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(12) Patent Application Publication (10) Pub. No.: US 2005/0010974A1 Milligan Et Al
US 20050010974A1 (19) United States (12) Patent Application Publication (10) Pub. No.: US 2005/0010974A1 Milligan et al. (43) Pub. Date: Jan. 13, 2005 (54) PROMOTERS FOR REGULATION OF GENE Publication Classification EXPRESSION IN PLANT ROOTS (51) Int. Cl." ............................ C12N 15/82; C12O 1/68; (76) Inventors: Stephen B Milligan, Kirkland, WA C12N 15/87; C12N 15/63; (US); Dale Skalla, Research Triangle C12N 15/85; C12N 5/10; Park, NC (US); Kay Lawton, Research C12N 15/09; CO7H 21/04 Triangle Park, NC (US) (52) U.S. Cl. ..................... 800/287; 536/23.6; 435/320.1; 435/455; 435/419; 435/468; Correspondence Address: 800/278; 435/6; 536/24.33 Randee S Schwatz Syngenta Biotechnology 3054 Cornwallis Road (57) ABSTRACT Research Triangle Park, NC 27709 (US) The present invention is directed to promoters isolated from (21) Appl. No.: 10/490,147 maize and functional equivalents thereto. The promoters of the present invention have particular utility in driving root (22) PCT Filed: Nov. 4, 2002 Specific expression of heterologous genes that impart (86) PCT No.: PCT/US02/35374 increased agronomic, horticultural and/or pesticidal charac teristics to a given promoters of the invention and trans (30) Foreign Application Priority Data formed plant tissues containing DNA molecules comprising a promoter of the invention operably linked to a heterolo Nov. 7, 2001 (US)........................................... 60337026 gous gene or genes, and Seeds thereof. US 2005/0010974 A1 Jan. 13, 2005 PROMOTERS FOR REGULATION OF GENE latory Sequences may be short regions of DNA sequence EXPRESSION IN PLANT ROOTS 6-100 base pairs that define the binding sites for trans-acting factors, Such as transcription factors. -
Supplementary Data
Supplementary Fig. 1 A B Responder_Xenograft_ Responder_Xenograft_ NON- NON- Lu7336, Vehicle vs Lu7466, Vehicle vs Responder_Xenograft_ Responder_Xenograft_ Sagopilone, Welch- Sagopilone, Welch- Lu7187, Vehicle vs Lu7406, Vehicle vs Test: 638 Test: 600 Sagopilone, Welch- Sagopilone, Welch- Test: 468 Test: 482 Responder_Xenograft_ NON- Lu7860, Vehicle vs Responder_Xenograft_ Sagopilone, Welch - Lu7558, Vehicle vs Test: 605 Sagopilone, Welch- Test: 333 Supplementary Fig. 2 Supplementary Fig. 3 Supplementary Figure S1. Venn diagrams comparing probe sets regulated by Sagopilone treatment (10mg/kg for 24h) between individual models (Welsh Test ellipse p-value<0.001 or 5-fold change). A Sagopilone responder models, B Sagopilone non-responder models. Supplementary Figure S2. Pathway analysis of genes regulated by Sagopilone treatment in responder xenograft models 24h after Sagopilone treatment by GeneGo Metacore; the most significant pathway map representing cell cycle/spindle assembly and chromosome separation is shown, genes upregulated by Sagopilone treatment are marked with red thermometers. Supplementary Figure S3. GeneGo Metacore pathway analysis of genes differentially expressed between Sagopilone Responder and Non-Responder models displaying –log(p-Values) of most significant pathway maps. Supplementary Tables Supplementary Table 1. Response and activity in 22 non-small-cell lung cancer (NSCLC) xenograft models after treatment with Sagopilone and other cytotoxic agents commonly used in the management of NSCLC Tumor Model Response type -
Role and Regulation of the P53-Homolog P73 in the Transformation of Normal Human Fibroblasts
Role and regulation of the p53-homolog p73 in the transformation of normal human fibroblasts Dissertation zur Erlangung des naturwissenschaftlichen Doktorgrades der Bayerischen Julius-Maximilians-Universität Würzburg vorgelegt von Lars Hofmann aus Aschaffenburg Würzburg 2007 Eingereicht am Mitglieder der Promotionskommission: Vorsitzender: Prof. Dr. Dr. Martin J. Müller Gutachter: Prof. Dr. Michael P. Schön Gutachter : Prof. Dr. Georg Krohne Tag des Promotionskolloquiums: Doktorurkunde ausgehändigt am Erklärung Hiermit erkläre ich, dass ich die vorliegende Arbeit selbständig angefertigt und keine anderen als die angegebenen Hilfsmittel und Quellen verwendet habe. Diese Arbeit wurde weder in gleicher noch in ähnlicher Form in einem anderen Prüfungsverfahren vorgelegt. Ich habe früher, außer den mit dem Zulassungsgesuch urkundlichen Graden, keine weiteren akademischen Grade erworben und zu erwerben gesucht. Würzburg, Lars Hofmann Content SUMMARY ................................................................................................................ IV ZUSAMMENFASSUNG ............................................................................................. V 1. INTRODUCTION ................................................................................................. 1 1.1. Molecular basics of cancer .......................................................................................... 1 1.2. Early research on tumorigenesis ................................................................................. 3 1.3. Developing -
Mass Spectrometry Discovery-Based Proteomics to Examine Anti-Aging Effects of the Nutraceutical NT-020 in Rat Serum" (2020)
University of South Florida Scholar Commons Graduate Theses and Dissertations Graduate School March 2020 Mass Spectrometry Discovery-Based Proteomics to Examine Anti- Aging Effects of the Nutraceutical NT-020 in Rat Serum Samantha M. Portis University of South Florida Follow this and additional works at: https://scholarcommons.usf.edu/etd Part of the Bioinformatics Commons, and the Neurosciences Commons Scholar Commons Citation Portis, Samantha M., "Mass Spectrometry Discovery-Based Proteomics to Examine Anti-Aging Effects of the Nutraceutical NT-020 in Rat Serum" (2020). Graduate Theses and Dissertations. https://scholarcommons.usf.edu/etd/8279 This Dissertation is brought to you for free and open access by the Graduate School at Scholar Commons. It has been accepted for inclusion in Graduate Theses and Dissertations by an authorized administrator of Scholar Commons. For more information, please contact [email protected]. Mass Spectrometry Discovery-Based Proteomics to Examine Anti-Aging Effects of the Nutraceutical NT-020 in Rat Serum by Samantha M. Portis A dissertation submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy Medical Sciences with a concentration in Neuroscience Department of Molecular Pharmacology and Physiology College of Medicine University of South Florida Major Professor: Paul R. Sanberg, Ph.D., D.Sc Co-Major Professor: Paula C. Bickford, Ph.D. Kevin Nash, Ph.D. Dominic D’Agostino, Ph.D. Brent Small, Ph.D. Date of Approval: March 28, 2020 Keywords: aging, proteome, serum, inflammation, bioinformatics Copyright © 2020, Samantha M. Portis Dedication I dedicate this work to my family, Alan, Candace, Carolyn, and Jimmy, my brother, Patrick, and my partner, Will. -
Mclean, Chelsea.Pdf
COMPUTATIONAL PREDICTION AND EXPERIMENTAL VALIDATION OF NOVEL MOUSE IMPRINTED GENES A Dissertation Presented to the Faculty of the Graduate School of Cornell University In Partial Fulfillment of the Requirements for the Degree of Doctor of Philosophy by Chelsea Marie McLean August 2009 © 2009 Chelsea Marie McLean COMPUTATIONAL PREDICTION AND EXPERIMENTAL VALIDATION OF NOVEL MOUSE IMPRINTED GENES Chelsea Marie McLean, Ph.D. Cornell University 2009 Epigenetic modifications, including DNA methylation and covalent modifications to histone tails, are major contributors to the regulation of gene expression. These changes are reversible, yet can be stably inherited, and may last for multiple generations without change to the underlying DNA sequence. Genomic imprinting results in expression from one of the two parental alleles and is one example of epigenetic control of gene expression. So far, 60 to 100 imprinted genes have been identified in the human and mouse genomes, respectively. Identification of additional imprinted genes has become increasingly important with the realization that imprinting defects are associated with complex disorders ranging from obesity to diabetes and behavioral disorders. Despite the importance imprinted genes play in human health, few studies have undertaken genome-wide searches for new imprinted genes. These have used empirical approaches, with some success. However, computational prediction of novel imprinted genes has recently come to the forefront. I have developed generalized linear models using data on a variety of sequence and epigenetic features within a training set of known imprinted genes. The resulting models were used to predict novel imprinted genes in the mouse genome. After imposing a stringency threshold, I compiled an initial candidate list of 155 genes. -
Construction of a Radiation Hybrid Map of Chicken Chromosome 2 And
Construction of a radiation hybrid map of chicken chromosome 2 and alignment to the chicken draft sequence Sophie Leroux, Mélanie Dottax, Suzanne Bardes, Florence Vignoles, Katia Feve, Frédérique Pitel, Mireille Morisson, Alain Vignal To cite this version: Sophie Leroux, Mélanie Dottax, Suzanne Bardes, Florence Vignoles, Katia Feve, et al.. Construction of a radiation hybrid map of chicken chromosome 2 and alignment to the chicken draft sequence. BMC Genomics, BioMed Central, 2005, 6, pp.12. 10.1186/1471-2164-6-12. hal-02682366 HAL Id: hal-02682366 https://hal.inrae.fr/hal-02682366 Submitted on 1 Jun 2020 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. BMC Genomics BioMed Central Research article Open Access Construction of a radiation hybrid map of chicken chromosome 2 and alignment to the chicken draft sequence Sophie Leroux*, Mélanie Dottax, Suzanne Bardes, Florence Vignoles, Katia Fève, Frédérique Pitel, Mireille Morisson and Alain Vignal Address: Laboratoire de Génétique Cellulaire, INRA, Castanet-Tolosan, 31326, France Email: Sophie Leroux* -
Ep 2301948 B1
(19) & (11) EP 2 301 948 B1 (12) EUROPEAN PATENT SPECIFICATION (45) Date of publication and mention (51) Int Cl.: of the grant of the patent: C07H 21/04 (2006.01) C12N 15/82 (2006.01) 09.05.2012 Bulletin 2012/19 A01H 5/00 (2006.01) A01H 5/10 (2006.01) (21) Application number: 10172501.8 (22) Date of filing: 04.11.2002 (54) Promoters for regulation of gene expression in plant roots Promotoren zur Regulierung der Genexpression in Pflanzenwurzeln Promoteurs régulant l’expression génique dans les racines de plante (84) Designated Contracting States: (74) Representative: Radkov, Stoyan Atanassov AT BE BG CH CY CZ DE DK EE ES FI FR GB GR Syngenta International AG IE IT LI LU MC NL PT SE SK TR WRO-1004.8.15 Schwarzwaldallee 215 (30) Priority: 07.11.2001 US 337026 P 4058 Basel (CH) (43) Date of publication of application: (56) References cited: 30.03.2011 Bulletin 2011/13 WO-A-00/29594 US-A- 5 837 848 US-B1- 6 207 879 US-B1- 6 232 526 (62) Document number(s) of the earlier application(s) in accordance with Art. 76 EPC: • DATABASE EMBL [Online] 29 March 2002 02789419.5 / 1 537 136 (2002-03-29), "fzmb011f011b09f0 fzmb filtered library Zea mays genomic clone fzmb011f011b09 (73) Proprietor: Syngenta Participations AG 5’, DNA sequence.", XP002602534, retrieved from 4058 Basel (CH) EBI accession no. EMBL:BH775378 Database accession no. BH775378 (72) Inventors: • LU GUIHUA ET AL: "A novel cis-acting element • Milligan, Stephen, B. conferring root-preferred gene expression in Kirkland, WA 98034 (US) maize", JOURNAL OF PLANT PHYSIOLOGY, vol. -
SNV Discovery and Functional Candidate Gene Identification For
RESEARCH ARTICLE SNV discovery and functional candidate gene identification for milk composition based on whole genome resequencing of Holstein bulls with extremely high and low breeding values Shan Lin1, Hongyan Zhang1, Yali Hou2, Lin Liu3, Wenhui Li1, Jianping Jiang1, Bo Han1, 1 1 Shengli Zhang , Dongxiao SunID * a1111111111 1 Department of Animal Genetics and Breeding, College of Animal Science and Technology, Key Laboratory of Animal Genetics and Breeding of the Ministry of Agriculture, National Engineering Laboratory for Animal a1111111111 Breeding, China Agricultural University, Beijing, China, 2 Laboratory of Disease Genomics and Individualized a1111111111 Medicine, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China, 3 Beijing Dairy Cattle a1111111111 Center, Beijing, China a1111111111 * [email protected] Abstract OPEN ACCESS Citation: Lin S, Zhang H, Hou Y, Liu L, Li W, Jiang We have sequenced the whole genomes of eight proven Holstein bulls from the four half-sib J, et al. (2019) SNV discovery and functional or full-sib families with extremely high and low estimated breeding values (EBV) for milk pro- candidate gene identification for milk composition tein percentage (PP) and fat percentage (FP) using Illumina re-sequencing technology. based on whole genome resequencing of Holstein Consequently, 2.3 billion raw reads were obtained with an average effective depth of 8.1 . bulls with extremely high and low breeding values. × PLoS ONE 14(8): e0220629. https://doi.org/ After single nucleotide variant (SNV) calling, total 10,961,243 SNVs were identified, and 10.1371/journal.pone.0220629 57,451 of them showed opposite fixed sites between the bulls with high and low EBVs within Editor: Sujan Mamidi, HudsonAlpha Institute for each family (called as common differential SNVs). -
Frequent Loss-Of-Heterozygosity in CRISPR-Cas9–Edited Early Human Embryos
Frequent loss-of-heterozygosity in CRISPR-Cas9–edited COLLOQUIUM PAPER early human embryos Gregorio Alanis-Lobatoa, Jasmin Zohrenb, Afshan McCarthya, Norah M. E. Fogartya,c, Nada Kubikovad,e, Emily Hardmana, Maria Grecof, Dagan Wellsd,g, James M. A. Turnerb, and Kathy K. Niakana,h,1 aHuman Embryo and Stem Cell Laboratory, The Francis Crick Institute, NW1 1AT London, United Kingdom; bSex Chromosome Biology Laboratory, The Francis Crick Institute, NW1 1AT London, United Kingdom; cCentre for Stem Cells and Regenerative Medicine, Guy’s Campus, King’s College London, SE1 9RT London, United Kingdom; dNuffield Department of Women’s and Reproductive Health, John Radcliffe Hospital, University of Oxford, OX3 9DU Oxford, United Kingdom; eJesus College, University of Oxford, OX1 3DW Oxford, United Kingdom; fAncient Genomics Laboratory, The Francis Crick Institute, NW1 1AT London, United Kingdom; gJuno Genetics, OX4 4GE Oxford, United Kingdom; and hThe Centre for Trophoblast Research, Department of Physiology, Development and Neuroscience, University of Cambridge, CB2 3EG Cambridge, United Kingdom Edited by Barbara J. Meyer, University of California, Berkeley, CA, and approved October 31, 2020 (received for review June 5, 2020) CRISPR-Cas9 genome editing is a promising technique for clinical homozygous WT embryos in both cases was not associated with applications, such as the correction of disease-associated alleles in use of the provided repair template for gene correction. Instead, somatic cells. The use of this approach has also been discussed in the authors suggest that in edited embryos the WT maternal the context of heritable editing of the human germ line. However, allele served as a template for the high-fidelity homology di- studies assessing gene correction in early human embryos report rected repair (HDR) pathway to repair the double-strand lesion low efficiency of mutation repair, high rates of mosaicism, and the caused by the Cas9 protein in the paternal allele (8). -
MRS2 Rabbit Polyclonal Antibody – TA338429 | Origene
OriGene Technologies, Inc. 9620 Medical Center Drive, Ste 200 Rockville, MD 20850, US Phone: +1-888-267-4436 [email protected] EU: [email protected] CN: [email protected] Product datasheet for TA338429 MRS2 Rabbit Polyclonal Antibody Product data: Product Type: Primary Antibodies Applications: WB Recommended Dilution: WB Reactivity: Human Host: Rabbit Isotype: IgG Clonality: Polyclonal Immunogen: The immunogen for anti-MRS2 antibody: synthetic peptide directed towards the middle region of human MRS2. Synthetic peptide located within the following region: LDALVDPKHSSVDRSKLHILLQNGKSLSELETDIKIFKESILEILDEEEL Formulation: Liquid. Purified antibody supplied in 1x PBS buffer with 0.09% (w/v) sodium azide and 2% sucrose. Note that this product is shipped as lyophilized powder to China customers. Purification: Affinity Purified Conjugation: Unconjugated Storage: Store at -20°C as received. Stability: Stable for 12 months from date of receipt. Predicted Protein Size: 50 kDa Gene Name: MRS2, magnesium transporter Database Link: NP_065713 Entrez Gene 57380 Human Q9HD23 Background: MRS2 is a magnesium transporter that may mediate the influx of magnesium into the mitochondrial matrix. Synonyms: HPT; MRS2L Note: Immunogen Sequence Homology: Pig: 100%; Rat: 100%; Horse: 100%; Human: 100%; Mouse: 100%; Bovine: 100%; Dog: 93%; Goat: 93%; Rabbit: 93%; Guinea pig: 93% This product is to be used for laboratory only. Not for diagnostic or therapeutic use. View online » ©2021 OriGene Technologies, Inc., 9620 Medical Center Drive, Ste 200, Rockville, MD 20850, US 1 / 2 MRS2 Rabbit Polyclonal Antibody – TA338429 Protein Families: Transcription Factors, Transmembrane Product images: WB Suggested Anti-MRS2 Antibody Titration: 0.2- 1 ug/ml; ELISA Titer: 1: 312500; Positive Control: PANC1 cell lysate This product is to be used for laboratory only. -
MRS2L CRISPR/Cas9 KO Plasmid (M): Sc-436212
SANTA CRUZ BIOTECHNOLOGY, INC. MRS2L CRISPR/Cas9 KO Plasmid (m): sc-436212 BACKGROUND APPLICATIONS The clustered regularly interspaced short palindromic repeats (CRISPR) and MRS2L CRISPR/Cas9 KO Plasmid (m) is recommended for the disruption of CRISPR-associated protein (Cas9) system is an adaptive immune response gene expression in mouse cells. defense mechanism used by archea and bacteria for the degradation of foreign genetic material (4,6). This mechanism can be repurposed for other 20 nt non-coding RNA sequence: guides Cas9 functions, including genomic engineering for mammalian systems, such as to a specific target location in the genomic DNA gene knockout (KO) (1,2,3,5). CRISPR/Cas9 KO plasmid products enable the U6 promoter: drives gRNA scaffold: helps Cas9 identification and cleavage of specific genes by utilizing guide RNA (gRNA) expression of gRNA bind to target DNA sequences derived from the genome-scale CRISPR knock-out (GeCKO) v2 library developed in the Zhang Laboratory at the Broad Institute (3,5). Termination signal Green Fluorescent Protein: to visually REFERENCES verify transfection CRISPR/Cas9 Knockout Plasmid CBh (chicken β-Actin 1. Cong, L., et al. 2013. Multiplex genome engineering using CRISPR/Cas hybrid) promoter: drives systems. Science 339: 819-823. 2A peptide: expression of Cas9 allows production of both Cas9 and GFP from the 2. Mali, P., et al. 2013. RNA-guided human genome engineering via Cas9. same CBh promoter Science 339: 823-826. Nuclear localization signal 3. Ran, F.A., et al. 2013. Genome engineering using the CRISPR-Cas9 system. Nuclear localization signal SpCas9 ribonuclease Nat. Protoc. 8: 2281-2308. -
Comparative Gene Expression Analysis to Identify Common Factors in Multiple Cancers
COMPARATIVE GENE EXPRESSION ANALYSIS TO IDENTIFY COMMON FACTORS IN MULTIPLE CANCERS DISSERTATION Presented in Partial Fulfillment of the Requirements for the Degree Doctor of Philosophy in the Graduate School of The Ohio State University By Leszek A. Rybaczyk, B.A. ***** The Ohio State University 2008 Dissertation Committee: Professor Kun Huang, Adviser Professor Jeffery Kuret Approved by Professor Randy Nelson Professor Daniel Janies ------------------------------------------- Adviser Integrated Biomedical Science Graduate Program ABSTRACT Most current cancer research is focused on tissue-specific genetic mutations. Familial inheritance (e.g., APC in colon cancer), genetic mutation (e.g., p53), and overexpression of growth receptors (e.g., Her2-neu in breast cancer) can potentially lead to aberrant replication of a cell. Studies of these changes provide tremendous information about tissue-specific effects but are less informative about common changes that occur in multiple tissues. The similarity in the behavior of cancers from different organ systems and species suggests that a pervasive mechanism drives carcinogenesis, regardless of the specific tissue or species. In order to detect this mechanism, I applied three tiers of analysis at different levels: hypothesis testing on individual pathways to identify significant expression changes within each dataset, intersection of results between different datasets to find common themes across experiments, and Pearson correlations between individual genes to identify correlated genes within each dataset. By comparing a variety of cancers from different tissues and species, I was able to separate tissue and species specific effects from cancer specific effects. I found that downregulation of Monoamine Oxidase A is an indicator of this pervasive mechanism and can potentially be used to detect pathways and functions related to the initiation, promotion, and progression of cancer.