Differential expression analysis for sequence count data

Cited by (402)

Items 201–300 of 402

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4. Retrotransposon activation contributes to neurodegeneration in a Drosophila TDP-43 model of ALS
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5. Noncoding RNA transcription targets AID to divergently transcribed loci in B cells
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6. The Transcription Factor Runx3 Establishes Chromatin Accessibility of cis-Regulatory Landscapes that Drive Memory Cytotoxic T Lymphocyte Formation
   Wang, Dapeng, Diao, Huitian, Getzler, Adam J., Rogal, Walter, Frederick, Megan A., Milner, Justin, Yu, Bingfei, Crotty, Shane, Goldrath, Ananda W., Pipkin, Matthew E. · 2018 · Immunity
7. Efficient experimental design and analysis strategies for the detection of differential expression using RNA-Sequencing
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8. Minocycline counter-regulates pro-inflammatory microglia responses in the retina and protects from degeneration
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9. Genome-wide, integrative analysis implicates microRNA dysregulation in autism spectrum disorder
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10. Transposable Elements in TDP-43-Mediated Neurodegenerative Disorders
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11. Multiparameter functional diversity of human C2H2 zinc finger proteins
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13. Modeling of RNA-seq fragment sequence bias reduces systematic errors in transcript abundance estimation
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14. Cell-type, allelic, and genetic signatures in the human pancreatic beta cell transcriptome
    Nica, Alexandra C., Ongen, Halit, Irminger, Jean-Claude, Bosco, Domenico, Berney, Thierry, Antonarakis, Stylianos E., Halban, Philippe A., Dermitzakis, Emmanouil T. · 2013 · Genome Research
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16. Transcriptional profiling of sweetpotato (Ipomoea batatas) roots indicates down-regulation of lignin biosynthesis and up-regulation of starch biosynthesis at an early stage of storage root formation
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17. Characterization of Distinct Subpopulations of Hepatic Macrophages in HFD/Obese Mice
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18. Cell-fate determination by ubiquitin-dependent regulation of translation
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19. Slow growth of <scp> <i>M</i> </scp> <i>ycobacterium tuberculosis</i> at acidic <scp>pH</scp> is regulated by <scp> <i>phoPR</i> </scp> and host‐associated carbon sources
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20. Microcephaly gene links trithorax and REST/NRSF to control neural stem cell proliferation and differentiation
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21. The ribosome-engaged landscape of alternative splicing
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22. Antifungal drug resistance evoked via RNAi-dependent epimutations
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23. Performance Assessment and Selection of Normalization Procedures for Single-Cell RNA-Seq
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24. Digital Gene Expression Analysis Based on Integrated De Novo Transcriptome Assembly of Sweet Potato [Ipomoea batatas (L.) Lam.]
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25. Expression profiling of budding cells in colorectal cancer reveals an EMT-like phenotype and molecular subtype switching
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26. Modelling and rescuing neurodevelopmental defect of Down syndrome using induced pluripotent stem cells from monozygotic twins discordant for trisomy 21
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27. Iron drives T helper cell pathogenicity by promoting RNA-binding protein PCBP1-mediated proinflammatory cytokine production
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28. PTPN11 is a central node in intrinsic and acquired resistance to targeted cancer drugs
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29. In vivo targeting of de novo DNA methylation by histone modifications in yeast and mouse
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30. Identification and Application of Gene Expression Signatures Associated with Lifespan Extension
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31. Taxonomer: an interactive metagenomics analysis portal for universal pathogen detection and host mRNA expression profiling
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32. Retinoic Acid Receptors Recognize the Mouse Genome through Binding Elements with Diverse Spacing and Topology
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33. mRNA expression, splicing and editing in the embryonic and adult mouse cerebral cortex
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34. <i>CUL3</i> and <i>NRF2</i> Mutations Confer an NRF2 Activation Phenotype in a Sporadic Form of Papillary Renal Cell Carcinoma
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35. Transcriptomics and Lipidomics of the Environmental Strain <i>Rhodococcus ruber</i> Point out Consumption Pathways and Potential Metabolic Bottlenecks for Polyethylene Degradation
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36. Glucose Metabolism Drives Histone Acetylation Landscape Transitions that Dictate Muscle Stem Cell Function
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37. The PhoP-Dependent ncRNA Mcr7 Modulates the TAT Secretion System in Mycobacterium tuberculosis
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38. A mechanism for expansion of regulatory T-cell repertoire and its role in self-tolerance
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39. Histone H3.3K27M Represses <i>p16</i> to Accelerate Gliomagenesis in a Murine Model of DIPG
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40. Citation content analysis ( <scp>CCA</scp> ): A framework for syntactic and semantic analysis of citation content
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41. Transcriptomic Analysis of Vulvovaginal Candidiasis Identifies a Role for the NLRP3 Inflammasome
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42. Combining multidimensional genomic measurements for predicting cancer prognosis: observations from TCGA
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43. A comparison of brain gene expression levels in domesticated and wild animals
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44. miR-10b-5p expression in Huntington’s disease brain relates to age of onset and the extent of striatal involvement
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45. Scotty: a web tool for designing RNA-Seq experiments to measure differential gene expression
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46. Characterization and improvement of RNA-Seq precision in quantitative transcript expression profiling
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47. A comprehensive evaluation of ensembl, RefSeq, and UCSC annotations in the context of RNA-seq read mapping and gene quantification
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48. Genome-wide Association of Yorkie with Chromatin and Chromatin-Remodeling Complexes
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49. Transcriptional consequences of 16p11.2 deletion and duplication in mouse cortex and multiplex autism families
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50. Effect of whole-grain barley on the human fecal microbiota and metabolome
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51. Placing the HIRA Histone Chaperone Complex in the Chromatin Landscape
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52. Molecular fingerprinting of the podocyte reveals novel gene and protein regulatory networks
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53. Candida albicans Inhibits Pseudomonas aeruginosa Virulence through Suppression of Pyochelin and Pyoverdine Biosynthesis
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54. ZnuA and zinc homeostasis in Pseudomonas aeruginosa
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55. Developmental gene expression provides clues to relationships between sponge and eumetazoan body plans
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56. Stabilization of the Max Homodimer with a Small Molecule Attenuates Myc-Driven Transcription
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57. Identification of neurodegenerative factors using translatome–regulatory network analysis
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58. Multi-omic rejuvenation and lifespan extension on exposure to youthful circulation
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59. Sex-specific association between gut microbiome and fat distribution
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60. The Osteoblast to Osteocyte Transition: Epigenetic Changes and Response to the Vitamin D₃Hormone
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61. Directed migration of cortical interneurons depends on the cell-autonomous action of Sip1
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62. Identification of chemicals that mimic transcriptional changes associated with autism, brain aging and neurodegeneration
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63. Microglial PD-1 stimulation by astrocytic PD-L1 suppresses neuroinflammation and Alzheimer’s disease pathology
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64. Functional Analysis and Transcriptomic Profiling of iPSC-Derived Macrophages and Their Application in Modeling Mendelian Disease
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65. Skeletal muscle transcriptome in healthy aging
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66. Aryl Sulfonamides Degrade RBM39 and RBM23 by Recruitment to CRL4-DCAF15
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67. Ribosome Profiling Reveals a Cell-Type-Specific Translational Landscape in Brain Tumors
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68. Repetitive element transcripts are elevated in the brain of C9orf72 ALS/FTLD patients
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75. p120-catenin-dependent collective brain infiltration by glioma cell networks
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76. Dynamic changes in the Streptococcus pneumoniae transcriptome during transition from biofilm formation to invasive disease upon influenza A virus infection
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77. Transcriptome organization for chronic alcohol abuse in human brain
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78. Controlled induction of DNA double-strand breaks in the mouse liver induces features of tissue ageing
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79. A KRAB/KAP1-miRNA Cascade Regulates Erythropoiesis Through Stage-Specific Control of Mitophagy
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80. Comparative study of RNA-seq- and Microarray-derived coexpression networks in <i>Arabidopsis thaliana</i>
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81. Telomere Dysfunction Drives Aberrant Hematopoietic Differentiation and Myelodysplastic Syndrome
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82. Single-Cell RNA-Sequencing: Assessment of Differential Expression Analysis Methods
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83. scPower accelerates and optimizes the design of multi-sample single cell transcriptomic studies
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84. Multiplexed relative and absolute quantitative immunopeptidomics reveals MHC I repertoire alterations induced by CDK4/6 inhibition
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85. Functional implications of Neandertal introgression in modern humans
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86. IFN signaling and neutrophil degranulation transcriptional signatures are induced during SARS-CoV-2 infection
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87. Social interaction-induced activation of RNA splicing in the amygdala of microbiome-deficient mice
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88. Neonatal thymectomy reveals differentiation and plasticity within human naive T cells
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89. Differential Content of Proteins, mRNAs, and miRNAs Suggests that MDSC and Their Exosomes May Mediate Distinct Immune Suppressive Functions
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90. The Xenobiotic Transporter Mdr1 Enforces T Cell Homeostasis in the Presence of Intestinal Bile Acids
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91. Next-generation sequencing of microRNAs uncovers expression signatures in polarized macrophages
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