RefFinder
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 ( http://blooge.cn/RefFinder/ ). Please thanks for LIZhen ( Sichuan Academy of Agricultural Characteristic Plants ) contributed analytical tool : RefFinder ( http://blooge.cn/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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References
  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 )
Citations
    RefFinder ( http://blooge.cn/RefFinder/ )
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      稻秆潜蝇的生物学特性及化学防治技术研究
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      Evaluation And Validation of Reliable Reference Genes For Quantitative Real-Time PCR Analysis of The Gene Expression In Macadamia Integrifolia
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      Selection and evaluation of qPCR reference genes for expression analysis in the tiny egg parasitoid wasp, Trichogramma dendrolimi Matsumura (Hymenoptera: Trichogrammatidae)
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      Assessment of reference genes at six different developmental stages of Schistosoma mansoni for quantitative RT-PCR
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      Evaluation of Reliable Reference Genes for In Vitro Erythrocyte Generation from Cord Blood CD34+ Cells
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      艾Artemisia argyi实时荧光定量PCR内参基因筛选
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      The Era of Antimicrobial Peptides: Use of Hepcidins to Prevent or Treat Bacterial Infections and Iron Disorders
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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
    9. 20211029 DOI: 10.1080/1828051X.2021.1992304 Italian Journal of Animal Science (IF=2.217
      Growth performance, meat quality and lipid metabolism in finishing lambs fed diets containing rumen-unprotected and rumen-protected betaine
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      稻螟赤眼蜂实时荧光定量PCR内参基因的筛选
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      Histidine Promotes the Glucose Synthesis through Activation of the Gluconeogenic Pathway in Bovine Hepatocytes
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      穿心莲茉莉酸甲酯及非生物胁迫下Real-time PCR内参基因的筛选
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      Identification And Evaluation of Reference Genes For Cynanchum Auriculatum Under Various Stress Conditions
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      Selection and evaluation of RT-qPCR reference genes for expression analysis in the tiny egg parasitoid wasp, Trichogramma dendrolimi matsumura (Hymenoptera: Trichogrammatidae)
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      人参锈腐病菌Ilyonectria robusta侵染人参根实时定量PCR内参基因的筛选与验证
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      Accurate reflection of hepatopancreas antioxidation and detoxification in Procambarus clarkii during virus infection and drug treatment: Reference gene selection, evaluation and expression analysis
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      Protective Roles of Sodium Butyrate in Lipopolysaccharide-Induced Bovine Ruminal Epithelial Cells by Activating G Protein-Coupled Receptors 41
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      人参锈腐病菌Ilyonectria robusta基因组与互作转录组分析及转化体系的建立
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      Screening of new reference genes for qRT-PCR normalisation in rice under heat stress
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      光周期对稻螟赤眼蜂行为及与生物钟相关基因表达模式的影响
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      盐胁迫下罗布麻转录组代谢组关联分析及黄酮醇合成酶基因(AvFLS)功能研究
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      AbGLK1和Ksu调控金边红苞凤梨绿白嵌合叶色形成的机制研究
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      Transcriptome analysis revealed hub genes for muscle growth in Indian major carp, Catla catla (Hamilton, 1822)
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      Identification of Auxiliary Biomarkers and Description of the Immune Microenvironmental Characteristics in Duchenne Muscular Dystrophy by Bioinformatical Analysis and Experiment
    27. 20220606 DOI: 10.3389/fpls.2022.893495 Frontiers in Plant Science (IF=5.754
      Identification of Reference Genes for Reverse Transcription-Quantitative PCR Analysis of Ginger Under Abiotic Stress and for Postharvest Biology Studies
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      Selection and Validation of Reference Genes for Gene Expression Studies Using Quantitative Real-Time PCR in Prunus Necrotic Ringspot Virus-Infected Cucumis sativus
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      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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      钩吻看家基因筛选及生物碱合成相关酶基因的表达分析
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      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
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      Systematic screening and validation of reliable reference genes for qRT-PCR analysis in Okra (Abelmoschus esculentus L.)
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      Co-overexpression of self-renewal markers SALL4 and HIWI is correlated with depth of tumor invasion and metastasis in colorectal cancer
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      Nutrient Starvation Exposure Induced the Down-Regulation of Stress Responsive Genes and Selected Bioactive Metabolic Pathways in Phaeodactylum tricornutum
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      Assessment of Suitable Reference Genes for qRT-PCR Normalization in Eocanthecona furcellata (Wolff)
    38. 20220830 CN114958875A 中国专利
      柑橘黄龙病菌内参基因metG筛选和应用
    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/rs.3.rs-2119629/v1 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
      circSMARCA5 Is an Upstream Regulator of the Expression of miR-126-3p, miR-515-5p, and Their mRNA Targets, Insulin-like Growth Factor Binding Protein 2 (IGFBP2) and NRAS Proto-Oncogene, GTPase (NRAS) in Glioblastoma
    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)
      钩藤管家基因筛选及生物碱合成相关基因的表达分析
    50. 20221210 DOI: 10.27257/d.cnki.gnxhc.2022.001998 博士论文 (中文)
      奶牛乳脂代谢关键基因、LncRNAs的筛选及PI4K2A功能验证
    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
    52. 20221222 DOI: 10.3390/horticulturae9010020 Horticulturae (IF=2.923
      Evaluation of Reference Genes Suitable for Gene Expression during Root Enlargement in Cherry Radish Based on Transcriptomic Data
    53. 20221228 DOI: 10.1016/j.arcmed.2022.12.010 Archives of Medical Research (IF=8.323
      Impact of TRIM5α and TRIM22 Genes Expression on the Clinical Course of Coronavirus Disease 2019
    54. 20230118 DOI: 10.1098/rspb.2022.2197 Proceedings of the Royal Society B: Biological Sciences (IF=5.53
      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
    56. 20230127 DOI: 10.1016/j.scienta.2023.111865 Scientia Horticulturae (IF=4.342
      Identification of reference genes for RT-qPCR analysis across kiwifruit species under iron deficiency conditions
    57. 20230128 DOI: 10.1038/s42003-023-04516-8 Communications Biology (IF=6.548
      circRNA432 enhances the coelomocyte phagocytosis via regulating the miR-2008-ELMO1 axis in Vibrio splendidus-challenged Apostichopus japonicus
    58. 20230215 CNKI: http://kns.cnki.net/kcms/detail/46.1019.S.20230213.1650.004.html 热带作物学报 (中文)
      基于全基因组鉴定华石斛优良内参基因
    59. 20230216 DOI: 10.3389/fphys.2023.1123479 Frontiers in Physiology (IF=4.755
      Identification and expression profile analysis of chemosensory genes in pine needle gall midge, Thecodiplosis japonensis (Diptera: Cecidomyiidae)
    60. 20230217 DOI: 10.3390/horticulturae9020275 Horticulturae (IF=2.923
      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)
      川赤芍种质资源评价及其单萜糖苷化学成分生物合成通路分析
    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
    65. 20230317 DOI: 10.1038/s41598-023-31503-0 Scientific Reports (IF=4.996
      Hiat1 as a new transporter involved in ammonia regulation
    66. 20230321 DOI: 10.3969/j.issn.1674-7968.2023.04.019 农业生物技术学报 (中文)
      玉米大斑病菌实时荧光定量PCR内参基因的筛选与应用
    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)
      镉胁迫下构树qRT-PCR内参基因筛选及验证
    70. 20230331 DOI: 10.13592/j.cnki.ppj.200037 植物生理学报 (中文)
      滇重楼和长柱重楼实时荧光定量PCR内参基因的筛选和验证
    71. 20230401 DOI: 10.26981/d.cnki.gjhsc.2023.000370 硕士论文 (中文)
      野皂荚内参基因及性别相关基因的克隆与鉴定
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      长柱重楼与滇重楼甾体皂苷合成相关基因的差异分析
    73. 20230401 DOI: 10.27018/d.cnki.gfjnu.2023.000539 硕士论文 (中文)
      樱桃萝卜肉质根发育机制分析及RsPLT3-2基因功能的研究
    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/rs.3.rs-2750081/v1 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)
      梨小食心虫实时荧光定量PCR内参基因的筛选
    80. 20230420 DOI: 10.1371/journal.pone.0284486 PLOS ONE (IF=3.752
      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)
      急性热应激诱导猪未成熟睾丸支持细胞3'UTR动态变化的研究
    84. 20230501 DOI: 10.26921/d.cnki.ganyu.2023.001779 硕士论文 (中文)
      通过转录组分析选择空腹反应下肝脏基因表达分析参考基因
    85. 20230501 DOI: 10.26988/d.cnki.gcdzu.2023.000768 硕士论文 (中文)
      基于肿瘤教化血小板hsa-miR-199b-3p表达的肺腺癌的分子诊断研究
    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
      假俭草非生物胁迫下的内参基因及其引物和应用
    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)
      三倍体茶树表型、生理特性及转录组分析
    95. 20230601 DOI: 10.27409/d.cnki.gxbnu.2023.002624 硕士论文 (中文)
      猕猴桃根系对诱发缺铁的响应和耐受机理
    96. 20230605 CNKI: http://kns.cnki.net/kcms/detail/46.1068.S.20230602.1601.021.html 分子植物育种 (中文)
      实时荧光定量PCR筛选镉胁迫下艾纳香(Blumea balsamifera DC.)的内参基因
    97. 20230606 DOI: 10.15252/emmm.202217241 EMBO Molecular Medicine (IF=14.26
      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 ↓ ------------------
    100. 20230629 DOI: 10.3390/ijms241310884 International Journal of Molecular Sciences (IF=5.6
      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)
      川赤芍实时荧光定量PCR内参基因的筛选与验证
    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
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