The RNA expression level of each gene in samples left on the transfer catheters

Published: 5 August 2025| Version 1 | DOI: 10.17632/x6sr8jd9vm.1
Contributors:
, Dan Zhou, Yangyun Zou, Yu Wang, Jiani Sun, Yixia Yang, Yachao Mao, Tuan Li, Yulin Chen, Jianing Niu, Jiaping Pan, Yi Guo, Shanshan Liang, Mei Zhao, Kunming Li, Wenqiang Liu, Orhan Bukulmez, Shu Yeung, Sijia Lu, Haixiang Sun, Xiaoming Teng

Description

Samples left on the transfer catheter after cleavage stage embryos transfer (day 3, D3, presumable pre-receptivity, n=96) and blastocysts transfer (day 5, D5, presumable receptivity, n=127) in 223 ART patients who achieved successful clinical pregnancies subsequently were collected. The RNA expression level of each gene was estimated by FPKM (fragments per kilobase million).

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Steps to reproduce

The RNA sequence reads were filtered to remove low-quality reads and alternative alignment by the RNASeQC. Then the qualified reads were aligned to the human reference genome (Ensemble primary assembly, version GRCh38) with HISAT2 . Read counts were calculated using the HTSeq-count. The R package DESeq2 was used to identify the differentially expressed genes (DGEs) . The thresholds were set as |log2fold change (FC)| >1 along with padj < 0.05.

Institutions

  • Nanjing University Medical School Affiliated Nanjing Drum Tower Hospital
  • University of Hong Kong-Shenzhen Hospital
  • Tongji University
  • University of Texas Southwestern Medical Center at Dallas

Categories

Molecular Profiling, Gene Expression Profiling

Funders

  • Science and Technology Commission of Shanghai Municipality
    Grant ID: 23Y11909600
  • Clinical Research Plan of Shanghai Hospital Development Center
    Grant ID: SHDC2020CR4080
  • National Natural Science Foundation of China
    Grant ID: 81871213,81671468
  • Shanghai Municipal Health Commission
    Grant ID: (202140059)

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