DOCSLIB.ORG

Kojak: Pipeline Developments and New Features for the Analysis Of

Total Page：16

File Type：pdf, Size：1020Kb

Download full-text PDF Read full-text
Kojak: Pipeline Developments and New Features for the Analysis Of Quantifying Proteomes Using the Open- source Trans-Proteomic Pipeline Michael Hoopmann Jason Winget Luis Mendoza Robert Moritz Shotgun Mass Spectrometry Sample Instrument Discovery Mass Spectrometer Digestion / Spectra Separation Data (HPLC) Analysis More Detailed Look at Shotgun Data Analysis 1 2 3 4 Data Conversion Spectrum ID Validation Protein Inference Identification 5 6 7 Quantification Visualization Dissemination The Trans-Proteomic Pipeline (aka The TPP) Raw Mass Spec Peptide Peptide Validation Quantitation Protein Assignment Protein List Data Identification Comet PeptideProphet ASAPRatio X!Tandem SBEAMS SpectraST XPRESS msconvert iProphet ProteinProphet Kojak Libra SEQUEST* ProteoGrapher PTMProphet Mascot* StPeter mzML pepXML protXML . Simple set of input/outputs readable by all tools. Modular flow – can swap algorithms into and out of pipeline. Expandable – can add or remove tools as necessary. Simple GUI – Operates in a web browser, multi-platform. Versatility of The TPP Instrument Vendor & 3rd Data From Major Party Vendors Applications Data Cloud Open, TPP Applications Data Standardized Converters Formats Search Validate Infer Quant. mzML mzXML Publish The Trans- mzIdentML Multi-Platform Web Interface pepXML Proteomic Create protXML Visualize Organize Pipeline Suite More! Reports of Software The Trans-Proteomic Pipeline . MultipleAll tools accessibleuser accounts.from drop -down menu interface. Maintain . independentInterface has a few projectscommon and pipelines data storage.pre-built. The Trans-Proteomic Pipeline . All stages of pipeline accessible at any time, ordered for optimal performance. Stages allow for customization. Applications within pipeline can be re-run with different parameters to refine analyses. The Trans-Proteomic Pipeline StPeter: An application for label-free quantitation StPeter – Label-free Quantitation in The TPP . Historically, quantitation in the TPP focused on labeled Quantitation methods. Label-free methods are often ASAPRatio less work at the bench. Labeled XPRESS methods, e.g. More recently, label-free Libra iTRAQ & SILAC approaches have become more robust. StPeter New! Label-free! . StPeter is a new tool in the TPP for label-free quantitation. StPeter: MS/MS-based Quantitation Spectral Counting . Contains multiple MS/MS counting-centric methods. Produces relative protein quantitation within a sample. All results are normalized to facilitate comparisons across samples. StPeter: The NSAF Model Small proteins produce fewer distinct peptide molecules. Normalized Spectral Abundance Factor (NSAF) Large proteins produce many distinct peptides, appearing more abundant by total MS/MS count. Contains two normalizations: . Protein length . Sample-to-sample variation Zybailov, B.; Mosley, A. L.; Sardiu, M. E.; Coleman, M. K.; Florens, L.; Washburn, M. P. J. Proteome Res. 2006, 5, 2339–2347. StPeter: The SIN Model . Spectral counts are integral. i.e. a scan from a low abundance SI adds fragment N peptide has equal weight as a scan ion intensity to NSAF. from a high abundance peptide. Normalized Spectral Index (SIN) incorporates MS/MS peak height. More abundant peptides produce 푆푝퐶 more abundant fragment ion peaks. 푛=1 푖푛 푆퐼푁 = / 퐿 푁 ( 푆푝퐶 푖 ) 푗=1 푛=1 푛 푗 Where i is the summed intensities of fragment ions. Griffin NM, et al. Nat Biotechnol. 2010 Jan;28(1):83-9 StPeter: The Distributed NSAF (dNSAF) Model . Modifies the NSAF model to Protein Protein account for shared peptides. A B . i.e. peptides that map to multiple protein sequences. Utilizes the fraction of non-shared peptides to split the spectral counts 2 shared SpC of the shared peptides. 5 unique SpC 2 unique SpC Distributed SpC = 6.4 Distributed SpC = 2.6 Zhang Y, et al. Anal Chem. 2010 Mar 15;82(6):2272-81 StPeter: The Distributed SIN (dSIN) Model . Modifies the SIN model to account for shared peptides. i.e. peptides that map to multiple 푛 protein sequences. 푑푆퐼푁 = 푑푆퐼/ 푑푆퐼푗 /퐿 . Utilizes the fraction of non-shared 푗=1 peptides to split the spectral counts Hoopmann MR, Winget JM, Mendoza L, Moritz RL. J Proteome of the shared peptides. Res. 2018 Mar 2;17(3):1314-1320. Modernizes spectral index analysis with the methods optimized for dNSAF. Adding Quantitation to the Pipeline . Designed to be seamlessly Spectral integrated into existing TPP Search Pipelines. ID Validation . Execution is FAST – typically seconds to a few minutes. Protein Inference . Cassette model ensures addition StPeter or removal without disrupting the pipeline. Visualization How StPeter Works Output is the same format as input, with protein quantities appended; protXML Downstream tools operate the same. Read pepXML Add fragment ions Protein to spectral index Passes yes Read Extract PSM list More yes Extract FDR? Peptide List from pepXML PSMs? Spectrum no no yes More mzML / Proteins? mzXML no Export Spectral Normalize Indexes Spectral Indexes A look at StPeter in action. The Distributed Models 10 pmol 4 pmol 1.6 pmol • Mix six homologous 0.63 pmol albumins in a constant 0.25 pmol 0.1 pmol yeast background. • Acquire 12 replicate injections on an LTQ. Zhang Y, et al. Anal Chem. 2010 Mar 15;82(6):2272-81 Cow Rat Human Rabbit Mouse Pig The Distributed Models dNSAF dSIN . All spectra are used, -5 -12 -13 including identifications to -6 -14 ) multiple proteins. -7 N -15 dSI -16 -8 -17 -9 Log2 ( -18 . Quantitation maintains (dNSAF)Log2 -19 -10 R² = 0.9719 linearity over 3 orders of -20 R² = 0.9871 magnitude. -11 -21 -4 -2 0 2 4 -4 -2 0 2 4 Log2 (Protein Quantity, pmol) Log2 (Protein Quantity, pmol) Quantifying Proteomes Cox J, et al. Mol Cell Proteomics. 2014 Sep;13(9):2513-26 . Create two conditions: . 60 µg HeLa + 10 µg E. coli . 60 µg HeLa + 30 µg E. coli . 24 OFFGEL fractions, analyzed in triplicate (3x) on LTQ-Orbitrap . Total of 144 data files . Approximately 1 million spectra used for quantitation . Compare ratios for every protein observed in 2 of 3 replicates in both conditions. Over 5000 proteins Artifacts of Spectral Counts Decreased accuracy Tracks of discrete at low quantities due quantities due to to limited number of single MS/MS protein spectra per protein. representation. Cox J, et al. Mol Cell Proteomics. 2014 Sep;13(9):2513-26 StPeter Analysis of Proteomes dNSAF dSI -6 N . E.coli proteome ratio -16 Human much closer to 1:3 than Human -10 E. coli spectral counting alone. E. coli -20 ) N -14 . Protein distributions -24 Log2(dSI show lower standard Log2(dNSAF) -18 deviation. -28 -22 -32 . Fewer artifacts among -2 0 2 4 -2 0 2 4 low abundance Log2(ratio) Log2(ratio) proteins. -0.56 -0.60 σ=0.60 1.68 1.73 σ=0.55 1.08 1.17 σ=0.69 σ=0.72 Relative Relative frequencies Relative frequencies -4 -2 0 2 4 6 -4 -2 0 2 4 6 Log2(ratio) Log2(ratio) Comparison to Other Methods dSIN -16 Human . Comparison to precursor ion E. coli analysis (MS signals). -20 ) N -24 . Nearly identical protein ratios. Log2(dSI -28 -32 . Protein distributions similar, -2 0 2 4 slightly better accuracy with MS Log2(ratio) signal analysis. -0.56 σ=0.60 1.73 1.17 σ=0.72 Relative Relative frequencies -4 -2 0 2 4 6 Log2(ratio) StPeter in The TPP Running StPeter in The TPP . Select one or more protein inference data sets. Batch Analysis! . Set parameters in a simple user interface . Analysis typically takes seconds to a few minutes. Visualizing StPeter Results Protein Descriptions Search Results & Statistics Quantities Visualizing StPeter Results . Tabbed windows allow for filtering and sorting. Extract only quantified proteins. Sort results. Expand protein details to the peptide level. Summary . The Trans-Proteomic Pipeline is a free, open-source suite of tools for shotgun MS data analysis. The TPP is multi-platform, modular, and supports open formats, enabling integration with major platforms and 3rd party solutions. StPeter offers fast, label-free quantitation of entire proteomes analyzed using shotgun MS. https://tppms.org Acknowledgements Moritz Lab (circa 2015) Robert Moritz Eric Deutsch Luis Mendoza David Shteynberg Jason Winget Funding Sources: 2P50 GM076547/Center for Systems Biology R01 GM087221 HL133135 .
Load more

Recommended publications
  • Kojaks Polizeistation in Neuem Glanz Im Juni 2007 Wurde Das Historische Gebäude Des 9
    NEW YORK POLICE DEPARTMENT 9. Polizeirevier in New York: Kojaks „Stammdienststelle“. Kojaks Polizeistation in neuem Glanz Im Juni 2007 wurde das historische Gebäude des 9. Polizeireviers in New York wieder eröffnet. Der Drehort bekannter Filme und TV-Serien ist damit zurück im Stadtbild von Manhattan. mposante, von strahlenförmig ge- Bezeichnung 9. Revier in Film und die beengten Räume und die rege Ge- mauerten Betonsteinen umgebene Fernsehen nicht verwendet“, erklärt schäftigkeit im Revier fast immer in ITorbögen, grüne Laternen, Orna- Police Officer Andrew Beirne, ein Studios verlegt; in einzelnen Filmpro- mente auf der hellgrauen Fassade: Das langjähriger Rayonspolizist in diesem duktionen sind jedoch auch Original- fast hundertjährige Gebäude des 9. Re- Bezirk. „In der Serie NYPD Blue hat bilder aus dem Precinct zu sehen. viers (9th Precinct) des New York Poli- man zum Beispiel daraus das 15. Re- ce Department (NYPD) im südlichen vier gemacht, da die Station im letzten 25-Millionen-Dollar-Projekt. Als im Manhattan war über Jahrzehnte das Jahrhundert diese Bezeichnung getra- Jahr 2002 die Polizeiinspektion wegen wahrscheinlich am meisten gefilmte gen hatte, vor einer großen Umnumme- der Baufälligkeit des 1912 errichteten Polizeigebäude der Stadt. rierung aller Polizeidienststellen in der Gebäudes ihre Pforten schloss, war die Regisseure von Kriminalfilmen und Stadt.“ Innenaufnahmen wurden durch Zukunft des legendären Polizeibaus Fernsehserien griffen immer wieder unklar. Die Beamten des 9. Reviers auf das Flair des 9th Precinct zurück, übersiedelten in ein modernes Amts- das bei Zusehern und Filmemachern haus an der Avenue C, das auch andere zum Synonym für eine New Yorker Polizeieinheiten verwendeten; 2003 be- Polizeiwache wurde. Lange arbeitete gann man mit dem Abriss der Station.
    [Show full text]
  • Gene Kearney Papers, 1932-1979 (Collection PASC.207)
    http://oac.cdlib.org/findaid/ark:/13030/kt7d5nf5r2 No online items Finding Aid for the Gene Kearney Papers, 1932-1979 (Collection PASC.207) Finding aid prepared by J. Vera and J. Graham; machine-readable finding aid created by Caroline Cubé. UCLA Library Special Collections Room A1713, Charles E. Young Research Library Box 951575 Los Angeles, CA, 90095-1575 (310) 825-4988 [email protected] © 2001 The Regents of the University of California. All rights reserved. Finding Aid for the Gene Kearney PASC.207 1 Papers, 1932-1979 (Collection PASC.207) Title: Gene Kearney papers Collection number: PASC.207 Contributing Institution: UCLA Library Special Collections Language of Material: English Physical Description: 7.5 linear ft.(15 boxes.) Date (inclusive): 1932-1979 Abstract: Gene Kearney was a writer, director, producer, and actor in various television programs and motion pictures. Collection consists of scripts, production information and clippings related to his career. Language of Materials: Materials are in English. Physical Location: Stored off-site at SRLF. Advance notice is required for access to the collection. Please contact the UCLA Library Special Collections Reference Desk for paging information. Creator: Kearney, Gene R Restrictions on Access COLLECTION STORED OFF-SITE AT SRLF: Open for research. Advance notice required for access. Contact the UCLA Library Special Collections Reference Desk for paging information. Portions of this collection are restricted. Consult finding aid for additional information. Restrictions on Use and Reproduction Property rights to the physical object belong to the UCLA Library Special Collections. Literary rights, including copyright, are retained by the creators and their heirs.
    [Show full text]
  • As Writers of Film and Television and Members of the Writers Guild Of
    July 20, 2021 As writers of film and television and members of the Writers Guild of America, East and Writers Guild of America West, we understand the critical importance of a union contract. We are proud to stand in support of the editorial staff at MSNBC who have chosen to organize with the Writers Guild of America, East. We welcome you to the Guild and the labor movement. We encourage everyone to vote YES in the upcoming election so you can get to the bargaining table to have a say in your future. We work in scripted television and film, including many projects produced by NBC Universal. Through our union membership we have been able to negotiate fair compensation, excellent benefits, and basic fairness at work—all of which are enshrined in our union contract. We are ready to support you in your effort to do the same. We’re all in this together. Vote Union YES! In solidarity and support, Megan Abbott (THE DEUCE) John Aboud (HOME ECONOMICS) Daniel Abraham (THE EXPANSE) David Abramowitz (CAGNEY AND LACEY; HIGHLANDER; DAUGHTER OF THE STREETS) Jay Abramowitz (FULL HOUSE; MR. BELVEDERE; THE PARKERS) Gayle Abrams (FASIER; GILMORE GIRLS; 8 SIMPLE RULES) Kristen Acimovic (THE OPPOSITION WITH JORDAN KLEEPER) Peter Ackerman (THINGS YOU SHOULDN'T SAY PAST MIDNIGHT; ICE AGE; THE AMERICANS) Joan Ackermann (ARLISS) 1 Ilunga Adell (SANFORD & SON; WATCH YOUR MOUTH; MY BROTHER & ME) Dayo Adesokan (SUPERSTORE; YOUNG & HUNGRY; DOWNWARD DOG) Jonathan Adler (THE TONIGHT SHOW STARRING JIMMY FALLON) Erik Agard (THE CHASE) Zaike Airey (SWEET TOOTH) Rory Albanese (THE DAILY SHOW WITH JON STEWART; THE NIGHTLY SHOW WITH LARRY WILMORE) Chris Albers (LATE NIGHT WITH CONAN O'BRIEN; BORGIA) Lisa Albert (MAD MEN; HALT AND CATCH FIRE; UNREAL) Jerome Albrecht (THE LOVE BOAT) Georgianna Aldaco (MIRACLE WORKERS) Robert Alden (STREETWALKIN') Richard Alfieri (SIX DANCE LESSONS IN SIX WEEKS) Stephanie Allain (DEAR WHITE PEOPLE) A.C.
    [Show full text]
  • The Sinking Man Richard A
    Iowa State University Capstones, Theses and Retrospective Theses and Dissertations Dissertations 1990 The sinking man Richard A. Malloy Iowa State University Follow this and additional works at: https://lib.dr.iastate.edu/rtd Part of the Fiction Commons, Literature in English, North America Commons, and the Poetry Commons Recommended Citation Malloy, Richard A., "The sinking man" (1990). Retrospective Theses and Dissertations. 134. https://lib.dr.iastate.edu/rtd/134 This Thesis is brought to you for free and open access by the Iowa State University Capstones, Theses and Dissertations at Iowa State University Digital Repository. It has been accepted for inclusion in Retrospective Theses and Dissertations by an authorized administrator of Iowa State University Digital Repository. For more information, please contact [email protected]. The sinking man by Richard Alan Malloy A Thesis Submitted to the Graduate Faculty in Partial Fulfillment of the Requirements for the Degree of MASTER OF ARTS Major: English Approved: Signature redacted for privacy Signature redacted for privacy Signature redacted for privacy For the Graduate College Iowa State University Ames, Iowa 1990 Copyright @ Richard Alan Malloy, 19 9 0. All rights reserved. ----~---- -~--- -- ii TABLE OF CONTENTS page CATERPILLARS 1 ONE ACRE FARM 7 CLIFFS 11 DUMPS 14 DOWN OUT OF UP 21 THE GIVER 22 TWELVE-PACK JUNKER 36 RELUCTANT SHOOTER 45 TAR YARD 50 IDLE AFTER HOURS AT MY DESK 57 SOMETHING UNDER MY FOOT 59 WINNOCK 61 PALE MEADOW 66 NOBILITY 76 THE SINKING MAN 78 DUMBBELLS 84 A LATE SHARED VISION 90 THE COMMITMENT 92 1 CATERPILLARS Bill kneaded the thin skin over his sternum.
    [Show full text]
  • ': the Making and Mauling of Churchill's People (BBC1, 1974-75)
    Williams J, Greaves I. ‘Must We Wait 'til Doomsday?’: The Making and Mauling of Churchill's People (BBC1, 1974-75). Historical Journal of Film, Radio and Television 2017, 37(1), 82-95 Copyright: This is an Accepted Manuscript of an article published by Taylor & Francis in Historical Journal of Film, Radio and Television on 19th April 2017, available online: http://www.tandfonline.com/10.1080/01439685.2016.1272804 DOI link to article: http://dx.doi.org/10.1080/01439685.2016.1272804 Date deposited: 31/12/2016 Embargo release date: 19 October 2018 This work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International licence Newcastle University ePrints - eprint.ncl.ac.uk ‘MUST WE WAIT 'TIL DOOMSDAY?’: THE MAKING AND MAULING OF CHURCHILL’S PEOPLE (BBC1, 1974-75) Ian Greaves and John Williams Correspondence: John Williams, 12 Queens Road, Whitley Bay NE26 3BJ, UK. E-mail: [email protected] In 1974, the lofty ambition of a BBC drama producer to manufacture a ‘prestige’ international hit along the lines of Elizabeth R (BBC2, 1971) came unstuck. In this case study, the authors consider the plight of Churchill’s People (BBC1, 1974-75) during a time of economic strife in the UK and industrial unrest at the BBC, and ask how a series which combined so many skilled writers, directors and actors could result in such a poorly-received end product. Churchill’s People is also placed in a wider context to assess its ‘neglected’ status, the authors drawing parallels with other historical drama of the era. The series’ qualification for being ‘forgotten’ is considered in relation to its struggle in the ratings against strong competition, the ‘blacking out’ by unions of production at the BBC for eight weeks and the subsequent pressures on transmission times, prompting the authors’ consideration of a more qualified definition of ‘lost’ drama, i.e.
    [Show full text]
  • University Microfilms International 300 N
    EXPLORATION OF AGENDA-SETTING IN THE NEWS MAGAZINE "60 MINUTES". Item Type text; Thesis-Reproduction (electronic) Authors Beal, Martha Bovard. Publisher The University of Arizona. Rights Copyright © is held by the author. Digital access to this material is made possible by the University Libraries, University of Arizona. Further transmission, reproduction or presentation (such as public display or performance) of protected items is prohibited except with permission of the author. Download date 07/10/2021 10:28:49 Link to Item http://hdl.handle.net/10150/274772 INFORMATION TO USERS This reproduction was made from a copy of a document sent to us for microfilming. While the most advanced technology has been used to photograph and reproduce this document, the quality of the reproduction is heavily dependent upon the quality of the material submitted. The following explanation of techniques is provided to help clarify markings or notations which may appear on this reproduction. 1. The sign or "target" for pages apparently lacking from the document photographed is "Missing Page(s)". If it was possible to obtain the missing page(s) or section, they are spliced into the film along with adjacent pages. This may have necessitated cutting through an image and duplicating adjacent pages to assure complete continuity. 2. When an image on the film is obliterated with a round black mark, it is an indication of either blurred copy because of movement during exposure, duplicate copy, or copyrighted materials that should not have been filmed. For blurred pages, a good image of the page can be found in the adjacent frame.
    [Show full text]
  • KOJAK Encodes a Cellulose Synthase-Like Protein Required for Root Hair Cell Morphogenesis in Arabidopsis
    Downloaded from genesdev.cshlp.org on September 30, 2021 - Published by Cold Spring Harbor Laboratory Press KOJAK encodes a cellulose synthase-like protein required for root hair cell morphogenesis in Arabidopsis Bruno Favery,1,2,4 Eoin Ryan,1,3,4 Julia Foreman,1 Paul Linstead,1 Kurt Boudonck,1 Martin Steer,3 Peter Shaw,1 and Liam Dolan1,5 1Department of Cell Biology, John Innes Centre, Norwich, NR4 7UH, UK; 2INRA, Unite´ Sante´Ve´ge´tale et Environnement, 06600 Antibes, France; 3Botany Department, University College, Belfield, Dublin 4, Ireland The cell wall is an important determinant of plant cell form. Here we define a class of Arabidopsis root hair mutants with defective cell walls. Plants homozygous for kojak (kjk) mutations initiate root hairs that rupture at their tip soon after initiation. The KJK gene was isolated by positional cloning, and its identity was confirmed by the molecular complementation of the Kjk− phenotype and the sequence of three kjk mutant alleles. KOJAK encodes a cellulose synthase-like protein, AtCSLD3. KOJAK/AtCSLD3 is the first member of this subfamily of proteins to be shown to have a function in cell growth. Subcellular localization of the KOJAK/AtCSLD3 protein using a GFP fusion shows that KOJAK/AtCSLD3 is located on the endoplasmic reticulum, indicating that KOJAK/AtCSLD3 is required for the synthesis of a noncellulosic wall polysaccharide. Consistent with the cell specific defect in the roots of kjk mutants, KOJAK/AtCSDL3 is preferentially expressed in hair cells of the epidermis. The Kjk− phenotype and the pattern of KOJAK/ AtCSLD3 expression suggest that this gene acts early in the process of root hair outgrowth.
    [Show full text]
  • Moving the Work of Criminal Investigators Towards Crime Control Anthony A
    New Perspectives in Policing M A R C H 2 0 1 1 National Institute of Justice Moving the Work of Criminal Investigators Towards Crime Control Anthony A. Braga, Edward A. Flynn, George L. Kelling and Christine M. Cole In many fundamental respects, the investigation Executive Session on Policing and process, though showing some advances, seems Public Safety to have been relatively uninfluenced by signifi­ This is one in a series of papers that will be pub­ cant changes in policing, the crime problem and lished as a result of the Executive Session on technological advances made in the past thirty Policing and Public Safety. years. In the main, it is our view that progress Harvard’s Executive Sessions are a convening in police criminal investigation efforts remains of individuals of independent standing who take joint responsibility for rethinking and improving largely isolated from broader police efforts to society’s responses to an issue. Members are respond more effectively, more efficiently, and selected based on their experiences, their repu­ more resolutely to the crime problem in general. tation for thoughtfulness and their potential for helping to disseminate the work of the Session. — Horvath, Meesig and Lee, In the early 1980s, an Executive Session on Policing National Survey of Police Policies and Practices helped resolve many law enforcement issues of Regarding the Criminal Investigations Process: the day. It produced a number of papers and concepts that revolutionized policing. Thirty years Twenty-Five Years After Rand (2001:5). later, law enforcement has changed and NIJ and Harvard’s Kennedy School of Government are Introduction again collaborating to help resolve law enforce­ ment issues of the day.
    [Show full text]
  • Cagney and Lacey: Negotiating the Controversial in Popular Television
    DOCUMENT RESUME ED 293 518 IR 013 042 AUTHOR Hillier, Jim TITLE Cagney and Lacey: Negotiating the Controversial in Popular Television. PUB DATE Jul 86 NOTE 30p.; Paper presented at the International Television Studies Conference (London, England, July 10-12, 1986). PUB TYPE Reports - Evaluative/Feasibility (142) -- Speeches /Conference Papers (150) EDRS PRICE MF01/PCO2 Plus Postage. DESCRIPTORS Commercial Television; Conflict; *Content Analysis; *Females; *Feminism; Individual Differences; *Police; *Programing (Broadcast); *Social Problems; Television Research IDENTIFIERS *United States ABSTRACT This paper discusses some of the ways in which the commitment of the television series Cagney and Lacey to the examination of often controversial social issues from liberal or progressive standpoints--especially issues associated with the women's movement--is worked through in narrative practice. The origins and development of the series are described, as well as its position in a long line of television crime/detective stories and the character portrayals of the two women detectives. Several of the episodes are then reviewed to analyze ways in which Cagney and Lacey negotiate controversies such as ethnic disadvantage, the vulnerability of illegal immigrants, class differences, latchkey children, and various feminist issues, including abortion. It is concluded that the series must be regarded as progressive in that it succeeds in promoting openness and awareness of socially controversial situations with considerable explicit commitment to its
    [Show full text]
  • UC Irvine Electronic Theses and Dissertations
    UC Irvine UC Irvine Electronic Theses and Dissertations Title Queering and Qualifying the Wasteland: Network Television, Awards Discourse, and Gay Legitimation in Primetime from 1971-1995 Permalink https://escholarship.org/uc/item/0576m18j Author Kruger-Robbins, Benjamin Publication Date 2019 Peer reviewed|Thesis/dissertation eScholarship.org Powered by the California Digital Library University of California UNIVERSITY OF CALIFORNIA, IRVINE Queering and Qualifying the Wasteland: Network Television, Awards Discourse, and Gay Legitimation in Primetime from 1971-1995 DISSERTATION submitted in partial satisfaction of the requirements for the degree of DOCTOR OF PHILOSOPHY in Visual Studies by Benjamin Kruger-Robbins Dissertation Committee: Associate Professor Victoria E. Johnson, Chair Associate Professor Allison Perlman Professor Jennifer Terry © 2019 Benjamin Kruger-Robbins TABLE OF CONTENTS Page LIST OF FIGURES iii ACKNOWLEDGMENTS v CURRICULUM VITAE vi ABSTRACT OF THE DISSERTATION x INTRODUCTION: GAY UPLIFT FROM THE TELEVISION WASTELAND 1 Taste Cultures and Media Pedagogy 3 Historicizing Quality TV 16 Chapter Summaries 25 CHAPTER 1: AWARDS DISCOURSE AND HISTORIES OF QUALIFICATION 33 The Emmys and Industrial Standards 34 The Golden Globes: Misfit Journalists and Queer Selections 48 The Peabody’s Academic Shifts 57 Conclusion: GLAAD, From Watchdog to Lapdog 66 CHAPTER 2: SUPERIOR PRODUCTIONS ON SENSITIVE TOPICS – ELEVATING 70 1970S GAY PROGRAMMING Mainstreaming Homosexuality in Early 1970s Urban Spheres 72 Dawn of 1970s “Relevance” Programming:
    [Show full text]
  • The KOJAK Group Finder: Connecting the Dots Via Integrated Knowledge-Based and Statistical Reasoning
    The KOJAK Group Finder: Connecting the Dots via Integrated Knowledge-Based and Statistical Reasoning Jafar Adibi, Hans Chalupsky, Eric Melz and Andre Valente USC Information Sciences Institute 4676 Admiralty Way, Marina del Rey, CA 90292 Email: {adibi, hans, melz, valente}@isi.edu Abstract Link discovery presents a variety of difficult challenges. Link discovery is a new challenge in data mining whose First, data ranges from highly unstructured sources such as primary concerns are to identify strong links and discover reports, news stories, etc. to highly structured sources such hidden relationships among entities and organizations based as traditional relational databases. Unstructured sources on low-level, incomplete and noisy evidence data. To need to be preprocessed first either manually or via natural address this challenge, we are developing a hybrid link language extraction methods before they can be used by discovery system called KOJAK that combines state-of-the- LD methods. Second, data is complex, multi-relational art knowledge representation and reasoning (KR&R) and contains many mostly irrelevant connections technology with statistical clustering and analysis techniques from the area of data mining. In this paper we (connectivity curse). Third, data is noisy, incomplete, report on the architecture and technology of its first fully corrupted and full of unaligned aliases. Finally, relevant completed module called the KOJAK Group Finder. The data sources are heterogeneous, distributed and can be very Group Finder is capable
    [Show full text]
  • THE JOURNAL CROSSWORD Edited by Mike Shenk
    THE JOURNAL CROSSWORD Edited by Mike Shenk 123456789101112131415161718 53 Skye of “River’s Edge” 19 20 21 54 Brand whose logo features 22 23 24 three peaks 25 26 27 28 55 West End venue 58 Country music? 29 30 31 32 33 34 59 Ward of TV’s 35 36 37 38 “Sisters” 63 Cover, in a way 39 40 41 42 43 44 45 46 47 48 64 Piglike mammal 49 50 51 52 53 54 55 66 Military address 67 Brushed-on layer 56 57 58 59 60 61 68 As soon as 62 63 64 65 66 67 68 69 70 71 Take it easy 72 “___, Pagliacco” 71 72 73 74 (“Laugh, clown”) 75 76 77 78 73 Fabled loser 74 Grow choppers 79 80 81 82 83 84 85 86 75 Punjabi prince 87 88 89 90 91 92 93 94 81 Jane Goodall subject 95 96 97 98 99 100 83 Ernie Banks nickname 101 102 103 104 105 106 107 85 Sign of summer 108 109 110 111 112 113 114 115 116 86 Do some sums 88 Mount that 117 118 119 erupted in 1883 120 121 122 123 124 125 126 89 Hollow pastry 90 Creator of Perry, 127 128 129 Della and Paul 130 131 132 91 Down Under denizen, informally 93 Res ___ Ioquitur Definitely Defined | by George Barany & David Steinberg 94 Cover, in a way 97 Evening wear Across 61 Org. that gives 118 “60 Minutes” 18 Cousin of 98 Arcade game belts to givers of correspondent culottes pioneer 1 Butterflies named belts Logan for a Greek god 22 Chinese tea 102 Mount that 62 Take it easy 119 Cagney movie 23 No-contest erupted in 1980 8 Advice to a “Each Dawn ___” hothead 65 “Oedipe” composer contests 103 Stress test letters Georges 120 “À votre ___!” 14 Pompous people 28 Clear sky 104 Meat, to vegans 69 Minor criticism 121 What Thoreau and 19 Aesthetic
    [Show full text]