Shuofeng Hu's research while affiliated with Institute of Basic Medical Sciences and other places

... Most sequencing projects prioritized sample size over high-coverage, perhaps due to the observation that MAG yield per gigabases sequenced per sample peaks at the lower end of library sizes ( Figure S1-2). Some of the most deeply sequenced [23,24] or unusual [25] datasets were analyzed unassembled. The endgame of the reference MAG accumulation process is unclear. ...

... However, they are found in the genome of Arabidopsis thaliana, outside the bacterial domain. This might indicate that YbaB/EbfC orthologs found in bacteria might have been present in the last common ancestor of Eukarya, Archaea, and Bacteria or were acquired by LGT. Figure 2. Sequence length distribution results from MetaLogo [45]. The sequences were grouped with a sequence identity cut-off of 90% using CD-HIT Suite [46], yielding 248 representative proteins. ...

... 14 Another supportive study that investigated stomach susceptibility factors for SARS-CoV-2 showed that IM and H. pylori infection history may be susceptibility factors of SARS-CoV-2, and the mucosal protective agent may be useful for the blockade of SARS-CoV-2 transmission from the stomach to the intestine. 15 Moreover, another study showed that COVID-19 infection was more frequent in males than females, especially between 15-25 years, and also showed COVID-19 patients with positive results to H. pylori have higher levels of neutrophils (p-value= 0.001) and lymphocytes (p-value 0.032) respectively. 16 In general, in Arabic countries, few studies have been conducted to determine whether there is a connection between Covid-19 and H. pylori. ...

... In this regard, several scRNA-seq analyses have profiled the cellular ecosystem of both primary and metastatic GC [128][129][130], providing a good basis to delineate the roles of Hippo in a cell-type specific manner ( Figure 4B). To this end, cell-type-specific depletion of upstream kinases such as Lats1/2 or simple knock-in of a nuclearactivated form of YAP (such as the 5SA mutant) mouse models should be introduced to better explore the pathological modulation of Hippo in each cell type during GC development ( Figure 4B). ...

... As shown in Figure 4E, only miR-21-5p was overlapped among the top 10 miRNAs in OB-exosomes, the top 5 miRNAs in bone marrow cells of radiated mice injected with OB-exosomes and the top 5 miRNAs in FDC-P1 treated with OB-exosomes. MiR-21 has been reported to be involved in anti-apoptotic effects (Xiao et al., 2016;Canfrán-Duque et al., 2017;Cheng et al., 2018;Hu et al., 2020), and the function of miR-21 has been proved in related with hematopoietic apoptosis (Mengjia Hu et al., 2021). Above all, we focused on miR-21 to affirm the effect of OBexosomes on HSC apoptosis. ...

... NF-PitNETs are generally benign tumors in the pituitary gland. However, they are difficult to diagnose at an early stage because there is a lack of detectable hypersecreting serum hormones and specific clinical symptoms of NF-PitNETs at the early stage compared to FPAs [11]. NF-PitNETs are commonly detected according to some non-specific clinical symptoms such as headache, vision loss, or hypopituitarism. ...

... 13 Abnormal expression of FAM64A has been reported in several types of cancer such as prostate cancer, breast cancer, and pancreatic cancer. [14][15][16] However, the potential role of FAM64A in HNSCC is unknown. In addition, understanding of the detailed molecular mechanism accounting for the tumor promoting role of FAM64A is still in its infancy. ...

... Several studies postulate that they also act as effective biomarkers to chemotherapy resistance in mCRC patients. 20, 21 Yokoyama et al 22 suggest the lncRNA H19 and UAC1 were associated with the 5-FU resistance in the rectal cancer. Similarly, Li et al 23 report that mRNAs and lncRNAs biomarkers can effectively predict NCRT response in LARC patients. ...

... The application of a classical method of data normalization, z-score transformation, provides a way of standardizing data across a wide range of experiments and allows the comparison of microarray data independent of the original hybridization intensities. The z-score it is considered a reliable procedure for this type of analysis and can be considered a state-of-the-art methods, as demonstrated by the numerous bibliography [54][55][56][57][58][59][60][61][62][63][64][65] . The efficiency of RETNLB was assessed by the receiver operating characteristic (ROC) curve analyses. ...

... metastasis (34,35). Src is found to be one of the key pathway to regulate the GC carcinogenesis (36), it can accelerate the GC progression by MMP9 (37). In the current study, according to TCGA data and our tissues sequencing data, CEACAM6 was found over expressed in the GC tissues compared to the adjacent normal tissues. ...