1.The clinical study of azacitidine and lenalidomide combination in myelodysplastic neoplasm patients with TP53 mutations
Xin YAN ; Chenghao GUO ; Chan YANG ; Chengqi LIN ; Dandan SONG ; Zhimei CAI ; Ying WANG ; Lian WANG ; Zheng GE
Chinese Journal of Hematology 2025;46(11):1044-1051
Objective:To assess the efficacy and safety of azacitidine combined with lenalidomide in MDS patients and explore potential mechanisms of therapeutic response.Methods:Sixteen MDS patients with TP53 mutations received azacitidine plus lenalidomide at ZhongDa Hospital, Southeast University (January 2021–June 2025). Efficacy and safety were assessed, and TP53 mutation status was correlated with treatment response. Whole-transcriptome sequencing and bioinformatics were used to explore molecular biomarkers associated with therapeutic efficacy.Results:Sixteen patients (median age 69.5 years, range 52–82; 8 males, 8 females) were enrolled. According to the Molecular International Prognostic Scoring System (IPSS-M), 1, 2, and 13 patients were classified as median low, high, and very high risk, respectively. Among 16 TP53-mutated patients, 11 had biallelic mutations and 5 had monoallelic mutations. Overall response rate was 56.3% (9/16), composite complete remission rate (CRc) was 31.3% (5/16), and hematology improvement rate was 25% (4/16). Among TP53-mutated patients, the response rate was 56.3% (9/16), with variant allele frequency dropping from 65.6% to 16.5% in responders ( P=0.017). In patients with TP53 mutations and complex karyotype, response rate was 53.8% (7/13), with 57.1% (4/7) showing disappearance of CK post-treatment. The most common grade 3–4 nonhematologic adverse events were infections (9/16, 56.3% ), including pneumonia (4/16, 25.0% ), gastrointestinal infections (3/16, 18.8% ), perianal infections (1/16, 6.3% ) and sepsis (1/16, 6.3% ). High CBX8 expression may be linked to treatment response. Conclusion:Azacitidine plus lenalidomide is an effective and safe therapy for MDS, including patients with TP53 mutations and complex karyotypes. Treatment markedly reduces TP53 variant allele frequency in responders, and high CBX8 expression may predict therapeutic response.
2.The clinical study of azacitidine and lenalidomide combination in myelodysplastic neoplasm patients with TP53 mutations
Xin YAN ; Chenghao GUO ; Chan YANG ; Chengqi LIN ; Dandan SONG ; Zhimei CAI ; Ying WANG ; Lian WANG ; Zheng GE
Chinese Journal of Hematology 2025;46(11):1044-1051
Objective:To assess the efficacy and safety of azacitidine combined with lenalidomide in MDS patients and explore potential mechanisms of therapeutic response.Methods:Sixteen MDS patients with TP53 mutations received azacitidine plus lenalidomide at ZhongDa Hospital, Southeast University (January 2021–June 2025). Efficacy and safety were assessed, and TP53 mutation status was correlated with treatment response. Whole-transcriptome sequencing and bioinformatics were used to explore molecular biomarkers associated with therapeutic efficacy.Results:Sixteen patients (median age 69.5 years, range 52–82; 8 males, 8 females) were enrolled. According to the Molecular International Prognostic Scoring System (IPSS-M), 1, 2, and 13 patients were classified as median low, high, and very high risk, respectively. Among 16 TP53-mutated patients, 11 had biallelic mutations and 5 had monoallelic mutations. Overall response rate was 56.3% (9/16), composite complete remission rate (CRc) was 31.3% (5/16), and hematology improvement rate was 25% (4/16). Among TP53-mutated patients, the response rate was 56.3% (9/16), with variant allele frequency dropping from 65.6% to 16.5% in responders ( P=0.017). In patients with TP53 mutations and complex karyotype, response rate was 53.8% (7/13), with 57.1% (4/7) showing disappearance of CK post-treatment. The most common grade 3–4 nonhematologic adverse events were infections (9/16, 56.3% ), including pneumonia (4/16, 25.0% ), gastrointestinal infections (3/16, 18.8% ), perianal infections (1/16, 6.3% ) and sepsis (1/16, 6.3% ). High CBX8 expression may be linked to treatment response. Conclusion:Azacitidine plus lenalidomide is an effective and safe therapy for MDS, including patients with TP53 mutations and complex karyotypes. Treatment markedly reduces TP53 variant allele frequency in responders, and high CBX8 expression may predict therapeutic response.
3.Mapping the epigenetic modifications of DNA and RNA.
Lin-Yong ZHAO ; Jinghui SONG ; Yibin LIU ; Chun-Xiao SONG ; Chengqi YI
Protein & Cell 2020;11(11):792-808
Over 17 and 160 types of chemical modifications have been identified in DNA and RNA, respectively. The interest in understanding the various biological functions of DNA and RNA modifications has lead to the cutting-edged fields of epigenomics and epitranscriptomics. Developing chemical and biological tools to detect specific modifications in the genome or transcriptome has greatly facilitated their study. Here, we review the recent technological advances in this rapidly evolving field. We focus on high-throughput detection methods and biological findings for these modifications, and discuss questions to be addressed as well. We also summarize third-generation sequencing methods, which enable long-read and single-molecule sequencing of DNA and RNA modification.
Animals
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DNA/metabolism*
;
DNA Methylation
;
Epigenesis, Genetic
;
Epigenomics
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Humans
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RNA/metabolism*
;
Transcriptome
4.Quantitative low attenuation areas of every lung lobe assessment of pulmonary function loss by MDCT in COPD patients
Lin WANG ; Guangli WANG ; Chengqi ZHANG
Journal of Practical Radiology 2014;(4):613-616
Objective To determine the capability of quantitative low attenuation areas volume percentage(LAA%)in individual lobes to assess pulmonary function loss and disease severity in pulmonary COPD patients.Methods A total of 80 subjects (50 COPD patients;30 normal smokers),who all were smokers,underwent pulmonary function tests(PFTs)and Chest CT examination at full inspiration.For the quantitative assessment,percentage of low attenuation areas were automatically calculated for each lobe by the post processing software(Thoracic VCAR).To study the correlation between these CT parameters and lung function(FEV1% pre-dicted,FEV1/FVC,DLCO%predicted,RV/TLC),univariate linear regression analysis was performed.CT measurements were compared between the five groups with analysis of covariance(ANCOVA).Results FEV1 and FEV1/FVC had significant correla-tions with all of these CT parameters.DLCO、RV/TLC had significant correlations with these parameters,aside from the LAA% of right middle lobe and right inferior lobe.The LAA% in left upper lobe have the highest correlation with FEV1、DLCO、RV/TLC. However,FEV1/FVC have the highest correlation with the LAA% of right lower lobe.The LAA% of Right lung,right upper lobe,and whole lung were significantly different between the non-COPD group and GOLD1 group.Conclusion Whole lung and every lung lobe low attenuation areas volume percentage were reflected the lung function impairment in COPD patients.
5.Whole body vibration training improves limb motor dysfunction in stroke patients:lack of evidence
Pu WANG ; Chi ZHANG ; Xiaotian YANG ; Lin YANG ; Yonghong YANG ; Hongchen HE ; Chengqi HE
Chinese Journal of Tissue Engineering Research 2014;(38):6205-6209
BACKGROUND:Whole body vibration training, a recently developed method of neuromuscular training, is a useful method to improve muscle strength and postural control in the elderly. Recently, researchers attempt to explore whether whole body vibration training can reduce motor dysfunction for stroke patients.
OBJECTIVE:To summarize clinical progress in whole body vibration treatment on stroke patients with limb motor dysfunction, including muscle strength of the affected limbs, muscle tension, balance and gait.
METHODPubMed, EBSCO, Medline database were searched for articles relate to whole body vibration training intervention for stroke patients with motor dysfunction published from January 2002 to June 2014. Final y, 34 articles were included in result analysis.
RESULTS AND CONCLUSION:Whole body vibration training is feasible and safe for stroke patients has the feasibility and safety. For therapeutic efficacy, we focus on the muscle strength, muscle tone, balance, posture control ability, but there is no sufficient evidence to support that the whole body vibration training can improve the motor dysfunction. There is also no recognized standard on specific intervention protocols, such as vibration type, treatment frequency, treatment amplitude, treatment time. Many researchers aim to observe the clinical curative effect at present, but rarely explore the intervention mechanism of the whole body vibration. Further large-sample, multi-center randomized control ed experiments are required to test the validity.
6.Curative effects of pulsed electromagnetic fields on postmenopausal osteoporosis.
Huifang LIU ; Ying LIU ; Lin YANG ; Chunyan WANG ; Yuanchao WU ; Chengqi HE
Journal of Biomedical Engineering 2014;31(1):48-52
We investigated the effects and optimal treatment frequency of pulsed electromagnetic fields (PEMFs) on postmenopausal osteoporosis (PMO). A comparison was performed with the cyclical alendronate and a course of PEMFs in the treatment for postmenopausal osteoporosis on bone mineral density (BMD), pain intensity and balance function. There was no significant difference between the two groups on mean percentage changes from baseline of BMD within 24 weeks after random treatments (P > or = 0.05). However, at the ends of 48 weeks and 72 weeks, the BMD of the PEMFs group were significantly lower than that of the alendronate group (P < 0.05). No significant difference was detected between the two groups with regard to treatment effects on Visual Analogue Scale score, the Timed Up & Go Test and Berg Balance Scale score. Compared with cyclical alendronate, a course of PEMFs was as effective as alendronate in treating PMO for at least 24 weeks. So its optimal treatment frequency for PMO may be one course per six months.
Alendronate
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therapeutic use
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Bone Density
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Bone Density Conservation Agents
;
therapeutic use
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Electromagnetic Fields
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Female
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Humans
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Magnetic Field Therapy
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Osteoporosis, Postmenopausal
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therapy
7.Adolescent Mouse Takes on An Active Transcriptomic Expression During Postnatal Cerebral Development
Xu WEI ; Xin CHENGQI ; Lin QIANG ; Ding FENG ; Gong WEI ; Zhou YUANYUAN ; Yu JUN ; Cui PENG ; Hu SONGNIAN
Genomics, Proteomics & Bioinformatics 2014;(3):111-119
Postnatal cerebral development is a complicated biological process precisely controlled by multiple genes. To understand the molecular mechanism of cerebral development, we compared dynamics of mouse cerebrum transcriptome through three developmental stages using high-throughput RNA-seq technique. Three libraries were generated from the mouse cerebrum at infancy, adolescence and adulthood, respectively. Consequently, 44,557,729 (infancy), 59,257,530 (adolescence) and 72,729,636 (adulthood) reads were produced, which were assembled into 15,344, 16,048 and 15,775 genes, respectively. We found that the overall gene expression level increased from infancy to adolescence and decreased later on upon reaching adulthood. The adolescence cerebrum has the most active gene expression, with expression of a large number of reg-ulatory genes up-regulated and some crucial pathways activated. Transcription factor (TF) analysis suggested the similar dynamics as expression profiling, especially those TFs functioning in neurogenesis differentiation, oligodendrocyte lineage determination and circadian rhythm regula-tion. Moreover, our data revealed a drastic increase in myelin basic protein (MBP)-coding gene expression in adolescence and adulthood, suggesting that the brain myelin may be generated since mouse adolescence. In addition, differential gene expression analysis indicated the activation of rhythmic pathway, suggesting the function of rhythmic movement since adolescence;Furthermore, during infancy and adolescence periods, gene expression related to axon repulsion and attraction showed the opposite trends, indicating that axon repulsion was activated after birth, while axon attraction might be activated at the embryonic stage and declined during the postnatal develop-ment. Our results from the present study may shed light on the molecular mechanism underlying the postnatal development of the mammalian cerebrum.
8.The Association Between H3K4me3 and Antisense Transcription
Cui PENG ; Liu WANFEI ; Zhao YUHUI ; Lin QIANG ; Ding FENG ; Xin CHENGQI ; Geng JIANING ; Song SHUHUI ; Sun FANGLIN ; Hu SONGNIAN ; Yu JUN
Genomics, Proteomics & Bioinformatics 2012;10(2):74-81
Histone H3 lysine 4 trimethylation (H3K4me3) is well known to occur in the promoter region of genes for transcription activation.However,when investigating the H3K4me3 profiles in the mouse cerebrum and testis,we discovered that H3K4me3 also has a significant enrichment at the 3' end of actively transcribed (sense) genes,named as 3′-H3K4me3.3′-H3K4me3 is associated with ~15% of protein-coding genes in both tissues.In addition,we examined the transcriptional initiation signals including RNA polymerase II (RNAPII)binding sites and 5′-CAGE-tag that marks transcriptional start sites.Interestingly,we found that 3′-H3K4me3 is associated with the initiation of antisense transcription.Furthermore,3′-H3K4me3 modification levels correlate positively with the antisense expression levels of the associated sense genes,implying that 3′-H3K4me3 is involved in the activation of antisense transcription.Taken together,our findings suggest that H3K4me3 may be involved in the regulation of antisense transcription that initiates from the 3′ end of sense genes.In addition,a positive correlation was also observed between the expression of antisense and the associated sense genes with 3'-H3K4me3 modification.More importantly,we observed the 3'-H3K4me3 enrichment among genes in human,fruitfly and Arabidopsis,and found that the sequences of 3'-H3K4me3-marked regions are highly conserved and essentially indistinguishable from known promoters in vertebrate.Therefore,we speculate that these 3'-H3K4me3-marked regions may serve as potential promoters for antisense transcription and 3′-H3K4me3 appear to be a universal epigenetic feature in eukaryotes.Our results provide a novel insight into the epigenetic roles of H3K4me3 and the regulatory mechanism of antisense transcription.
9.Comparative Analyses of H3K4 and H3K27 Trimethylations Between the Mouse Cerebrum and Testis
Cui PENG ; Liu WANFEI ; Zhao YUHUI ; Lin QIANG ; Zhang DAOYONG ; Ding FENG ; Xin CHENGQI ; Zhang ZHANG ; Song SHUHUI ; Sun FANGLIN ; Yu JUN ; Hu SONGNIAN
Genomics, Proteomics & Bioinformatics 2012;10(2):82-93
The global features of H3K4 and H3K27 trimethylations (H3K4me3 and H3K27me3) have been well studied in recent years,but most of these studies were performed in mammalian cell lines.In this work,wegenerated the genome-wide maps of H3K4me3 and H3K27me3 of mouse cerebrum and testis using ChlP-seq and their high-coverage transcriptomes using ribominus RNA-seq with SOLiD technology.We examined the global patterns of H3K4me3 and H3K27me3 in both tissues and found that modifications are closely-associated with tissue-specific expression,function and development.Moreover,we revealed that H3K4me3 and H3K27me3 rarely occur in silent genes,which contradicts the findings in previous studies.Finally,we observed that bivalent domains,with both H3K4me3 and H3K27me3,existed ubiquitously in both tissues and demonstrated an invariable preference for the regulation of developmentally-related genes.However,the bivalent domains tend towards a "winner-takes-all" approach to regulate the expression of associated genes.We also verified the above results in mouse ES cells.As expected,the results in ES cells are consistent with those in cerebrum and testis.In conclusion,we present two very important findings.One is that H3K4me3 and H3K27me3 rarely occur in silent genes.The other is that bivalent domains may adopt a "winner-takes-all" principle to regulate gene expression.
10.Delayed diagnosed developmental dysplasia of the hip got remission effectively through Neurac technique
Lin YANG ; Yonghong YANG ; Chengqi HE
Chinese Journal of Tissue Engineering Research 2011;15(39):7407-7410
BACKGROUND: Joint instability may be a key agent contributing to the progress of developmental dysplasia of the hip (DDH). Neurac technique is a new modality focused on activating neuromuscular function and improving joint stability. Neurac technique may be helpful for delayed diagnosed DDH.OBJECTIVE: To observe the therapeutic efficacy of Neurac training on DDH patients.METHODS: A female patient of 23 years old with delayed diagnosed DDH received Neurac training for 14 days was retrospective analyzed.RESULTS AND CONCLUSION: The pain was relieved at 14 day after treatment. The Harris scoring showed that the hip function was improved. At 6 months follow-up, the results indicated that the remission was kept fine. Patient with delayed diagnosed DDH may get fine remission of pain and function through Neurac treatments. The effectiveness can last for a long time.

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