAs and key targets. The ITP bone marrow niche exhibited rewired cell–cell communication, with enhanced T cell–initiated signaling and aberrant megakaryocyte-T cell interactions. Pseudotime analysis uncovered disrupted megakaryocyte maturation dynamics. In silico knockdown revealed CACNA1A, CSF1R, and PKN1 dysregulation exacerbated neutrophil hyperactivity, while CD9 and DSTYK knockdown impaired mitotic regulation. This study delineated mechanisms of TPO-RAs, highlighting five key genes that orchestrate dysregulated thrombopoiesis and immune dysfunction in ITP. The integration of in silico strategies identified novel targets for optimizing ITP therapy.

l Immunethrombocytopenia (ITP) is the most common acquired bleeding disorder. It is characterized by high patient heterogeneity, abnormally decreased plateletcounts, and an elevated bleeding risk, which severely impair patients’ quality of life.
l Thrombopoietin receptor agonists (TPO‑RAs) are widely used in the treatment of ITP. However, some patients exhibit resistance to TPO‑RAs, and the precise molecular mechanisms underlying their therapeutic effects require further elucidation. Clarifying these mechanisms is critical for optimizing treatment strategies for ITP patients.

l Immunethrombocytopenia (ITP) is the most common acquired bleeding disorder. It is characterized by high patient heterogeneity, abnormally decreased plateletcounts, and an elevated bleeding risk, which severely impair patients’ quality of life.
l Thrombopoietin receptor agonists (TPO‑RAs) are widely used in the treatment of ITP. However, some patients exhibit resistance to TPO‑RAs, and the precise molecular mechanisms underlying their therapeutic effects require further elucidation. Clarifying these mechanisms is critical for optimizing treatment strategies for ITP patients.

l This study systematically analyzed the key functional targets and signaling pathways offour commonly used TPO‑RAs (romiplostim, eltrombopag, avatrombopag, andhetrombopag) in the pathogenesis of ITP.
l The study integrated network pharmacology with single-cell RNA sequencing analysis ofbone marrow, and validated the findings through molecular docking, pseudotime trajectory analysis, in silico gene knockout, and other methods.
l Five key genes were identified: CACNA1A, CSF1R, PKN1, CD9, and DSTYK. In silico knockout ofthese genes revealed that their abnormal expression further exacerbates impaired platelet production and immune dysfunction.
l Abnormal intercellular communication exists in the bone marrow microenvironment of ITP patients, particularly the abnormal interaction between T cells and megakaryocytes.
l Molecular docking experiments confirmed that TPO‑RAs can bind tightly to these five key genes, providing a theoretical basis for the ability of TPO‑RAs to improve ITP through two aspects: promoting megakaryocyte platelet production and regulating the immune microenvironment.

l This study systematically analyzed the key functional targets and signaling pathways offour commonly used TPO‑RAs (romiplostim, eltrombopag, avatrombopag, andhetrombopag) in the pathogenesis of ITP.
l The study integrated network pharmacology with single-cell RNA sequencing analysis ofbone marrow, and validated the findings through molecular docking, pseudotime trajectory analysis, in silico gene knockout, and other methods.
l Five key genes were identified: CACNA1A, CSF1R, PKN1, CD9, and DSTYK. In silico knockout ofthese genes revealed that their abnormal expression further exacerbates impaired platelet production and immune dysfunction.
l Abnormal intercellular communication exists in the bone marrow microenvironment of ITP patients, particularly the abnormal interaction between T cells and megakaryocytes.
l Molecular docking experiments confirmed that TPO‑RAs can bind tightly to these five key genes, providing a theoretical basis for the ability of TPO‑RAs to improve ITP through two aspects: promoting megakaryocyte platelet production and regulating the immune microenvironment.

This study further elucidates the molecular mechanisms underlying TPO‑RA therapy in ITP and reveals the core roles of the above five key genes inregulating abnormal platelet production and immune dysfunction. These findings provide novel therapeutic targets for ITP and offer important scientific evidence for optimizing current TPO‑RA regimens and developing more precise and effective treatments for ITP in the future

This study further elucidates the molecular mechanisms underlying TPO‑RA therapy in ITP and reveals the core roles of the above five key genes inregulating abnormal platelet production and immune dysfunction. These findings provide novel therapeutic targets for ITP and offer important scientific evidence for optimizing current TPO‑RA regimens and developing more precise and effective treatments for ITP in the future