List of all 16,735 published papers with data in Gemma:

To search for a paper or experiment and see more details, visit the annotated paper search page.

Bonev, Boyan et al. (2017) Multiscale 3D Genome Rewiring during Mouse Neural Development.; Cell, 171: 557-572.e24 PubMed link GSE96107  
Boneva, Stefaniya Konstantinova et al. (2020) Transcriptional Profiling Uncovers Human Hyalocytes as a Unique Innate Immune Cell Population.; Front Immunol, 11: 567274 PubMed link GSE147657  
Boneva, Stefaniya Konstantinova et al. (2021) In-Depth Molecular Characterization of Neovascular Membranes Suggests a Role for Hyalocyte-to-Myofibroblast Transdifferentiation in Proliferative Diabetic Retinopathy.; Front Immunol, 12: 757607 PubMed link GSE179568  
Bonfanti, Paola et al. (2010) Microenvironmental reprogramming of thymic epithelial cells to skin multipotent stem cells.; Nature, 466: 978-82 PubMed link GSE21686  
Bonnefoi, Hervé et al. (2007) Validation of gene signatures that predict the response of breast cancer to neoadjuvant chemotherapy: a substudy of the EORTC 10994/BIG 00-01 clinical trial.; Lancet Oncol, 8: 1071-8 PubMed link GSE6861  
Bonnefont, Jerome et al. [Unknown date]Cortical Neurogenesis Requires Bcl6-Mediated Transcriptional Repression of Multiple Self-Renewal-Promoting Extrinsic Pathways.; Neuron, 103: 1096-1108.e4 PubMed link GSE133031  
Bonney, Stephanie et al. (2013) Cardiac Per2 functions as novel link between fatty acid metabolism and myocardial inflammation during ischemia and reperfusion injury of the heart.; PLoS One, 8: e71493 PubMed link GSE45818  
Bonome, Tomas et al. (2008) A gene signature predicting for survival in suboptimally debulked patients with ovarian cancer.; Cancer Res, 68: 5478-86 PubMed link GSE26712  
Bonow, R H et al. (2009) The brain expression of genes involved in inflammatory response, the ribosome, and learning and memory is altered by centrally injected lipopolysaccharide in mice.; Pharmacogenomics J, [no vol.]: [no pages] PubMed link GSE12284  
Bonthuis, Paul J et al. (2015) Noncanonical Genomic Imprinting Effects in Offspring.; Cell Rep, 12: 979-91 PubMed link GSE70484  
Bonzheim, Irina et al. (2013) Identification of C/EBP? target genes in ALK+ anaplastic large cell lymphoma (ALCL) by gene expression profiling and chromatin immunoprecipitation.; PLoS One, 8: e64544 PubMed link GSE23368  
Bonzo, Jessica A et al. (2012) Suppression of hepatocyte proliferation by hepatocyte nuclear factor 4? in adult mice.; J Biol Chem, 287: 7345-56 PubMed link GSE34581  
Boobalan, Elangovan et al. (2022) Zfp503/Nlz2 Is Required for RPE Differentiation and Optic Fissure Closure.; Invest Ophthalmol Vis Sci, 63: 5 PubMed link GSE180641  
Booher, Winona C et al. (2022) Hippocampal RNA sequencing in mice selectively bred for high and low activity.; Genes Brain Behav, [no vol.]: e12832 PubMed link GSE200043  
Booms, Alix et al. (2024) Parkinson's disease risk enhancers in microglia.; iScience, 27: 108921 PubMed link GSE245523  
Boon, Adrianus C M et al. (2009) Host genetic variation affects resistance to infection with a highly pathogenic H5N1 influenza A virus in mice.; J Virol, 83: 10417-26 PubMed link GSE64750  
Boon, Ruben et al. (2020) Amino acid levels determine metabolism and CYP450 function of hepatocytes and hepatoma cell lines.; Nat Commun, 11: 1393 PubMed link GSE121905  
Boone, Deborah R et al. (2017) Effects of AAV-mediated knockdown of nNOS and GPx-1 gene expression in rat hippocampus after traumatic brain injury.; PLoS One, 12: e0185943 PubMed link GSE92363  
Boone, Nathalie et al. (2012) Genome-wide analysis of familial dysautonomia and kinetin target genes with patient olfactory ecto-mesenchymal stem cells.; Hum Mutat, 33: 530-40 PubMed link GSE27915  
Boonyaratanakornkit, Jim B et al. (2009) The C proteins of human parainfluenza virus type 1 (HPIV1) control the transcription of a broad array of cellular genes that would otherwise respond to HPIV1 infection.; J Virol, 83: 1892-910 PubMed link GSE12664  
Boot, James et al. (2022) Global hypo-methylation in a proportion of glioblastoma enriched for an astrocytic signature is associated with increased invasion and altered immune landscape.; Elife, 11: [no pages] PubMed link GSE196418  
Booth, Heather D E et al. (2019) RNA sequencing reveals MMP2 and TGFB1 downregulation in LRRK2 G2019S Parkinson's iPSC-derived astrocytes.; Neurobiol Dis, 129: 56-66 PubMed link GSE120306  
Booth, Stephanie et al. (2004) Identification of central nervous system genes involved in the host response to the scrapie agent during preclinical and clinical infection.; J Gen Virol, 85: 3459-71 PubMed link GSE1840  
Bootsma, Hester J et al. (2007) Analysis of the in vitro transcriptional response of human pharyngeal epithelial cells to adherent Streptococcus pneumoniae: evidence for a distinct response to encapsulated strains.; Infect Immun, 75: 5489-99 PubMed link GSE8527  
Borbely, Gabor et al. (2015) Induction of USP17 by combining BET and HDAC inhibitors in breast cancer cells.; Oncotarget, 6: 33623-35 PubMed link GSE65495  
Borcherding, Nicholas et al. (2015) Paracrine WNT5A Signaling Inhibits Expansion of Tumor-Initiating Cells.; Cancer Res, 75: 1972-82 PubMed link GSE64487  
Borczuk, Alain C et al. (2011) Progression of human bronchioloalveolar carcinoma to invasive adenocarcinoma is modeled in a transgenic mouse model of K-ras-induced lung cancer by loss of the TGF-? type II receptor.; Cancer Res, 71: 6665-75 PubMed link GSE27716  
Borders, A S et al. (2007) Macrophage-mediated neuroprotection and neurogenesis in the olfactory epithelium.; Physiol Genomics, 31: 531-43 PubMed link GSE6540  
Bordignon, Pino et al. (2019) Dualism of FGF and TGF-β Signaling in Heterogeneous Cancer-Associated Fibroblast Activation with ETV1 as a Critical Determinant.; Cell Rep, 28: 2358-2372.e6 PubMed link GSE122371  
Bordin, Diana L et al. (2024) Loss of alkyladenine DNA glycosylase alters gene expression in the developing mouse brain and leads to reduced anxiety and improved memory.; DNA Repair (Amst), 135: 103632 PubMed link GSE243469  
Bordon, Alain et al. (2008) Enforced expression of the transcriptional coactivator OBF1 impairs B cell differentiation at the earliest stage of development.; PLoS One, 3: e4007 PubMed link GSE12421  
Borenshtein, Diana et al. (2008) Diarrhea as a cause of mortality in a mouse model of infectious colitis.; Genome Biol, 9: R122 PubMed link GSE8025  
Borgan, Eldrid et al. (2013) Subtype-specific response to bevacizumab is reflected in the metabolome and transcriptome of breast cancer xenografts.; Mol Oncol, 7: 130-42 PubMed link GSE37543  
Borges, Karin et al. (2007) Gene expression changes after seizure preconditioning in the three major hippocampal cell layers.; Neurobiol Dis, 26: 66-77 PubMed link GSE1994  
Borggrewe, Malte et al. (2021) Regionally diverse astrocyte subtypes and their heterogeneous response to EAE.; Glia, 69: 1140-1154 PubMed link GSE136358.2   GSE136358.1  
Borgognone, Alessandra et al. (2024) Lamivudine modulates the expression of neurological impairment-related genes and LINE-1 retrotransposons in brain tissues of a Down syndrome mouse model.; Front Aging Neurosci, 16: 1386944 PubMed link GSE252135  
Borisova, Ekaterina et al. (2024) Protein translation rate determines neocortical neuron fate.; Nat Commun, 15: 4879 PubMed link GSE172489  
Borjabad, Alejandra et al. (2010) Gene expression profiles of HIV-1-infected glia and brain: toward better understanding of the role of astrocytes in HIV-1-associated neurocognitive disorders.; J Neuroimmune Pharmacol, 5: 44-62 PubMed link GSE17383  
Borjabad, Alejandra et al. (2011) Significant effects of antiretroviral therapy on global gene expression in brain tissues of patients with HIV-1-associated neurocognitive disorders.; PLoS Pathog, 7: e1002213 PubMed link GSE28160  
Borjabad, Alejandra et al. (2024) Innate immune responses reverse HIV cognitive disease in mice: Profile by RNAseq in the brain.; Virology, 589: 109917 PubMed link GSE245947  
Borjesson, Dori L et al. (2005) Insights into pathogen immune evasion mechanisms: Anaplasma phagocytophilum fails to induce an apoptosis differentiation program in human neutrophils.; J Immunol, 174: 6364-72 PubMed link GSE2405  
Borkowski, Robert et al. (2015) Genetic mutation of p53 and suppression of the miR-17∼92 cluster are synthetic lethal in non-small cell lung cancer due to upregulation of vitamin D Signaling.; Cancer Res, 75: 666-75 PubMed link GSE64007  
Borland, Gillian et al. (2016) Addiction to Runx1 is partially attenuated by loss of p53 in the Eµ-Myc lymphoma model.; Oncotarget, 7: 22973-87 PubMed link GSE78001  
Bornstein, Bavat et al. (2023) Molecular characterization of the intact mouse muscle spindle using a multi-omics approach.; Elife, 12: [no pages] PubMed link GSE208147  
Bornstein, Chamutal et al. (2014) A negative feedback loop of transcription factors specifies alternative dendritic cell chromatin States.; Mol Cell, 56: 749-62 PubMed link GSE62704  
Borovecki, F et al. (2005) Genome-wide expression profiling of human blood reveals biomarkers for Huntington's disease.; Proc Natl Acad Sci U S A, 102: 11023-8 PubMed link GSE1751  
Borrelli, Kristyn N et al. (2021) Sex Differences in Behavioral and Brainstem Transcriptomic Neuroadaptations following Neonatal Opioid Exposure in Outbred Mice.; eNeuro, 8: [no pages] PubMed link GSE141066  
Borrelli, Kristyn N et al. (2023) Decreased myelin-related gene expression in the nucleus accumbens during spontaneous neonatal opioid withdrawal in the absence of long-term behavioral effects in adult outbred CFW mice.; Neuropharmacology, 240: 109732 PubMed link GSE239919  
Borromeo, Mark D et al. (2014) A transcription factor network specifying inhibitory versus excitatory neurons in the dorsal spinal cord.; Development, 141: 2803-12 PubMed link GSE55831  
Borràs-Fresneda, Mireia et al. (2016) Differences in DNA Repair Capacity, Cell Death and Transcriptional Response after Irradiation between a Radiosensitive and a Radioresistant Cell Line.; Sci Rep, 6: 27043 PubMed link GSE80207  
Borst, Sara et al. (2021) Study of inherited thrombocytopenia resulting from mutations in ETV6 or RUNX1 using a human pluripotent stem cell model.; Stem Cell Reports, 16: 1458-1467 PubMed link GSE168326  
Bortner, Carl D et al. (2022) Overcoming apoptotic resistance afforded by Bcl-2 in lymphoid tumor cells: a critical role for dexamethasone.; Cell Death Discov, 8: 494 PubMed link GSE210375  
Bortolozzi, Roberta et al. (2018) AKR1C enzymes sustain therapy resistance in paediatric T-ALL.; Br J Cancer, 118: 985-994 PubMed link GSE87865  
Bos, Paula D et al. (2009) Genes that mediate breast cancer metastasis to the brain.; Nature, 459: 1005-9 PubMed link GSE12276   GSE12237  
Bosch, Ana et al. (2015) PI3K inhibition results in enhanced estrogen receptor function and dependence in hormone receptor-positive breast cancer.; Sci Transl Med, 7: 283ra51 PubMed link GSE64033  
Boschen, Karen E et al. (2021) Transcriptomic analyses of gastrulation-stage mouse embryos with differential susceptibility to alcohol.; Dis Model Mech, 14: [no pages] PubMed link GSE163796  
Boschen, Karen E et al. (2022) Short-term transcriptomic changes in the mouse neural tube induced by an acute alcohol exposure.; Alcohol, [no vol.]: [no pages] PubMed link GSE199646  
Bosco, A et al. (2010) Decreased activation of inflammatory networks during acute asthma exacerbations is associated with chronic airflow obstruction.; Mucosal Immunol, 3: 399-409 PubMed link GSE19903  
Bosco, Anthony et al. (2009) A network modeling approach to analysis of the Th2 memory responses underlying human atopic disease.; J Immunol, 182: 6011-21 PubMed link GSE14908  
Bosco, Anthony et al. (2012) Interferon regulatory factor 7 is a major hub connecting interferon-mediated responses in virus-induced asthma exacerbations in vivo.; J Allergy Clin Immunol, 129: 88-94 PubMed link GSE30326  
Bosco, Nazario et al. (2023) KaryoCreate: A CRISPR-based technology to study chromosome-specific aneuploidy by targeting human centromeres.; Cell, 186: 1985-2001.e19 PubMed link GSE217325  
Bose, Rohit et al. (2017) ERF mutations reveal a balance of ETS factors controlling prostate oncogenesis.; Nature, 546: 671-675 PubMed link GSE83652  
Bose, Shikha et al. (2009) The ATM tumour suppressor gene is down-regulated in EBV-associated nasopharyngeal carcinoma.; J Pathol, 217: 345-52 PubMed link GSE13597  
Bosone, Camilla et al. (2024) A polarized FGF8 source specifies frontotemporal signatures in spatially oriented cell populations of cortical assembloids.; Nat Methods, 21: 2147-2159 PubMed link GSE175592   GSE231318  
Bosotti, Roberta et al. (2012) Transcriptional analysis of the Aurora inhibitor Danusertib leading to biomarker identification in TP53 wild type cells.; Gene, 494: 202-8 PubMed link GSE24547  
Bosquez Huerta, Navish A et al. (2025) Sex-specific astrocyte regulation of spinal motor circuits by Nkx6.1.; Cell Rep, 44: 115121 PubMed link GSE282689  
Bossel Ben-Moshe, Noa et al. (2012) Context-specific microRNA analysis: identification of functional microRNAs and their mRNA targets.; Nucleic Acids Res, 40: 10614-27 PubMed link GSE33538  
Bossers, Koen et al. (2010) Intensity-based analysis of dual-color gene expression data as an alternative to ratio-based analysis to enhance reproducibility.; BMC Genomics, 11: 112 PubMed link GSE12553  
Bossé, Yohan et al. (2009) Refining molecular pathways leading to calcific aortic valve stenosis by studying gene expression profile of normal and calcified stenotic human aortic valves.; Circ Cardiovasc Genet, 2: 489-98 PubMed link GSE12644  
Bot, Anna Maria et al. (2013) Alterations in miRNA levels in the dentate gyrus in epileptic rats.; PLoS One, 8: e76051 PubMed link GSE49849  
Botermann, Dominik Simon et al. (2021) Hedgehog signaling in endocrine and folliculo-stellate cells of the adult pituitary.; J Endocrinol, 248: 303-316 PubMed link GSE153550  
Botling, Johan et al. (2013) Biomarker discovery in non-small cell lung cancer: integrating gene expression profiling, meta-analysis, and tissue microarray validation.; Clin Cancer Res, 19: 194-204 PubMed link GSE37745  
Bott, Matthew et al. (2011) The nuclear deubiquitinase BAP1 is commonly inactivated by somatic mutations and 3p21.1 losses in malignant pleural mesothelioma.; Nat Genet, 43: 668-72 PubMed link GSE29354  
Botta-Orfila, Teresa et al. (2012) Brain transcriptomic profiling in idiopathic and LRRK2-associated Parkinson's disease.; Brain Res, 1466: 152-7 PubMed link GSE34516  
Botta-Orfila, Teresa et al. (2012) Microarray expression analysis in idiopathic and LRRK2-associated Parkinson's disease.; Neurobiol Dis, 45: 462-8 PubMed link GSE23290  
Bottelbergs, Astrid et al. (2012) Peroxisome deficiency but not the defect in ether lipid synthesis causes activation of the innate immune system and axonal loss in the central nervous system.; J Neuroinflammation, 9: 61 PubMed link GSE31938  
Bottomly, Daniel et al. (2011) Evaluating gene expression in C57BL/6J and DBA/2J mouse striatum using RNA-Seq and microarrays.; PLoS One, 6: e17820 PubMed link GSE26024.2   GSE26024.1  
Bottomly, Daniel et al. (2012) Expression quantitative trait Loci for extreme host response to influenza a in pre-collaborative cross mice.; G3 (Bethesda), 2: 213-21 PubMed link GSE30506  
Bou-Tayeh, Berna et al. (2021) Chronic IL-15 Stimulation and Impaired mTOR Signaling and Metabolism in Natural Killer Cells During Acute Myeloid Leukemia.; Front Immunol, 12: 730970 PubMed link GSE180409  
Boucas, Jorge et al. (2015) Label-Free Protein-RNA Interactome Analysis Identifies Khsrp Signaling Downstream of the p38/Mk2 Kinase Complex as a Critical Modulator of Cell Cycle Progression.; PLoS One, 10: e0125745 PubMed link GSE67266  
Bouche, Axelle et al. (2023) In vitro-generated human muscle reserve cells are heterogeneous for Pax7 with distinct molecular states and metabolic profiles.; Stem Cell Res Ther, 14: 243 PubMed link GSE233597  
Boucherat, Olivier et al. (2015) Epithelial inactivation of Yy1 abrogates lung branching morphogenesis.; Development, 142: 2981-95 PubMed link GSE66171  
Bouchet, Audrey et al. (2013) Early gene expression analysis in 9L orthotopic tumor-bearing rats identifies immune modulation in molecular response to synchrotron microbeam radiation therapy.; PLoS One, 8: e81874 PubMed link GSE50478  
Boudil, Amine et al. (2015) IL-7 coordinates proliferation, differentiation and Tcra recombination during thymocyte ?-selection.; Nat Immunol, 16: 397-405 PubMed link GSE63932  
Boudreault, Francis et al. (2017) Zinc deficiency primes the lung for ventilator-induced injury.; JCI Insight, 2: [no pages] PubMed link GSE80161  
Bough, Kristopher J et al. (2006) Mitochondrial biogenesis in the anticonvulsant mechanism of the ketogenic diet.; Ann Neurol, 60: 223-35 PubMed link GSE1155  
Boukas, Leandros et al. (2023) Neuron-specific chromatin disruption at CpG islands and aging-related regions in Kabuki syndrome mice.; bioRxiv, [no vol.]: [no pages] PubMed link GSE263144  
Boulaire, Jérôme et al. (2009) Gene expression profiling to define host response to baculoviral transduction in the brain.; J Neurochem, 109: 1203-14 PubMed link GSE9833   GSE9835   GSE9834  
Boulay, Anne-Cécile et al. (2017) Translation in astrocyte distal processes sets molecular heterogeneity at the gliovascular interface.; Cell Discov, 3: 17005 PubMed link GSE72937   GSE76299  
Boulay, Anne-Cécile et al. (2018) Connexin 43 Controls the Astrocyte Immunoregulatory Phenotype.; Brain Sci, 8: [no pages] PubMed link GSE110721  
Boulay, Gaylor et al. (2024) EWS-WT1 fusion isoforms establish oncogenic programs and therapeutic vulnerabilities in desmoplastic small round cell tumors.; Nat Commun, 15: 7460 PubMed link GSE212976  
Boulling, Arnaud et al. (2013) Identification of HMX1 target genes: a predictive promoter model approach.; Mol Vis, 19: 1779-94 PubMed link GSE47002  
Bourdeau, Véronique et al. (2008) Mechanisms of primary and secondary estrogen target gene regulation in breast cancer cells.; Nucleic Acids Res, 36: 76-93 PubMed link GSE8597