Genomes and Genes
Experts and Doctors on base sequence in Cambridge, Massachusetts, United States
Locale: Cambridge, Massachusetts, United States
Topic: base sequence
Publications143 found, 100 shown here
- Shworak N, Liu J, Fritze L, Schwartz J, Zhang L, Logeart D, et al. Molecular cloning and expression of mouse and human cDNAs encoding heparan sulfate D-glucosaminyl 3-O-sulfotransferase. J Biol Chem. 1997;272:28008-19 pubmed
- Ling V, Wu P, Finnerty H, Sharpe A, Gray G, Collins M. Complete sequence determination of the mouse and human CTLA4 gene loci: cross-species DNA sequence similarity beyond exon borders. Genomics. 1999;60:341-55 pubmed..The conservation of CTLA4 gene patterning raises the possibility that constrained gene evolution of CTLA4 may be linked to conserved transcriptional control of this locus. ..
- Austin R, Orr Weaver T, Bell S. Drosophila ORC specifically binds to ACE3, an origin of DNA replication control element. Genes Dev. 1999;13:2639-49 pubmed..Furthermore, adaptation of this experimental approach will allow for the identification of additional metazoan ORC DNA-binding sites and potentially origins of replication. ..
- Amsterdam A, Burgess S, Golling G, Chen W, Sun Z, Townsend K, et al. A large-scale insertional mutagenesis screen in zebrafish. Genes Dev. 1999;13:2713-24 pubmed..Further improvements to this technology could make large-scale insertional mutagenesis screening and rapid gene cloning accessible to relatively small zebrafish laboratories. ..
- Hoehn S, Junker H, Bunt R, Turner C, Stubbe J. Solution structure of Co(III)-bleomycin-OOH bound to a phosphoglycolate lesion containing oligonucleotide: implications for bleomycin-induced double-strand DNA cleavage. Biochemistry. 2001;40:5894-905 pubmed..Two cis conformations of these protons are also observed, and ROESY experiments provide evidence for interconversion of all of these forms. The relationship of these observations to the model for ds cleavage is presented. ..
- Parsch J, Meiklejohn C, Hartl D. Patterns of DNA sequence variation suggest the recent action of positive selection in the janus-ocnus region of Drosophila simulans. Genetics. 2001;159:647-57 pubmed..melanogaster sequence, indicating that it was the ancestral form. These results suggest that the derived haplotype has risen to high worldwide frequency relatively recently, most likely as a result of natural selection...
- Harper C, Xu S, Rogers A, Feng Y, Shen Z, Taylor N, et al. Isolation and characterization of novel Helicobacter spp. from the gastric mucosa of harp seals Phoca groenlandica. Dis Aquat Organ. 2003;57:1-9 pubmed..may play a role in the etiopathogenesis of gastrointestinal diseases in pinnipeds. To our knowledge, this represents the first isolation and characterization of a novel Helicobacter spp. from pinnipeds. ..
- Luciano B, Hsu S, Channavajhala P, Lin L, Cuozzo J. Phosphorylation of threonine 290 in the activation loop of Tpl2/Cot is necessary but not sufficient for kinase activity. J Biol Chem. 2004;279:52117-23 pubmed..Together these results showed that phosphorylation of Cot at Thr-290 is necessary but not sufficient for full kinase activity in the MEK/ERK pathway. ..
- Stone M, Mihalusova M, O Connor C, Prathapam R, Collins K, Zhuang X. Stepwise protein-mediated RNA folding directs assembly of telomerase ribonucleoprotein. Nature. 2007;446:458-61 pubmed..These results identify the RNA folding pathway during telomerase biogenesis and define the mechanism of action for an essential telomerase holoenzyme protein. ..
- Woo L, Egner P, Belanger C, Wattanawaraporn R, Trudel L, Croy R, et al. Aflatoxin B1-DNA adduct formation and mutagenicity in livers of neonatal male and female B6C3F1 mice. Toxicol Sci. 2011;122:38-44 pubmed publisher..The gender difference in the subsequent development of HCC highlights the importance of elucidating additional factors that modulate HCC development. ..
- Sun L, Xie H, Mori M, Alexander R, Yuan B, Hattangadi S, et al. Mir193b-365 is essential for brown fat differentiation. Nat Cell Biol. 2011;13:958-65 pubmed publisher..Mir193b-365 was upregulated by Prdm16 partially through Ppar?. Our results demonstrate that Mir193b-365 serves as an essential regulator for brown fat differentiation, in part by repressing myogenesis. ..
- Jaffe J, Wang Y, Chan H, Zhang J, Huether R, Kryukov G, et al. Global chromatin profiling reveals NSD2 mutations in pediatric acute lymphoblastic leukemia. Nat Genet. 2013;45:1386-91 pubmed publisher..E1099K alteration in 14% of t(12;21) ETV6-RUNX1-containing ALLs. These findings identify NSD2 as a potential therapeutic target for pediatric ALL and provide a general framework for the functional annotation of cancer epigenomes. ..
- Colgrove R, Liu X, Griffiths A, Raja P, DeLuca N, Newman R, et al. History and genomic sequence analysis of the herpes simplex virus 1 KOS and KOS1.1 sub-strains. Virology. 2016;487:215-21 pubmed publisher..1 phenotypic properties of increased replication at high temperature and reduced neuroinvasiveness. The study also provides sequence markers to define the provenance of specific laboratory KOS virus stocks. ..
- Antebi A, Fink G. The yeast Ca(2+)-ATPase homologue, PMR1, is required for normal Golgi function and localizes in a novel Golgi-like distribution. Mol Biol Cell. 1992;3:633-54 pubmed..Some of these interactions are modulated by changes in external Ca2+ concentrations. These results imply a global role for Ca2+ in the proper function of components governing transit and processing through the secretory pathway. ..
- Ottilie S, Chernoff J, Hannig G, Hoffman C, Erikson R. The fission yeast genes pyp1+ and pyp2+ encode protein tyrosine phosphatases that negatively regulate mitosis. Mol Cell Biol. 1992;12:5571-80 pubmed..A pyp1 disruption suppresses the temperature-sensitive lethality of a cdc25-22 mutation. Our data suggest that pyp1+ and pyp2+ act as negative regulators of mitosis upstream of the wee1+/mik1+ pathway. ..
- Ricca E, Cutting S, Losick R. Characterization of bofA, a gene involved in intercompartmental regulation of pro-sigma K processing during sporulation in Bacillus subtilis. J Bacteriol. 1992;174:3177-84 pubmed
- Wang C, Lehmann R. Nanos is the localized posterior determinant in Drosophila. Cell. 1991;66:637-47 pubmed..Our results demonstrate that a localized source of nos RNA is sufficient to specify abdominal segmentation and imply that other posterior group genes are required for localization, stabilization, or distribution of the nos gene product...
- Guijarro J, Santamaria R, Schauer A, Losick R. Promoter determining the timing and spatial localization of transcription of a cloned Streptomyces coelicolor gene encoding a spore-associated polypeptide. J Bacteriol. 1988;170:1895-901 pubmed
- Fenerjian M, Martinez Cruzado J, Swimmer C, King D, Kafatos F. Evolution of the autosomal chorion cluster in Drosophila. II. Chorion gene expression and sequence comparisons of the s16 and s19 genes in evolutionarily distant species. J Mol Evol. 1989;29:108-25 pubmed..The conserved DNA elements may be related to the conserved regulatory features of this cluster, including gene amplification and tissue- and temporally regulated transcription. ..
- Simister N, Mostov K. Cloning and expression of the neonatal rat intestinal Fc receptor, a major histocompatibility complex class I antigen homolog. Cold Spring Harb Symp Quant Biol. 1989;54 Pt 1:571-80 pubmed
- Kolodziej P, Young R. RNA polymerase II subunit RPB3 is an essential component of the mRNA transcription apparatus. Mol Cell Biol. 1989;9:5387-94 pubmed..Finally, the RPB3 protein is similar in sequence and length to RPC5, a subunit common to RNA polymerases I and III, suggesting that these subunits may play similar roles in RNA polymerases I, II, and III. ..
- Jones S, Luk K. Isolation of a chicken thioredoxin cDNA clone. Thioredoxin mRNA is differentially expressed in normal and Rous sarcoma virus-transformed chicken embryo fibroblasts. J Biol Chem. 1988;263:9607-11 pubmed..Transformation of chicken embryo fibroblasts by Rous sarcoma virus elevates the level of thioredoxin mRNA whereas the level of thioredoxin mRNA in a nonproliferative tissue (brain) is much lower than in chicken embryo fibroblasts. ..
- Zheng L, Donovan W, Fitz James P, Losick R. Gene encoding a morphogenic protein required in the assembly of the outer coat of the Bacillus subtilis endospore. Genes Dev. 1988;2:1047-54 pubmed
- Alper S, Kopito R, Libresco S, Lodish H. Cloning and characterization of a murine band 3-related cDNA from kidney and from a lymphoid cell line. J Biol Chem. 1988;263:17092-9 pubmed..The other, far amino-terminal section of B3RP has no correspondent in the band 3 sequence. B3RP mRNA is present in a variety of epithelial and other tissues and probably encodes an anion exchange protein of wide distribution. ..
- Wallner B, Frey A, Tizard R, Mattaliano R, Hession C, Sanders M, et al. Primary structure of lymphocyte function-associated antigen 3 (LFA-3). The ligand of the T lymphocyte CD2 glycoprotein. J Exp Med. 1987;166:923-32 pubmed..Southern blots of human genomic DNA indicate that only one gene codes for human LFA-3. Northern blot analysis demonstrates that the LFA-3 mRNA of 1.3 kb is widely distributed in human tissues and cell lines. ..
- Elion E, Trueheart J, Fink G. Fus2 localizes near the site of cell fusion and is required for both cell fusion and nuclear alignment during zygote formation. J Cell Biol. 1995;130:1283-96 pubmed..These, and other results suggest that Fus2 defines a novel cell fusion function and subcellular structure that is also required for the alignment of parental nuclei before nuclear fusion. ..
- Stark K, Vainio S, Vassileva G, McMahon A. Epithelial transformation of metanephric mesenchyme in the developing kidney regulated by Wnt-4. Nature. 1994;372:679-83 pubmed..Thus, Wnt-4 appears to act as an autoinducer of the mesenchyme to epithelial transition that underlies nephron development. ..
- Houman F, Holm C. DBF8, an essential gene required for efficient chromosome segregation in Saccharomyces cerevisiae. Mol Cell Biol. 1994;14:6350-60 pubmed..Taken together, our data suggest that Dbf8p plays an essential role in chromosome segregation...
- Lidholm D, Lohe A, Hartl D. The transposable element mariner mediates germline transformation in Drosophila melanogaster. Genetics. 1993;134:859-68 pubmed..2 kb) MlwB element. Because of the widespread phylogenetic distribution of mariner among insects, these results suggest that mariner might provide a wide host-range transformation vector for insects. ..
- Lippke J, Gu Y, Sarnecki C, Caron P, Su M. Identification and characterization of CPP32/Mch2 homolog 1, a novel cysteine protease similar to CPP32. J Biol Chem. 1996;271:1825-8 pubmed..Coexpression of CMH-1 with poly(ADP-ribose) polymerase (PARP) also resulted in a specific cleavage of PARP. Purified recombinant CMH-1 cleaved PARP but not interleukin 1 beta precursor in vitro. ..
- Hamilton B, Frankel W, Kerrebrock A, Hawkins T, FitzHugh W, Kusumi K, et al. Disruption of the nuclear hormone receptor RORalpha in staggerer mice. Nature. 1996;379:736-9 pubmed..We propose a model based on these results, in which RORalpha interacts with the thyroid hormone signalling pathway to induce Purkinje-cell maturation. ..
- Wang T, Guidotti G. CD39 is an ecto-(Ca2+,Mg2+)-apyrase. J Biol Chem. 1996;271:9898-901 pubmed..Finally, we show that CD39 indeed has ecto-apyrase activity by expression in COS-7 cells. ..
- Graff J, Bansal A, Melton D. Xenopus Mad proteins transduce distinct subsets of signals for the TGF beta superfamily. Cell. 1996;85:479-87 pubmed..These results suggest that an individual Xmad protein waits poised in the cytoplasm for instruction from a distinct subset of TGF beta ligands and then conveys specific information to the nucleus. ..
- Ponath P, Qin S, Post T, Wang J, Wu L, Gerard N, et al. Molecular cloning and characterization of a human eotaxin receptor expressed selectively on eosinophils. J Exp Med. 1996;183:2437-48 pubmed..The restricted expression of CKR-3 on eosinophils and the fidelity of eotaxin binding to CKR-3, provides a potential mechanism for the selective recruitment and migration of eosinophils within tissues. ..
- Sassanfar M, Kranz J, Gallant P, Schimmel P, Shiba K. A eubacterial Mycobacterium tuberculosis tRNA synthetase is eukaryote-like and resistant to a eubacterial-specific antisynthetase drug. Biochemistry. 1996;35:9995-10003 pubmed..The results also demonstrate that mobilization of a pathogen's gene for a drug-resistant protein target can spread resistance to other, normally drug-sensitive pathogens infecting the same host. ..
- Shyjan A, Heldin P, Butcher E, Yoshino T, Briskin M. Functional cloning of the cDNA for a human hyaluronan synthase. J Biol Chem. 1996;271:23395-9 pubmed
- Williams K, Bartel D. Phylogenetic analysis of tmRNA secondary structure. RNA. 1996;2:1306-10 pubmed
- Chivers P, Sauer R. Regulation of high affinity nickel uptake in bacteria. Ni2+-Dependent interaction of NikR with wild-type and mutant operator sites. J Biol Chem. 2000;275:19735-41 pubmed..In addition to both GTATGA sites and nickel, high affinity operator binding also requires the C-terminal domain of NikR. ..
- Shonn M, McCarroll R, Murray A. Spo13 protects meiotic cohesin at centromeres in meiosis I. Genes Dev. 2002;16:1659-71 pubmed..Overexpressing the mitotic cohesin, Scc1/Mcd1, does not substitute for Rec8, suggesting that the combined actions of Spo13 and Rec8 are important for preventing sister centromere separation in meiosis I. ..
- Jung Y, Lippard S. Multiple states of stalled T7 RNA polymerase at DNA lesions generated by platinum anticancer agents. J Biol Chem. 2003;278:52084-92 pubmed..We also discovered that a polymerase stalled at the platinum-DNA lesion can resume transcription after the platinum adduct is chemically removed from the template. ..
- MULLER U, Bartel D. Improved polymerase ribozyme efficiency on hydrophobic assemblies. RNA. 2008;14:552-62 pubmed publisher..We discuss how, during the origin of life, micellar ribozyme aggregates could have acted as precursors to membrane-encapsulated life forms. ..
- Sun M, Lo E. Genomic markers reveal introgressive hybridization in the Indo-West Pacific mangroves: a case study. PLoS ONE. 2011;6:e19671 pubmed publisher..Genomic data provide insights into the hybridization dynamics of mangrove plants. Such information can assist in biodiversity assessment by helping detect novel taxa and/or define species boundaries. ..
- Komor A, Kim Y, Packer M, Zuris J, Liu D. Programmable editing of a target base in genomic DNA without double-stranded DNA cleavage. Nature. 2016;533:420-4 pubmed publisher..Base editing expands the scope and efficiency of genome editing of point mutations. ..
- Hung D, Schreiber S. cDNA cloning of a human 25 kDa FK506 and rapamycin binding protein. Biochem Biophys Res Commun. 1992;184:733-8 pubmed..The nucleotide sequence reveals an open reading frame that encodes a 224 amino acid polypeptide. Human FKBP25 shows 97% amino acid identity with bovine FKBP25 and 62% homology with human FKBP12. ..
- Simpson E, Page D. An interstitial deletion in mouse Y chromosomal DNA created a transcribed Zfy fusion gene. Genomics. 1991;11:601-8 pubmed..We suggest that not only Zfy but also other neighboring genes such as Spy and Hya may exist in two copies on the Y as the result of a large tandem duplication during rodent evolution. ..
- Wells R. Nucleotide variation at the Gpdh locus in the genus Drosophila. Genetics. 1996;143:375-84 pubmed..pseudoobscura is comparable to that found at other loci, as determined by a Hudson-Kreitman-Aguadé test. Thus, the pattern of nucleotide variation within and between species at the Gpdh locus is consistent with a neutral model...
- Grapin Botton A, Majithia A, Melton D. Key events of pancreas formation are triggered in gut endoderm by ectopic expression of pancreatic regulatory genes. Genes Dev. 2001;15:444-54 pubmed..The results suggest that simple gene combinations could be used in stem cells to achieve specific endodermal tissue differentiation. ..
- Jacob H, Pettersson A, Wilson D, Mao Y, Lernmark A, Lander E. Genetic dissection of autoimmune type I diabetes in the BB rat. Nat Genet. 1992;2:56-60 pubmed
- Sloma A, Rufo G, Theriault K, Dwyer M, Wilson S, Pero J. Cloning and characterization of the gene for an additional extracellular serine protease of Bacillus subtilis. J Bacteriol. 1991;173:6889-95 pubmed..The vpr gene maps in the ctrA-sacA-epr region of the chromosome and is not required for growth or sporulation. ..
- Marmorstein R, Harrison S. Crystal structure of a PPR1-DNA complex: DNA recognition by proteins containing a Zn2Cys6 binuclear cluster. Genes Dev. 1994;8:2504-12 pubmed..None of these residues contact DNA in PPR1, and they contact only the sugar phosphate backbone in GAL4. We propose that this novel mode of DNA site selection is employed by other proteins that contain a Zn2Cys6 binuclear cluster. ..
- Lynch A, Wang J. Anchoring of DNA to the bacterial cytoplasmic membrane through cotranscriptional synthesis of polypeptides encoding membrane proteins or proteins for export: a mechanism of plasmid hypernegative supercoiling in mutants deficient in DNA topoisomerase . J Bacteriol. 1993;175:1645-55 pubmed
- Hertel K, Lynch K, Hsiao E, Liu E, Maniatis T. Structural and functional conservation of the Drosophila doublesex splicing enhancer repeat elements. RNA. 1996;2:969-81 pubmed..melanogaster and D. virilis results in a structure in which each of the repeat elements is single-stranded and therefore accessible for specific recognition by the RNA-binding domain of Tra2...
- Willis L, Walker G. A novel Sinorhizobium meliloti operon encodes an alpha-glucosidase and a periplasmic-binding-protein-dependent transport system for alpha-glucosides. J Bacteriol. 1999;181:4176-84 pubmed
- Fox J, Shen Z, Xu S, Feng Y, Dangler C, Dewhirst F, et al. Helicobacter marmotae sp. nov. isolated from livers of woodchucks and intestines of cats. J Clin Microbiol. 2002;40:2513-9 pubmed..nov. for these organisms. Further studies are required to ascertain if this novel Helicobacter sp. plays a tumor promotion role in hepadnavirus-associated tumors in woodchucks or causes enterohepatic disease in cats...
- Annerén C, Cowan C, Melton D. The Src family of tyrosine kinases is important for embryonic stem cell self-renewal. J Biol Chem. 2004;279:31590-8 pubmed..Together the results suggest that the activation of the Src family is important for maintaining mouse and human ES in an undifferentiated state and may represent a third, independent pathway, downstream of LIF in mouse ES cells. ..
- Chen Y, Liu P, Nielsen A, Brophy J, Clancy K, Peterson T, et al. Characterization of 582 natural and synthetic terminators and quantification of their design constraints. Nat Methods. 2013;10:659-64 pubmed publisher..The availability of many terminators of varying strength, as well as an understanding of the sequence dependence of their properties, will extend their usability in the forward design of synthetic cistrons. ..
- Slater S, Wold S, Lu M, Boye E, Skarstad K, Kleckner N. E. coli SeqA protein binds oriC in two different methyl-modulated reactions appropriate to its roles in DNA replication initiation and origin sequestration. Cell. 1995;82:927-36 pubmed..Also, binding of hemimethylated oriC by membrane fractions is due to SeqA. Direct interaction of SeqA protein with the replication origin is likely to be involved in both replication initiation and sequestration...
- Zinn A, Alagappan R, Brown L, Wool I, Page D. Structure and function of ribosomal protein S4 genes on the human and mouse sex chromosomes. Mol Cell Biol. 1994;14:2485-92 pubmed..In 49,XYYYY cells, S4Y is about half as abundant as S4X. In 49,XXXXY cells, S4Y is barely detectable. These results bear on the hypothesized role of S4 deficiency in Turner syndrome. ..
- Ma L, Teruya Feldstein J, Weinberg R. Tumour invasion and metastasis initiated by microRNA-10b in breast cancer. Nature. 2007;449:682-8 pubmed
- Stark A, Bushati N, Jan C, Kheradpour P, Hodges E, Brennecke J, et al. A single Hox locus in Drosophila produces functional microRNAs from opposite DNA strands. Genes Dev. 2008;22:8-13 pubmed publisher..We also report sense/antisense miRNAs in mouse and find antisense transcripts close to many miRNAs in both flies and mammals, suggesting that additional sense/antisense pairs exist. ..
- Shin C. Cleavage of the star strand facilitates assembly of some microRNAs into Ago2-containing silencing complexes in mammals. Mol Cells. 2008;26:308-13 pubmed..In addition, I show that ATP is not required for star-strand cleavage in this process. Taken together, the data here provide insight into the miRNA-loading mechanisms in mammals. ..
- Zody M, Jiang Z, Fung H, Antonacci F, Hillier L, Cardone M, et al. Evolutionary toggling of the MAPT 17q21.31 inversion region. Nat Genet. 2008;40:1076-83 pubmed publisher..We show that the H2 architecture has evolved more extensive sequence homology, perhaps explaining its tendency to undergo microdeletion associated with mental retardation in European populations...
- Johnson B, Dang L, Marsh G, Roach A, Levine Z, Monti A, et al. Uromodulin p.Cys147Trp mutation drives kidney disease by activating ER stress and apoptosis. J Clin Invest. 2017;127:3954-3969 pubmed publisher..These findings reveal a targetable mechanism for disease processes involved in UAKD. ..
- Hemmati Brivanlou A, Wright D, Melton D. Embryonic expression and functional analysis of a Xenopus activin receptor. Dev Dyn. 1992;194:1-11 pubmed..During neurulation the XAR1 mRNA is expressed predominantly in the presumptive brain and spinal cord, suggesting an additional function for XAR1 in neurogenesis. ..
- Standaert R, Galat A, Verdine G, Schreiber S. Molecular cloning and overexpression of the human FK506-binding protein FKBP. Nature. 1990;346:671-4 pubmed..The human FKBP cDNA sequence shows significant similarity to an open reading frame in the Neisseria meningitidis genome. ..
- Sako D, Chang X, Barone K, Vachino G, White H, Shaw G, et al. Expression cloning of a functional glycoprotein ligand for P-selectin. Cell. 1993;75:1179-86 pubmed..A soluble ligand construct, when coexpressed with fucosyltransferase in COS cells, also mediates P-selectin binding and is immunocrossreactive with the major HL-60 glycoprotein that specifically binds P-selectin. ..
- Veldman G, Bean K, Cumming D, Eddy R, Sait S, Shows T. Genomic organization and chromosomal localization of the gene encoding human P-selectin glycoprotein ligand. J Biol Chem. 1995;270:16470-5 pubmed
- Sekelsky J, Newfeld S, Raftery L, Chartoff E, Gelbart W. Genetic characterization and cloning of mothers against dpp, a gene required for decapentaplegic function in Drosophila melanogaster. Genetics. 1995;139:1347-58 pubmed..Hence, MAD is a member of a novel, highly conserved protein family. ..
- Levin P, Losick R. Characterization of a cell division gene from Bacillus subtilis that is required for vegetative and sporulation septum formation. J Bacteriol. 1994;176:1451-9 pubmed
- Fleming J, Vega L, Solomon F. Function of tubulin binding proteins in vivo. Genetics. 2000;156:69-80 pubmed..Therefore, these proteins may provide a salvage pathway for dissociated tubulin heterodimers and so rescue cells from the deleterious effects of free beta-tubulin. ..
- Foti J, DeLucia A, Joyce C, Walker G. UmuD(2) inhibits a non-covalent step during DinB-mediated template slippage on homopolymeric nucleotide runs. J Biol Chem. 2010;285:23086-95 pubmed publisher..UmuD(2), when bound to DinB, displaces the equilibrium in favor of the non-slipped conformation, thereby preventing frameshifting and potentially enhancing DinB activity on non-slipped substrates. ..
- Irminger Finger I, Laymon R, Goldstein L. Analysis of the primary sequence and microtubule-binding region of the Drosophila 205K MAP. J Cell Biol. 1990;111:2563-72 pubmed..Our data suggest that the 205K MAP uses a microtubule-binding motif unlike that found in other MAPs, and also raise the possibility that the activities of the 205K MAP may be regulated by alternative splicing and phosphorylation. ..
- Hai T, Liu F, Coukos W, Green M. Transcription factor ATF cDNA clones: an extensive family of leucine zipper proteins able to selectively form DNA-binding heterodimers. Genes Dev. 1989;3:2083-90 pubmed..Our results help to explain how a single promoter element, an ATF site, can be present in a wide variety of promoters. ..
- Lu M, Campbell J, Boye E, Kleckner N. SeqA: a negative modulator of replication initiation in E. coli. Cell. 1994;77:413-26 pubmed..We suggest that SeqA might be a cooperativity factor, acting to make the replication initiation process dependent upon cooperative interactions among components...
- Hertel K, Maniatis T. The function of multisite splicing enhancers. Mol Cell. 1998;1:449-55 pubmed..Thus, the function of multisite enhancer elements to increase the probability of an interaction between the enhancer complex and the splicing machinery rather than to promote functional synergy. ..
- Harbison C, Gordon D, Lee T, Rinaldi N, Macisaac K, Danford T, et al. Transcriptional regulatory code of a eukaryotic genome. Nature. 2004;431:99-104 pubmed..We find that environment-specific use of regulatory elements predicts mechanistic models for the function of a large population of yeast's transcriptional regulators. ..
- Gray J, Golinelli Pimpaneau B, Knowles J. Monofunctional chorismate mutase from Bacillus subtilis: purification of the protein, molecular cloning of the gene, and overexpression of the gene product in Escherichia coli. Biochemistry. 1990;29:376-83 pubmed..coli transformants. Chorismate mutases comprise a set of functionally related proteins that show little sequence similarity to each other. This diversity stands in contrast to other chorismate-utilizing enzymes. ..
- Roels S, Losick R. Adjacent and divergently oriented operons under the control of the sporulation regulatory protein GerE in Bacillus subtilis. J Bacteriol. 1995;177:6263-75 pubmed
- Liu F, Thompson M, Wagner S, Greenberg M, Green M. Activating transcription factor-1 can mediate Ca(2+)- and cAMP-inducible transcriptional activation. J Biol Chem. 1993;268:6714-20 pubmed..Taken together, these results suggest a mechanism that allows cells to integrate and differentiate gene regulation by cAMP and Ca2+. ..
- Chattopadhyay S, Whitehurst C, Chen J. A nuclear matrix attachment region upstream of the T cell receptor beta gene enhancer binds Cux/CDP and SATB1 and modulates enhancer-dependent reporter gene expression but not endogenous gene expression. J Biol Chem. 1998;273:29838-46 pubmed..These contrasting results suggest a potential pitfall of functional studies of nuclear matrix attachment regions outside of their natural chromosomal context. ..
- Lipson D, Raz T, Kieu A, Jones D, Giladi E, Thayer E, et al. Quantification of the yeast transcriptome by single-molecule sequencing. Nat Biotechnol. 2009;27:652-8 pubmed publisher..This efficiency, coupled with the high throughput enabled by the single-molecule sequencing platform, provides an alternative method for expression profiling. ..
- Yamagata M, Sanes J. Synaptic localization and function of Sidekick recognition molecules require MAGI scaffolding proteins. J Neurosci. 2010;30:3579-88 pubmed publisher..These results demonstrate that localization and function of Sidekick-2 require its incorporation into a MAGI-containing synaptic scaffold. ..
- Sloma A, Rudolph C, Rufo G, Sullivan B, Theriault K, Ally D, et al. Gene encoding a novel extracellular metalloprotease in Bacillus subtilis. J Bacteriol. 1990;172:1024-9 pubmed..The mpr gene mapped in the cysA-aroI region of the chromosome and was not required for growth or sporulation. ..
- Shea M, King D, Conboy M, Mariani B, Kafatos F. Proteins that bind to Drosophila chorion cis-regulatory elements: a new C2H2 zinc finger protein and a C2C2 steroid receptor-like component. Genes Dev. 1990;4:1128-40 pubmed..The nature of CF1 raises the possibility of hormonal control of choriogenesis in Drosophila. ..
- Takaesu N, Lower J, Robertson E, Bikoff E. Major histocompatibility class II peptide occupancy, antigen presentation, and CD4+ T cell function in mice lacking the p41 isoform of invariant chain. Immunity. 1995;3:385-96 pubmed..In short, MHC class II expression and function are surprisingly unaffected in mice lacking p41 invariant chain, implying that the p31 and p41 isoforms may be functionally redundant in the intact animal. ..
- Lin H, Moustakas A, Knaus P, Wells R, Henis Y, Lodish H. The soluble exoplasmic domain of the type II transforming growth factor (TGF)-beta receptor. A heterogeneously glycosylated protein with high affinity and selectivity for TGF-beta ligands. J Biol Chem. 1995;270:2747-54 pubmed..Thus, the type III receptor or some other component is required for transmission of TGF-beta 2-induced signals by the type II receptor. ..
- Vassalli A, Matzuk M, Gardner H, Lee K, Jaenisch R. Activin/inhibin beta B subunit gene disruption leads to defects in eyelid development and female reproduction. Genes Dev. 1994;8:414-27 pubmed..Altered regulation of beta A activin in beta B-deficient mice may contribute to the mutant phenotype. ..
- Nurminsky D, Moriyama E, Lozovskaya E, Hartl D. Molecular phylogeny and genome evolution in the Drosophila virilis species group: duplications of the alcohol dehydrogenase gene. Mol Biol Evol. 1996;13:132-49 pubmed..6 +/- 0.4 Mya. The region of the D. virilis genome containing Adh, as well as the chromosome as a whole, gives evidence of extensive rearrangements relative to the genome of D. melanogaster. ..
- Gu Y, Sarnecki C, Fleming M, Lippke J, Bleackley R, Su M. Processing and activation of CMH-1 by granzyme B. J Biol Chem. 1996;271:10816-20 pubmed..The cleavage and activation of CMH-1 by granzyme B in vitro sugge st that, in addition to CPP32, CMH-1 may also play a role in CTL-mediated cell killing. ..
- Song J, Slack J. XFGF-9: a new fibroblast growth factor from Xenopus embryos. Dev Dyn. 1996;206:427-36 pubmed..This supports the biochemical results, suggesting that the protein has at least some capacity to be secreted. ..