List of all 21,851 published papers with data in Gemma:
To search for a paper or experiment and see more details, visit the annotated paper search page.
| Xue, Lu et al. (2013) Global expression profiling reveals genetic programs underlying the developmental divergence between mouse and human embryogenesis.; BMC Genomics, 14: 568 |
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GSE39897 |
| Xue, Wei et al. (2011) Ciliary neurotrophic factor induces genes associated with inflammation and gliosis in the retina: a gene profiling study of flow-sorted, Müller cells.; PLoS One, 6: e20326 |
|
GSE27195 |
| Xue, Y et al. (2019) Transcriptomes in rat sciatic nerves at different stages of experimental autoimmune neuritis determined by RNA sequencing.; Clin Exp Immunol, 198: 184-197 |
|
GSE133750 |
| Xue, Yingchao et al. (2022) Mechanical tension mobilizes Lgr6+epidermal stem cells to drive skin growth.; Sci Adv, 8: eabl8698 |
|
GSE183441 |
| Xue, Yuan et al. (2009) Hypoxia-independent angiogenesis in adipose tissues during cold acclimation.; Cell Metab, 9: 99-109 |
|
GSE13432 |
| Xue, Yuanchao et al. (2013) Direct conversion of fibroblasts to neurons by reprogramming PTB-regulated microRNA circuits.; Cell, 152: 82-96 |
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GSE42701 |
| Xue, Yuanchao et al. (2016) Sequential regulatory loops as key gatekeepers for neuronal reprogramming in human cells.; Nat Neurosci, 19: 807-15 |
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GSE77523 |
| Xue, Yunlu et al. (2021) AAV-Txnip prolongs cone survival and vision in mouse models of retinitis pigmentosa.; Elife, 10: [no pages] |
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GSE168503 GSE161622 |
| Yabu, Julie M et al. (2016) Immune Profiles to Predict Response to Desensitization Therapy in Highly HLA-Sensitized Kidney Transplant Candidates.; PLoS One, 11: e0153355 |
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GSE81454 |
| Yabuki, Yasushi et al. (2021) Cav3.1 t-type calcium channel is critical for cell proliferation and survival in newly generated cells of the adult hippocampus.; Acta Physiol (Oxf), 232: e13613 |
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GSE158131 |
| Yabuki, Yasushi et al. (2025) Cav3.1 T-Type Calcium Channel Acts as a Gateway for GABAergic Excitation in the Medial Prefrontal Cortex That Leads to Chronic Psychological Stress Responses in Mice.; Acta Physiol (Oxf), 241: e70043 |
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GSE292290 |
| Yabut, Odessa R et al. (2020) The Neocortical Progenitor Specification Program Is Established through Combined Modulation of SHH and FGF Signaling.; J Neurosci, 40: 6872-6887 |
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GSE155851 |
| Yadav, Mahesh et al. (2012) Neuropilin-1 distinguishes natural and inducible regulatory T cells among regulatory T cell subsets in vivo.; J Exp Med, 209: 1713-22, S1-19 |
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GSE39724 |
| Yadav, Shambhu et al. (2023) Sensory ataxia and cardiac hypertrophy caused by neurovascular oxidative stress in chemogenetic transgenic mouse lines.; Nat Commun, 14: 3094 |
|
GSE229143 |
| Yadav, Sudhanshu et al. (2022) PI3Kβ-regulated β-catenin mediates EZH2 removal from promoters controlling primed human ESC stemness and primitive streak gene expression.; Stem Cell Reports, 17: 2239-2255 |
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GSE202163 |
| Yadav, Vijay K et al. (2011) Leptin-dependent serotonin control of appetite: temporal specificity, transcriptional regulation, and therapeutic implications.; J Exp Med, 208: 41-52 |
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GSE26037 |
| Yaghmaeian Salmani, Behzad et al. (2018) Evolutionarily conserved anterior expansion of the central nervous system promoted by a common PcG-Hox program.; Development, 145: [no pages] |
|
GSE111232 |
| Yagi, Masaki et al. (2020) Identification of distinct loci for de novo DNA methylation by DNMT3A and DNMT3B during mammalian development.; Nat Commun, 11: 3199 |
|
GSE111172 |
| Yagi, Masaki et al. (2021) Dissecting dual roles of MyoD during lineage conversion to mature myocytes and myogenic stem cells.; Genes Dev, 35: 1209-1228 |
|
GSE169487 |
| Yagi, Ryoji et al. (2014) The transcription factor GATA3 is critical for the development of all IL-7R?-expressing innate lymphoid cells.; Immunity, 40: 378-88 |
|
GSE47851 |
| Yagil, Yoram et al. (2010) Geno-transcriptomic dissection of proteinuria in the uninephrectomized rat uncovers a molecular complexity with sexual dimorphism.; Physiol Genomics, 42A: 301-16 |
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GSE14676 GSE14666 |
| Yagishita, Sosuke et al. (2017) Treatment of intermittent hypoxia increases phosphorylated tau in the hippocampus via biological processes common to aging.; Mol Brain, 10: 2 |
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GSE62385 |
| Yagita-Sakamaki, Mayu et al. (2025) Intestinal Foxl1+ cell-derived CXCL12 maintains epithelial homeostasis by modulating cellular metabolism.; Int Immunol, 37: 235-250 |
|
GSE254705 |
| Yako, Hideji et al. (2021) Role of pyruvate in maintaining cell viability and energy production under high-glucose conditions.; Sci Rep, 11: 18910 |
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GSE156433 |
| Yakulov, Toma A et al. (2018) CXCL12 and MYC control energy metabolism to support adaptive responses after kidney injury.; Nat Commun, 9: 3660 |
|
GSE102044 |
| Yakushiji-Kaminatsui, Nayuta et al. (2016) RING1 proteins contribute to early proximal-distal specification of the forelimb bud by restricting Meis2 expression.; Development, 143: 276-85 |
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GSE70075 |
| Yamada, Misa et al. (2008) Prg1 is regulated by the basic helix-loop-helix transcription factor Math2.; J Neurochem, 106: 2375-84 |
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GSE11829 |
| Yamada, Takeshi et al. (2009) Transcription factor ELF4 controls the proliferation and homing of CD8+ T cells via the Krüppel-like factors KLF4 and KLF2.; Nat Immunol, 10: 618-26 |
|
GSE15324 |
| Yamada, Tomoharu et al. (2023) Lenvatinib recruits cytotoxic GZMK+CD8 T cells in hepatocellular carcinoma.; Hepatol Commun, 7: [no pages] |
|
GSE223201 |
| Yamada, Tomoko et al. (2019) Sensory experience remodels genome architecture in neural circuit to drive motor learning.; Nature, 569: 708-713 |
|
GSE127995 |
| Yamada, Tomoya et al. (2020) Comparison of the Hepatic Effects of Phenobarbital in Chimeric Mice Containing Either Rat or Human Hepatocytes With Humanized Constitutive Androstane Receptor and Pregnane X Receptor Mice.; Toxicol Sci, 177: 362-376 |
|
GSE149228 |
| Yamada, Yasutaka et al. (2023) Targeting DNA methylation and B7-H3 in RB1-deficient and neuroendocrine prostate cancer.; Sci Transl Med, 15: eadf6732 |
|
GSE216052 GSE216712 GSE216053 GSE216713 |
| Yamada, Yu et al. (2025) Cardiac Reprogramming and Gata4 Overexpression Reduce Fibrosis and Improve Diastolic Dysfunction in Heart Failure With Preserved Ejection Fraction.; Circulation, 151: 379-395 |
|
GSE218733 |
| Yamada, Yuko et al. (2008) Oxidized low density lipoproteins induce a pathologic response by retinal pigmented epithelial cells.; J Neurochem, 105: 1187-97 |
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GSE5741 |
| Yamaga, Yuichi et al. (2018) Gene expression profile of Dclk1+cells in intestinal tumors.; Dig Liver Dis, 50: 1353-1361 |
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GSE99387 |
| Yamagami, Keitaro et al. (2024) Progranulin enhances the engraftment of transplanted human iPS cell-derived cerebral neurons.; Stem Cells Transl Med, 13: 1113-1128 |
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GSE269438 |
| Yamagishi, Aya et al. (2014) Gene profiling and bioinformatics analyses reveal time course differential gene expression in surgically resected colorectal tissues.; Oncol Rep, 31: 1531-8 |
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GSE50746 |
| Yamagishi, Makoto et al. (2012) Polycomb-mediated loss of miR-31 activates NIK-dependent NF-?B pathway in adult T cell leukemia and other cancers.; Cancer Cell, 21: 121-35 |
|
GSE33615 |
| Yamaguchi, Atsushi et al. (2020) Temporal expression profiling of DAMPs-related genes revealed the biphasic post-ischemic inflammation in the experimental stroke model.; Mol Brain, 13: 57 |
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GSE147060 |
| Yamaguchi, Hiroo et al. (2024) A rapidly progressive multiple system atrophy-cerebellar variant model presenting marked glial reactions with inflammation and spreading of α-synuclein oligomers and phosphorylated α-synuclein aggregates.; Brain Behav Immun, 121: 122-141 |
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GSE205662 |
| Yamaguchi, K et al. (2010) Identification of an ovarian clear cell carcinoma gene signature that reflects inherent disease biology and the carcinogenic processes.; Oncogene, 29: 1741-52 |
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GSE29175 |
| Yamaguchi, Shinpei et al. (2012) Tet1 controls meiosis by regulating meiotic gene expression.; Nature, 492: 443-7 |
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GSE41908 |
| Yamaguchi, Takashi et al. (2020) Posterior amygdala regulates sexual and aggressive behaviors in male mice.; Nat Neurosci, 23: 1111-1124 |
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GSE151798 |
| Yamaguchi, Toshihiro et al. (2020) Cardiac dopamine D1 receptor triggers ventricular arrhythmia in chronic heart failure.; Nat Commun, 11: 4364 |
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GSE116250 |
| Yamaguchi, Umio et al. (2008) Distinct gene expression-defined classes of gastrointestinal stromal tumor.; J Clin Oncol, 26: 4100-8 |
|
GSE8167 |
| Yamaguchi, Yoshiaki et al. (2022) Nmu/Nms/Gpr176 Triple-Deficient Mice Show Enhanced Light-Resetting of Circadian Locomotor Activity.; Biol Pharm Bull, 45: 1172-1179 |
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GSE184440 |
| Yamaguchi, Yoshiaki et al. (2023) An intact pituitary vasopressin system is critical for building a robust circadian clock in the suprachiasmatic nucleus.; Proc Natl Acad Sci U S A, 120: e2308489120 |
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GSE226929 |
| Yamaguchi, Yuji et al. (2008) Dickkopf 1 (DKK1) regulates skin pigmentation and thickness by affecting Wnt/beta-catenin signaling in keratinocytes.; FASEB J, 22: 1009-20 |
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GSE9211 |
| Yamaji, Daisuke et al. (2013) Sequential activation of genetic programs in mouse mammary epithelium during pregnancy depends on STAT5A/B concentration.; Nucleic Acids Res, 41: 1622-36 |
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GSE37646 |
| Yamaji, Masashi et al. (2013) PRDM14 ensures naive pluripotency through dual regulation of signaling and epigenetic pathways in mouse embryonic stem cells.; Cell Stem Cell, 12: 368-82 |
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GSE42580 |
| Yamakawa, Hidekuni et al. (2017) The Transcription Factor Sp3 Cooperates with HDAC2 to Regulate Synaptic Function and Plasticity in Neurons.; Cell Rep, 20: 1319-1334 |
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GSE87441 |
| Yamakawa, Hiroyuki et al. (2015) Fibroblast Growth Factors and Vascular Endothelial Growth Factor Promote Cardiac Reprogramming under Defined Conditions.; Stem Cell Reports, 5: 1128-1142 |
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GSE73839 |
| Yamamizu, Kohei et al. (2013) Identification of transcription factors for lineage-specific ESC differentiation.; Stem Cell Reports, 1: 545-59 |
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GSE43971 |
| Yamamizu, Kohei et al. (2016) Generation and gene expression profiling of 48 transcription-factor-inducible mouse embryonic stem cell lines.; Sci Rep, 6: 25667 |
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GSE72350 |
| Yamamoto, Junichi et al. (2020) ARID2 is a pomalidomide-dependent CRL4CRBNsubstrate in multiple myeloma cells.; Nat Chem Biol, 16: 1208-1217 |
|
GSE126463 |
| Yamamoto, Shinichi et al. (2022) In VitroGeneration of Brain Regulatory T Cells by Co-culturing With Astrocytes.; Front Immunol, 13: 960036 |
|
GSE203050 |
| Yamamoto, Shoji et al. (2014) JARID1B is a luminal lineage-driving oncogene in breast cancer.; Cancer Cell, 25: 762-77 |
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GSE45732 |
| Yamamoto, So et al. (2021) Rosmarinic acid suppresses tau phosphorylation and cognitive decline by downregulating the JNK signaling pathway.; NPJ Sci Food, 5: 1 |
|
GSE128494 |
| Yamamoto, Takehiro et al. (2024) PRMT1 Sustains De Novo Fatty Acid Synthesis by Methylating PHGDH to Drive Chemoresistance in Triple-Negative Breast Cancer.; Cancer Res, 84: 1065-1083 |
|
GSE250022 |
| Yamamoto, Yuta et al. (2009) Changes in behavior and gene expression induced by caloric restriction in C57BL/6 mice.; Physiol Genomics, [no vol.]: [no pages] |
|
GSE15860 |
| Yamamoto, Yuta et al. (2010) Interleukin-18 deficiency reduces neuropeptide gene expressions in the mouse amygdala related with behavioral change.; J Neuroimmunol, 229: 129-39 |
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GSE19522 |
| Yamamotoya, Takeshi et al. (2024) Trk-fused gene plays a critical role in diet-induced adipose tissue expansion and is also involved in thyroid hormone action.; PNAS Nexus, 3: pgae150 |
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GSE143967 |
| Yamanaka, R et al. (2006) Identification of expressed genes characterizing long-term survival in malignant glioma patients.; Oncogene, 25: 5994-6002 |
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GSE4381 |
| Yamanaka, Tomoyuki et al. (2016) Genome-wide analyses in neuronal cells reveal that upstream transcription factors regulate lysosomal gene expression.; FEBS J, 283: 1077-87 |
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GSE76615 |
| Yamanaka, Tomoyuki et al. (2020) Gene expression profiling in neuronal cells identifies a different type of transcriptome modulated by NF-Y.; Sci Rep, 10: 21714 |
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GSE151146 GSE151145 GSE151275 GSE151144 |
| Yamane, Junko et al. (2016) Prediction of developmental chemical toxicity based on gene networks of human embryonic stem cells.; Nucleic Acids Res, 44: 5515-28 |
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GSE60154 |
| Yamane, Junko et al. (2022) StemPanTox: A fast and wide-target drug assessment system for tailor-made safety evaluations using personalized iPS cells.; iScience, 25: 104538 |
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GSE188203 |
| Yamanishi, Kyosuke et al. (2020) Analysis of genes linked to depressive-like behaviors in interleukin-18-deficient mice: Gene expression profiles in the brain.; Biomed Rep, 12: 3-10 |
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GSE64307 |
| Yamanishi, Kyosuke et al. (2022) Acute stress induces severe neural inflammation and overactivation of glucocorticoid signaling in interleukin-18-deficient mice.; Transl Psychiatry, 12: 404 |
|
GSE207669 |
| Yamano, Noriko et al. (2010) Metastable primordial germ cell-like state induced from mouse embryonic stem cells by Akt activation.; Biochem Biophys Res Commun, 392: 311-6 |
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GSE18813 |
| Yamaoka, Masaya et al. (2012) A pilot investigation of visceral fat adiposity and gene expression profile in peripheral blood cells.; PLoS One, 7: e47377 |
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GSE28038 |
| Yamashita, Akira et al. (2023) ILF3 prion-like domain regulates gene expression and fear memory under chronic stress.; iScience, 26: 106229 |
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GSE209902 |
| Yamashita, Daisuke et al. (2015) miR340 suppresses the stem-like cell function of glioma-initiating cells by targeting tissue plasminogen activator.; Cancer Res, 75: 1123-33 |
|
GSE61078 |
| Yamashita, Hirofumi et al. (2022) Comprehensive expression analysis with cell-type-specific transcriptome in ALS-linked mutant SOD1 mice: Revisiting the active role of glial cells in disease.; Front Cell Neurosci, 16: 1045647 |
|
GSE220705 |
| Yamashita, Nami et al. (2023) MUC1-C Dictates PBRM1-Mediated Chronic Induction of Interferon Signaling, DNA Damage Resistance, and Immunosuppression in Triple-Negative Breast Cancer.; Mol Cancer Res, 21: 274-289 |
|
GSE206212 |
| Yamashita, Nami et al. (2023) MUC1-C integrates aerobic glycolysis with suppression of oxidative phosphorylation in triple-negative breast cancer stem cells.; iScience, 26: 108168 |
|
GSE222377 |
| Yamashita, Y et al. (2007) Analysis of chromosome copy number in leukemic cells by different microarray platforms.; Leukemia, 21: 1333-7 |
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GSE4608 GSE4610 |
| Yamauchi, Kaori et al. (2020) Overexpression of Nuclear Receptor 5A1 Induces and Maintains an Intermediate State of Conversion between Primed and Naive Pluripotency.; Stem Cell Reports, 14: 506-519 |
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GSE101043 |
| Yamauchi, Mai et al. (2012) Epidermal growth factor receptor tyrosine kinase defines critical prognostic genes of stage I lung adenocarcinoma.; PLoS One, 7: e43923 |
|
GSE31210 |
| Yamauchi, Shota et al. (2016) STAT1 is essential for the inhibition of hepatitis C virus replication by interferon-λ but not by interferon-α.; Sci Rep, 6: 38336 |
|
GSE84693 |
| Yamauchi, Yuki et al. (2021) Maslinic Acid Attenuates Denervation-Induced Loss of Skeletal Muscle Mass and Strength.; Nutrients, 13: [no pages] |
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GSE181031 |
| Yamazaki, Fumiyoshi et al. (2015) The Lhx9 homeobox gene controls pineal gland development and prevents postnatal hydrocephalus.; Brain Struct Funct, 220: 1497-509 |
|
GSE46127 |
| Yamazaki, Shunji et al. (2012) FK1706, a novel non-immunosuppressive immunophilin ligand, modifies gene expression in the dorsal root ganglia during painful diabetic neuropathy.; Neurol Res, 34: 469-77 |
|
GSE34000 |
| Yambire, King Faisal et al. (2019) Impaired lysosomal acidification triggers iron deficiency and inflammation in vivo.; Elife, 8: [no pages] |
|
GSE134704 |
| Yamin, Ghiam et al. (2016) Design, Characterization, and Use of a Novel Amyloid β-Protein Control for Assembly, Neurotoxicity, and Gene Expression Studies.; Biochemistry, 55: 5049-60 |
|
GSE85952 |
| Yan, Chenchao et al. (2023) Translational landscape in human early neural fate determination.; Development, 150: [no pages] |
|
GSE208082 |
| Yan, Chufan et al. (2025) Sex differences on laser-induced choroidal neovascularization and short-chain fatty acid treatment in a mouse model.; J Neuroinflammation, 22: 188 |
|
GSE299691 |
| Yan, Dongyao et al. (2016) STAT3 and STAT6 Signaling Pathways Synergize to Promote Cathepsin Secretion from Macrophages via IRE1? Activation.; Cell Rep, 16: 2914-27 |
|
GSE70626 |
| Yan, Fangfang et al. (2024) Single-cell multiomics decodes regulatory programs for mouse secondary palate development.; Nat Commun, 15: 821 |
|
GSE252592 |
| Yan, Gonghong et al. (2022) BET inhibition induces vulnerability to MCL1 targeting through upregulation of fatty acid synthesis pathway in breast cancer.; Cell Rep, 40: 111304 |
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GSE209934 |
| Yan, Han et al. (2011) Circulating IGF1 regulates hippocampal IGF1 levels and brain gene expression during adolescence.; J Endocrinol, 211: 27-37 |
|
GSE29512 |