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1. Full Text A comprehensive survey of 3′ animal miRNA modification events and a possible role for 3′ adenylation in modulating miRNA targeting effectiveness
by Burroughs, A. Maxwell and Ando, Yoshinari and De Hoon, Michiel J. L and Tomaru, Yasuhiro and Nishibu, Takahiro and Ukekawa, Ryo and Funakoshi, Taku and Kurokawa, Tsutomu and Suzuki, Harukazu and Hayashizaki, Yoshihide and Daub, Carsten O
Genome Research, ISSN 1088-9051, 10/2010, Volume 20, Issue 10, pp. 1398 - 1410
Animal microRNA sequences are subject to 3' nucleotide addition. Through detailed analysis of deep-sequenced short RNA data sets, we show adenylation and... 
RNA | BIOCHEMISTRY & MOLECULAR BIOLOGY | POLYADENYLATION | MICRORNAS | IDENTIFICATION | FAMILY | CAENORHABDITIS-ELEGANS | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | EMBRYONIC STEM-CELLS | GENETICS & HEREDITY | TRANSCRIPTION FACTOR | EXPRESSION | CYTOPLASMIC POLY(A) POLYMERASE | Eukaryotic Initiation Factors - metabolism | Cell Line | Humans | 3' Untranslated Regions - genetics | MicroRNAs - metabolism | RNA Stability | Monocytes | Animals | Argonaute Proteins | Eukaryotic Initiation Factor-2 - metabolism | Nucleotidyltransferases - genetics | Adenine - metabolism | Mice | MicroRNAs - genetics | Nucleotidyltransferases - metabolism | MicroRNAs - chemistry | mRNA Cleavage and Polyadenylation Factors | Gene silencing | MicroRNA | Adenylate kinase | Drosophila | Analysis | Genetic aspects | Chemical properties | Structure | Research
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2. Full Text Lymphocyte-activation gene 3+ (LAG3+ ) forkhead box protein 3− (FOXP3− ) regulatory T cells induced by B cells alleviates joint inflammation in collagen-induced arthritis
by Chen, Szu-Ying and Hsu, Wan-Tseng and Chen, Yi-Lien and Chien, Chien-Hui and Chiang, Bor-Luen
Journal of Autoimmunity, ISSN 0896-8411, 2016, Volume 68, pp. 75 - 85
Abstract Rheumatoid arthritis (RA) is an autoimmune disease in which dysregulated immune cells primarily target synovial joints. Despite recent advances in the... 
Allergy and Immunology | Lymphocyte-activation gene 3 | Regulatory T cells | Collagen-induced arthritis | Rheumatoid arthritis | TOLERANCE | AIRWAY INFLAMMATION | TREG CELLS | MECHANISMS | IMMUNOLOGY | NAIVE | CUTTING EDGE | IMMUNE-SYSTEM | EXPANSION | MICE | EXPRESSION | Cell Communication - immunology | T-Lymphocytes, Regulatory - metabolism | Arthritis, Experimental - genetics | Gene Expression | Cytokines - metabolism | Arthritis, Experimental - therapy | Immunomodulation | Male | Adoptive Transfer | Forkhead Transcription Factors - genetics | Antigens, CD - genetics | Antigens, CD - metabolism | Arthritis, Experimental - metabolism | T-Lymphocytes, Regulatory - immunology | Arthritis, Experimental - pathology | Lymphocyte Activation - immunology | Animals | B-Lymphocytes - immunology | Forkhead Transcription Factors - metabolism | Inflammation Mediators - metabolism | Mice | B-Lymphocytes - metabolism
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3. Full Text Functional activity of the porcine Gnrhr2 gene promoter in testis-derived cells is partially conferred by nuclear factor-κB, specificity protein 1 and 3 (SP1/3) and overlapping early growth response 1/SP1/3 binding sites
by Brauer, Vanessa M and Wiarda-Bell, Jocelyn R and Desaulniers, Amy T and Cederberg, Rebecca A and White, Brett R
Gene, ISSN 0378-1119, 08/2016, Volume 587, Issue 2, pp. 137 - 146
Unlike the classical gonadotropin-releasing hormone (GnRH1), the second mammalian isoform (GnRH2) is ubiquitously expressed, suggesting a divergent function.... 
NF-κB | EGR1 | GnRH2 receptor | SP1 | transcriptional regulation | SP3 | Transcriptional regulation | GONADOTROPIN-RELEASING-HORMONE | SERTOLI-CELLS | STEROIDOGENIC FACTOR-I | LUTEINIZING-HORMONE | NF-kappa B | ACTIVATOR INHIBITOR SYSTEM | CIS-ACTING ELEMENTS | PROSTATE-CANCER CELLS | GENETICS & HEREDITY | RECEPTOR GENE | HUMAN EXTRAVILLOUS CYTOTROPHOBLASTS | Transcription Factors - metabolism | Promoter Regions, Genetic | Receptors, LHRH - genetics | Animals | Swine - metabolism | Gene Deletion | Humans | NF-kappa B - metabolism | Sp1 Transcription Factor - metabolism | Electrophoretic Mobility Shift Assay | Swine - genetics | Sp3 Transcription Factor - metabolism
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4. Full Text Alternative 3′ UTRs act as scaffolds to regulate membrane protein localization
by Berkovits, Binyamin D and Mayr, Christine
Nature, ISSN 0028-0836, 06/2015, Volume 522, Issue 7556, pp. 363 - 367
About half of human genes use alternative cleavage and polyadenylation (ApA) to generate messenger RNA transcripts that differ in the length of their 3'... 
RNA-BINDING PROTEINS | MESSENGER-RNA | HUR | MULTIDISCIPLINARY SCIENCES | IN-VIVO | SITES | CD47 | GTP-BINDING | CELL | SET PROTEIN | IMMUNOPRECIPITATION | CD47 Antigen - genetics | ELAV-Like Protein 1 | Cell Line | RNA Isoforms - genetics | Humans | RNA, Messenger - genetics | ELAV Proteins - metabolism | 3' Untranslated Regions - genetics | Endoplasmic Reticulum - metabolism | Histone Chaperones - metabolism | CD47 Antigen - metabolism | RNA, Messenger - metabolism | Protein Transport | Transcription Factors - metabolism | RNA Isoforms - metabolism | Polyadenylation | RNA, Messenger - chemistry | Cell Membrane - metabolism | Membrane Proteins - metabolism | Genes, Reporter | rac1 GTP-Binding Protein - metabolism | Physiological aspects | Protein research | Genetic transcription | Research | Membrane proteins | Proteins | Amino acids | Endoplasmic reticulum | Genes | Binding sites | Cell adhesion & migration
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5. Full Text Characterization and functional studies of forkhead box protein 3− lymphocyte activation gene 3+ CD4+ regulatory T cells induced by mucosal B cells
by Chu, K‐H and Chiang, B‐L
Clinical & Experimental Immunology, ISSN 0009-9104, 05/2015, Volume 180, Issue 2, pp. 316 - 328
Summary The induction of mucosal tolerance has been demonstrated to be an effective therapeutic approach for the treatment of allergic diseases. Our previous... 
mucosal tolerance | airway hyperresponsiveness | Mucosal tolerance | Airway hyperresponsiveness | ANTIBODIES | PEYERS PATCH | DENDRITIC CELLS | GUT | PROLIFERATION | INDUCTION | MODEL | IMMUNOLOGY | ORAL TOLERANCE | MICE | ANTIGEN | Forkhead Transcription Factors - immunology | Receptors, CCR6 - immunology | Antigens, CD - immunology | Receptors, CCR4 - immunology | Receptors, Complement 3d - immunology | Male | Th2 Cells - immunology | Antigens, CD - genetics | T-Lymphocytes, Regulatory - immunology | Receptors, Complement 3d - genetics | Asthma - immunology | Receptors, IgE - immunology | Disease Models, Animal | Receptors, CCR4 - genetics | Mice, Transgenic | Receptors, IgE - genetics | B-Lymphocytes, Regulatory - immunology | Forkhead Transcription Factors - genetics | Asthma - genetics | Animals | Mucous Membrane - immunology | Receptors, CCR6 - genetics | Mice | Mice, Inbred BALB C | Peyer's Patches - immunology | DNA microarrays | Analysis | Genes | Immunoglobulin E | Genetic research | B cells | T cells | Gene expression | Asthma | Lymphocytes | Rodents | Immune system | Translational
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6. Full Text Genome-wide Analysis of Pre-mRNA 3′ End Processing Reveals a Decisive Role of Human Cleavage Factor I in the Regulation of 3′ UTR Length
by Martin, Georges and Gruber, Andreas R and Keller, Walter and Zavolan, Mihaela
Cell Reports, ISSN 2211-1247, 06/2012, Volume 1, Issue 6, pp. 753 - 763
Through alternative polyadenylation, human mRNAs acquire longer or shorter 3′ untranslated regions, the latter typically associated with higher transcript... 
PROTEIN | UNTRANSLATED REGIONS | DISTINCT SEQUENCE MOTIFS | 25 KDA SUBUNIT | POLYADENYLATION SPECIFICITY FACTOR | ALTERNATIVE POLYADENYLATION | POLY(A) | MICRORNA TARGET SITES | 68-KDA SUBUNIT | CLIP | CELL BIOLOGY | Protein Binding - genetics | Cell Proliferation | Nucleotide Motifs - genetics | mRNA Cleavage and Polyadenylation Factors - metabolism | Humans | Genetic Loci - genetics | 3' Untranslated Regions - genetics | Molecular Sequence Data | RNA Precursors - genetics | Genome, Human - genetics | Gene Knockdown Techniques | Blotting, Northern | Poly A - metabolism | Polyadenylation - genetics | Models, Biological | Base Sequence | HEK293 Cells | RNA Precursors - metabolism | RNA 3' End Processing - genetics | Binding Sites | RNA-Binding Proteins - metabolism | Transcription | Gene expression | Gene mapping | Invasiveness | Tumor cells | Polyadenylation
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7. Full Text Epithelial-mesenchymal transition in development and cancer: role of phosphatidylinositol 3′ kinase AKT pathways
by Larue, Lionel and Bellacosa, Alfonso
Oncogene, ISSN 0950-9232, 11/2005, Volume 24, Issue 50, pp. 7443 - 7454
Epithelial-mesenchymal transition (EMT) is an important process during development by which epithelial cells acquire mesenchymal, fibroblast-like properties... 
Epithelial-mesenchymal transition | AKT | Metastasis | PI3K | E-cadherin | Invasion | INTEGRIN-LINKED KINASE | BIOCHEMISTRY & MOLECULAR BIOLOGY | E-CADHERIN EXPRESSION | SMAD-INTERACTING PROTEIN-1 | TRANSCRIPTION FACTOR SNAIL | epithelial | mesenchymal transition | TUMOR-CELLS | ONCOGENIC TRANSFORMATION | CELL BIOLOGY | GROWTH-FACTOR-BETA | CARCINOMA CELL-LINE | invasion | ONCOLOGY | metastasis | MOUSE PREIMPLANTATION EMBRYOS | GENETICS & HEREDITY | HIRSCHSPRUNG-DISEASE | Epithelial Cells - physiology | Neoplasm Metastasis | Signal Transduction | Cell Transformation, Neoplastic | Neoplasm Invasiveness | Mesoderm - physiology | Cadherins - physiology | Phosphatidylinositol 3-Kinases - metabolism | Proto-Oncogene Proteins c-akt - metabolism
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8. Full Text Structure and function of the 5′3′ exoribonuclease Rat1 and its activating partner Rai1
by Xiang, Song and Cooper-Morgan, Amalene and Jiao, Xinfu and Kiledjian, Megerditch and Manley, James L and Tong, Liang
Nature, ISSN 0028-0836, 04/2009, Volume 458, Issue 7239, pp. 784 - 788
The 5'-> 3' exoribonucleases (XRNs) comprise a large family of conserved enzymes in eukaryotes with crucial functions in RNA metabolism and RNA... 
RNA-POLYMERASE-II | MACROMOLECULAR STRUCTURES | PROTEIN | TURNOVER | NUCLEAR | MESSENGER-RNA | MULTIDISCIPLINARY SCIENCES | EXONUCLEASE | TRANSCRIPTION TERMINATION | SACCHAROMYCES-CEREVISIAE | PIN DOMAINS | Protein Structure, Tertiary | Recombinant Proteins - metabolism | Schizosaccharomyces pombe Proteins - chemistry | Exoribonucleases - genetics | Schizosaccharomyces pombe Proteins - genetics | Schizosaccharomyces - chemistry | Exoribonucleases - chemistry | Models, Molecular | Recombinant Proteins - chemistry | Nuclear Proteins - metabolism | Nuclear Proteins - chemistry | Schizosaccharomyces - genetics | Animals | Schizosaccharomyces pombe Proteins - metabolism | Protein Binding | Schizosaccharomyces - enzymology | Mice | Mutation | Exoribonucleases - metabolism | Physiological aspects | Ribonuclease | Research | Structure | Crystals | Proteins | Enzymes | Bacteria | E coli | Crystal structure | Index Medicus | pol II termination | RNAi | RNA pyrophosphohydrolase | mRNA processing | torpedo model | nonsense mediated decay | protein complex | RNA metabolism
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9. Full Text XRN 5′→3′ exoribonucleases: Structure, mechanisms and functions
by Nagarajan, Vinay K and Jones, Christopher I and Newbury, Sarah F and Green, Pamela J
BBA - Gene Regulatory Mechanisms, ISSN 1874-9399, 06/2013, Volume 1829, Issue 6-7, pp. 590 - 603
The XRN family of 5′ → 3′ exoribonucleases is critical for ensuring the fidelity of cellular RNA turnover in eukaryotes. Highly conserved across species, the... 
RNA decay | Exoribonuclease | XRN1/PACMAN | Transcriptional surveillance | Small RNA | XRN2/RAT1 | ETHYLENE SIGNAL-TRANSDUCTION | BIOCHEMISTRY & MOLECULAR BIOLOGY | EXONUCLEASE XRN2 | QUALITY-CONTROL | RIBOSOMAL-RNA | SACCHAROMYCES-CEREVISIAE | ENDONUCLEOLYTIC CLEAVAGE | DHP1(+) GENE | BIOPHYSICS | SMALL NUCLEOLAR RNAS | MESSENGER-RNA DECAY | PROMOTES TRANSCRIPTION TERMINATION | Microtubule-Associated Proteins - chemistry | Exoribonucleases - genetics | Microtubule-Associated Proteins - genetics | Humans | RNA, Messenger - genetics | Exoribonucleases - chemistry | RNA Stability - genetics | Animals | Cell Nucleus - genetics | Eukaryota | Cytoplasm - genetics | Drosophila - growth & development | Drosophila Proteins - genetics | Mutation | Drosophila - genetics | Physiological aspects | Genetic engineering | Genetic transcription | Ribonuclease | RNA | Analysis
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