2020.10.20 - 2024.04.18

Evaluating Reference Genes Expression>>
RefFinder is a user-friendly web-based comprehensive tool developed for evaluating and screening reference genes from extensive experimental datasets. It integrates the currently available major computational programs (geNorm, Normfinder, BestKeeper, and the comparative Δ-Ct method) to compare and rank the tested candidate reference genes. Based on the rankings from each program, It assigns an appropriate weight to an individual gene and calculated the geometric mean of their weights for the overall final ranking. LIZhen ( ORCID: 0000-0002-8512-2554 ) established and maintained the RefFinder mirror site ( ). Please thanks for LIZhen ( Sichuan Academy of Agricultural Characteristic Plants ) contributed analytical tool : RefFinder ( ) in Acknowledgements or Contributions ( just like DOI: 10.1007/s10142-023-01055-7 , 10.1038/s41598-022-16124-3 , 10.3389/fmicb.2023.1140515 , 10.3390/biomedicines11041079 , 10.1016/j.tox.2023.153678 ) .
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  1. RefFinder ( DOI: 10.1007/s11103-012-9885-2 (2012) , 10.1007/s10142-023-01055-7 (2023) )
    Added at the request of the RefFinder author Baohong Zhang
    "If you employed RefFinder for your study, please cite the following papers: Xie, F., Wang, J. & Zhang, B. RefFinder: a web-based tool for comprehensively analyzing and identifying reference genes. Funct Integr Genomics 23, 125 (2023). DOI: 10.1007/s10142-023-01055-7 and Xie, F., Xiao, P., Chen, D. et al. miRDeepFinder: a miRNA analysis tool for deep sequencing of plant small RNAs. Plant Mol Biol 80, 75–84 (2012). DOI: 10.1007/s11103-012-9885-2"
    Please respect copyright
  2. Genorm ( DOI: 10.1186/gb-2002-3-7-research0034 )
  3. NormFinder ( DOI: 10.1158/0008-5472.can-04-0496 )
  4. BestKeeper ( DOI: 10.1023/b:bile.0000019559.84305.47 )
  5. The comparative delta-Ct method ( DOI: 10.1186/1471-2199-7-33 )
    RefFinder ( )
    1. 20210601 DOI: 10.27136/d.cnki.ghunu.2021.000130 硕士论文 (中文)
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      Evaluation And Validation of Reliable Reference Genes For Quantitative Real-Time PCR Analysis of The Gene Expression In Macadamia Integrifolia
    3. 20210727 DOI: 10.1101/2021.07.27.454008 bioRχiv (preprint)
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    4. 20210819 DOI: 10.1038/s41598-021-96055-7 Scientific Reports (IF=4.38
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      艾Artemisia argyi实时荧光定量PCR内参基因筛选
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      Validation of Reference Genes for Quantitative Real-Time PCR Normalization in Ananas comosus var. bracteatus During Chimeric Leaf Development and Response to Hormone Stimuli
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    14. 20220112 DOI: 10.3389/fmicb.2021.827241 Frontiers in Microbiology (IF=5.64
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    16. 20220401 CNKI: 吉林农业大学学报 (中文)
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    22. 20220518 DOI: 10.26981/d.cnki.gjhsc.2022.000735 硕士论文 (中文)
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    27. 20220606 DOI: 10.3389/fpls.2022.893495 Frontiers in Plant Science (IF=5.754
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    28. 20220610 DOI: 10.3390/v14061269 Viruses (IF=5.048
      Selection and Validation of Reference Genes for Gene Expression Studies Using Quantitative Real-Time PCR in Prunus Necrotic Ringspot Virus-Infected Cucumis sativus
    29. 20220615 DOI: 10.21203/ Research Square (preprint)
      Validation of reference genes for gene expression analysis in fruit development of Vaccinium bracteatum Thunb using quantitative real-time PCR
      ------------------ ↑ IF2020 ↑ ------------------ ↓ IF2021 ↓ ------------------
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    31. 20220710 DOI: 10.3390/genes13071227 Genes (IF=4.141
      Identification of Reference Genes for RT-qPCR Analysis in Gleditsia microphylla under Abiotic Stress and Hormone Treatment
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      Trypsin is a coordinate regulator of N and P nutrients in marine phytoplankton
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      Identification of internal reference genes for porcine immature Sertoli cells under heat stress
    34. 20220728 DOI: 10.1038/s41598-022-16124-3 Scientific Reports (IF=4.996
      Systematic screening and validation of reliable reference genes for qRT-PCR analysis in Okra (Abelmoschus esculentus L.)
    35. 20220813 DOI: 10.1186/s43042-022-00333-6 Egyptian Journal of Medical Human Genetics
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      Nutrient Starvation Exposure Induced the Down-Regulation of Stress Responsive Genes and Selected Bioactive Metabolic Pathways in Phaeodactylum tricornutum
    37. 20220826 DOI: 10.3390/insects13090773 Insects (IF=3.139
      Assessment of Suitable Reference Genes for qRT-PCR Normalization in Eocanthecona furcellata (Wolff)
    38. 20220830 CN114958875A 中国专利
    39. 20220923 DOI: 10.3390/ijms231911187 International Journal of Molecular Sciences (IF=6.208
      Validation of Appropriate Reference Genes for qRT–PCR Normalization in Oat (Avena sativa L.) under UV-B and High-Light Stresses
    40. 20221009 DOI: 10.1038/s41598-022-20864-7 Scientific Reports (IF=4.996
      Validation of reference genes for gene expression analysis in fruit development of Vaccinium bracteatum Thunb. using quantitative real-time PCR
    41. 20221017 DOI: 10.7717/peerj.14221 Peer J (IF=3.061
      Comparison of reference gene expression stability in mouse skeletal muscle via five algorithms
    42. 20221018 DOI: 10.1093/jee/toac162 Journal of Economic Entomology (IF=2.447
      Selection of Reference Genes for Normalization of qRT‒PCR Analysis in the Soybean Aphid Aphis glycines Matsumura (Hemiptera: Aphididae)
    43. 20221019 DOI: 10.3389/fphys.2022.1046204 Frontiers in Physiology (IF=4.755
      Selection and validation of reference genes for RT-qPCR-based analyses of Anastatus japonicus Ashmead (Hymenoptera: Helicopteridae)
    44. 20221024 DOI: 10.21203/ Research Square (preprint)
      Evaluation of housekeeping genes for normalizing RT-qPCR and analysis of the expression patterns of WRKY1 transcription factor and rhynchophylline biosynthetic-related genes in Uncaria rhynchophylla
    45. 20221025 DOI: 10.3390/genes13111947 Genes (IF=4.141
      Systematic Identification and Validation of Suitable Reference Genes for the Normalization of Gene Expression in Prunella vulgaris under Different Organs and Spike Development Stages
    46. 20221108 DOI: 10.3390/ijms232213676 International Journal of Molecular Sciences (IF=6.208
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    47. 20221113 DOI: 10.3390/insects13111046 Insects (IF=3.139
      Reference Genes for Expression Analysis Using RT-qPCR in Cnaphalocrocis medinalis (Lepidoptera: Pyralidae)
    48. 20221128 DOI: 10.27409/d.cnki.gxbnu.2022.002265 博士论文 (中文)
      条沙叶蝉 Psammotettix striatus 马氏管功能和体表网粒体研究
    49. 20221206 DOI: 10.13560/j.cnki.biotech.bull.1985.2022-0567 生物技术通报 (中文)
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    51. 20221217 DOI: 10.3390/genes13122396 Genes (IF=4.141
      Identification of Reliable Reference Genes under Different Stresses and in Different Tissues of Toxicodendron succedaneum
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      Impact of TRIM5α and TRIM22 Genes Expression on the Clinical Course of Coronavirus Disease 2019
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      DNA methylation dynamics in a coastal foundation seagrass species under abiotic stressors
    55. 20230122 DOI: 10.3390/horticulturae9020148 Horticulturae (IF=2.923
      Selection and Validation of miRNA Reference Genes by Quantitative Real-Time PCR Analysis in Paeonia suffruticosa
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      Identification of reference genes for RT-qPCR analysis across kiwifruit species under iron deficiency conditions
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      circRNA432 enhances the coelomocyte phagocytosis via regulating the miR-2008-ELMO1 axis in Vibrio splendidus-challenged Apostichopus japonicus
    58. 20230215 CNKI: 热带作物学报 (中文)
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      Identification and expression profile analysis of chemosensory genes in pine needle gall midge, Thecodiplosis japonensis (Diptera: Cecidomyiidae)
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      Stepwise Optimization of the RT-qPCR Protocol and the Evaluation of Housekeeping Genes in Pears (Pyrus bretschneideri) under Various Hormone Treatments and Stresses
    61. 20230224 DOI: 10.3390/genes14030573 Genes (IF=4.141
      Evaluation of Candidate Reference Genes for Gene Expression Analysis in Wild Lamiophlomis rotata
    62. 20230303 DOI: 10.3390/ani13050925 Animals (IF=3.231
      Transcriptome-Based Evaluation of Optimal Reference Genes for Quantitative Real-Time PCR in Yak Stomach throughout the Growth Cycle
    63. 20230310 DOI: 10.27417/d.cnki.gxnmc.2023.000275 硕士论文 (中文)
    64. 20230313 DOI: 10.3389/fmicb.2023.1140515 Frontiers in Microbiology (IF=6.064
      Housekeeping gene stability in Pesudomonas aeruginosa PAO1 under the pressure of commonly used antibiotics in molecular microbiology assays
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      Hiat1 as a new transporter involved in ammonia regulation
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    67. 20230328 DOI: 10.1007/s00792-023-01295-2 Extremophiles (IF=3.035
      Quantitative evaluation of endogenous reference genes for ddPCR under salt stress using a moderate halophile
    68. 20230329 DOI: 10.1186/s40694-023-00154-1 Fungal Biology and Biotechnology
      Evaluation of reference genes for transcript analyses in Komagataella phaffii (Pichia pastoris)
    69. 20230330 DOI: 10.12403/j.1001-1498.20220500 林业科学研究 (中文)
    70. 20230331 DOI: 10.13592/j.cnki.ppj.200037 植物生理学报 (中文)
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    74. 20230403 DOI: 10.3390/ijms24076681 International Journal of Molecular Sciences (IF=6.208
      Neonatal Exposure to Valproate Induces Long-Term Alterations in Steroid Hormone Levels in the Brain Cortex of Prepubertal Rats
    75. 20230403 DOI: 10.3390/biomedicines11041079 Biomedicines (IF=4.757
      A Strategy for the Selection of RT-qPCR Reference Genes Based on Publicly Available Transcriptomic Datasets
    76. 20230413 DOI: 10.1007/s12600-023-01068-9 Phytoparasitica (IF=1.809
      Callose synthase and xyloglucan endotransglucosylase gene expression over time in Citrus × clementina and Citrus × sinensis infected with citrus tristeza virus
    77. 20230415 DOI: 10.1007/s10142-023-01055-7 Functional & Integrative Genomics (IF=3.674
      RefFinder: a web-based tool for comprehensively analyzing and identifying reference genes
    78. 20230418 DOI: 10.21203/ Research Square (preprint)
      Immune Response to Zinc Oxide Inhalation in Metal Fume Fever - Is the IL-17f the missing link?
    79. 20230419 DOI: 10.16380/j.kcxb.2023.04.002 昆虫学报 (中文)
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      Stable reference gene selection for Ophiocordyceps sinensis gene expression studies under different developmental stages and light-induced conditions
    81. 20230423 DOI: 10.1016/j.pestbp.2023.105428 Pesticide Biochemistry and Physiology (IF=4.966
      RNAi assays in the striped flea beetle (Phyllotreta striolata) suggest Psγ-COPI and PsArf1COPI as potential molecular targets for pest control
    82. 20230425 DOI: 10.1371/journal.pone.0284764 PLOS ONE (IF=3.752
      Identification of reference genes for the normalization of retinal mRNA expression by RT-qPCR in oxygen induced retinopathy, anemia, and erythropoietin administration
    83. 20230501 DOI: 10.26981/d.cnki.gjhsc.2023.000867 硕士论文 (中文)
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    86. 20230508 DOI: 10.3389/fendo.2023.1107339 Frontiers in Endocrinology (IF=6.055
      Direct BMP signaling to chordoblasts is required for the initiation of segmented notochord sheath mineralization in zebrafish vertebral column development
    87. 20230510 DOI: 10.3389/fmars.2023.1163189 Frontiers in Marine Science (IF=5.247
      Transcriptomics and physiological analyses unveil the distinct mechanisms of ATP and glucose-6-phosphate utilization in Phaeodactylum tricornutum
    88. 20230512 DOI: 10.3390/insects14050456 Insects (IF=3.139
      Identification and Validation of Reference Genes for Expression Analysis Using RT-qPCR in Leptocybe invasa Fisher and La Salle (Hymenoptera: Eulophidae)
    89. 20230523 CN116144822A 中国专利
    90. 20230524 DOI: 10.1016/j.tox.2023.153551 Toxicology (IF=4.571
      PFOA exposure induces aberrant glucose and lipid metabolism in the rat liver through the AMPK/mTOR pathway
    91. 20230525 DOI: 10.3390/app13116489 Applied Sciences (IF=2.838
      Antidiabetic and Hypolipidemic Properties of Newly Isolated Wild Lacticaseibacillus paracasei Strains in Mature Adipocytes
    92. 20230531 DOI: 10.3390/plants12112185 Plants (IF=4.658
      Selection and Validation of Optimal RT-qPCR Reference Genes for the Normalization of Gene Expression under Different Experimental Conditions in Lindera megaphylla
    93. 20230601 DOI: 10.1097/FJC.0000000000001428 Journal of Cardiovascular Pharmacology (IF=3.271
      Tumor Necrosis Factor-α Mediates Inflammation-induced Early-Stage Left Ventricular Systolic Dysfunction
    94. 20230601 DOI: 10.27158/d.cnki.ghznu.2023.001820 硕士论文 (中文)
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    96. 20230605 CNKI: 分子植物育种 (中文)
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      Maternal diet and gut microbiome composition modulate early-life immune development
    98. 20230619 DOI: 10.1007/s12298-023-01325-5 Physiology and Molecular Biology of Plants (IF=3.023
      Selection and verification of reliable internal reference genes in stem development of herbaceous peony (Paeonia lactiflora Pall.)
    99. 20230623 DOI: 10.3390/genes14071321 Genes (IF=4.141
      Selection of Reliable Reference Genes for Gene Expression Normalization in Sagittaria trifolia
      ------------------ ↑ IF2021 ↑ ------------------ ↓ IF2022 ↓ ------------------
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      Data Normalization of Urine miRNA Profiling from Head and Neck Cancer Patients Treated with Cisplatin
    101. 20230629 DOI: 10.1016/j.scienta.2023.112301 Scientia Horticulturae (IF=4.3
      Identification of reference genes provides insights into the determinants of self-incompatibility in Camellia oleifera
    102. 20230712 DOI: 10.3390/plants12142629 Plants (IF=4.5
      Screening of Reference miRNA of Different Early- and Late-Flowering Tree Peony Varieties
    103. 20230720 DOI: 10.3390/antiox12071462 Antioxidants (IF=7.0
      High-Intensity Exercise Promotes Deleterious Cardiovascular Remodeling in a High-Cardiovascular-Risk Model: A Role for Oxidative Stress
    104. 20230720 DOI: 10.1016/j.aqrep.2023.101660 Aquaculture Reports (IF=3.7
      Selection and evaluation of stable reference genes for quantitative real-time PCR in the head kidney leukocyte of Oreochromis niloticus
    105. 20230807 DOI: 10.19540/j.cnki.cjcmm.20230726.101 中国中药杂志 (中文)
    106. 20230811 DOI: 10.3389/fncel.2023.1225504 Frontiers in Cellular Neuroscience (IF=5.3
      Regeneration of the cerebral cortex by direct chemical reprogramming of macrophages into neuronal cells in acute ischemic stroke
    107. 20230825 DOI: 10.1021/acs.jafc.3c04247 Journal of Agricultural and Food Chemistry (IF=6.1
      Loss of Binding Capabilities in an Ecologically Important Odorant Receptor of the Fall Armyworm, Spodoptera frugiperda, by a Single Point Mutation
    108. 20230829 DOI: 10.1111/1744-7917.13265 Insect Science (IF=4.0
      Genome-wide analysis of Panonychus citri microRNAs with a focus on potential insecticidal activity of 4 microRNAs to eggs and nymphs
    109. 20230829 DOI: 10.1371/journal.pone.0286871 PLOS ONE (IF=3.7
      Validation of reference gene stability for miRNA quantification by reverse transcription quantitative PCR in the peripheral blood of patients with COVID-19 critical illness
    110. 20230830 DOI: 10.3390/genes14091739 Genes (IF=3.5
      Screening of Reference Genes under Biotic Stress and Hormone Treatment of Mung Bean (Vigna radiata) by Quantitative Real-Time PCR
    111. 20230831 CNKI: 分子植物育种 (中文)
    112. 20230901 DOI: 10.21203/ Research Square (preprint)
      Molecular characterization and function of hif1a and fih1 in response to acute thermal stress in American shad (Alosa sapidissima)
    113. 20230907 DOI: 10.3390/plants12183197 Plants (IF=4.5
      Selection of Reference Genes in Evodia rutaecarpa var. officinalis and Expression Patterns of Genes Involved in Its Limonin Biosynthesis
    114. 20230908 DOI: 10.3390/horticulturae9091014 Horticulturae (IF=3.1
      The Genome-Wide Identification of Stable Internal Reference Genes Related to Delayed Spoilage for Accurate qRT-PCR Normalization in Ethephon-Treated Pueraria thomsonii Benth
    115. 20230926 DOI: 10.3390/genes14101874 Genes (IF=3.5
      Selection of Suitable Reference Genes for RT-qPCR Gene Expression Analysis in Centipedegrass under Different Abiotic Stress
    116. 20231012 DOI: 10.3390/genes14101932 Genes (IF=3.5
      Effect of Supplementation with Curcuma longa and Rosmarinus officinalis Extract Mixture on Acute Phase Protein, Cathelicidin, Defensin and Cytolytic Protein Gene Expression in the Livers of Young Castrated Polish White Improved Bucks
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      LRP10, PGK1 and RPLP0: Best Reference Genes in Periprostatic Adipose Tissue under Obesity and Prostate Cancer Conditions
    118. 20231015 DOI: 10.3390/ijms242015198 International Journal of Molecular Sciences (IF=5.6
      Selection and Validation of Reference Genes for Reverse-Transcription Quantitative PCR Analysis in Sclerotium rolfsii
    119. 20231022 DOI: 10.3390/fishes8100526 Fishes (IF=2.3
      Stress-Protective Role of Dietary α-Tocopherol Supplementation in Longfin Yellowtail (Seriola rivoliana) Juveniles
    120. 20231024 CN116926083A 中国专利
    121. 20231026 DOI: 10.13863/j.issn1001-4454.2023.10.010 中药材 (中文)
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      Identification of Accurate Reference Genes for qRT-PCR Analysis of Gene Expression in Eremochloa ophiuroides under Multiple Stresses of Phosphorus Deficiency and/or Aluminum Toxicity
    123. 20231103 CN116987809A 中国专利
    124. 20231104 DOI: 10.1016/j.cbpb.2023.110912 Comparative Biochemistry and Physiology Part B: Biochemistry and Molecular Biology (IF=2.2
      p38 MAPK involvement in the thermal stress response occurs via HSP27 and caspase3 in the large yellow croaker (Larimichthys crocea)
    125. 20231104 DOI: 10.3390/ijms242115973 International Journal of Molecular Sciences (IF=5.6
      Reference Genes Screening and Gene Expression Patterns Analysis Involved in Gelsenicine Biosynthesis under Different Hormone Treatments in Gelsemium elegans
    126. 20231108 DOI: 10.1038/s41598-023-45740-w Scientific Reports (IF=4.6
      Optimal reference genes for RNA tissue analysis in small animal models of hemorrhagic fever viruses
    127. 20231113 DOI: 10.3390/ani13223494 Animals (IF=3.0
      Effects of Glucose Levels on Inflammation and Amino Acid Utilization in Lipopolysaccharide-Induced Bovine Mammary Epithelial Cells
    128. 20231114 CNKI: 浙江农业学报 (中文)
    129. 20231115 DOI: 10.3390/ijms242216330 International Journal of Molecular Sciences (IF=5.6
      Evaluation of Reference Genes for Normalizing RT-qPCR and Analysis of the Expression Patterns of WRKY1 Transcription Factor and Rhynchophylline Biosynthesis-Related Genes in Uncaria rhynchophylla
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