Literature DB >> 24441472

Computational resources for high-dimensional immune analysis from the Human Immunology Project Consortium.

Vladimir Brusic, Raphael Gottardo, Steven H Kleinstein, Mark M Davis.   

Abstract

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Year:  2014        PMID： 24441472      PMCID： PMC4294529          DOI： 10.1038/nbt.2777

Source DB:  PubMed          Journal:  Nat Biotechnol        ISSN： 1087-0156            Impact factor:   54.908


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  17 in total

1.  Minimum information about a microarray experiment (MIAME)-toward standards for microarray data.

Authors:  A Brazma; P Hingamp; J Quackenbush; G Sherlock; P Spellman; C Stoeckert; J Aach; W Ansorge; C A Ball; H C Causton; T Gaasterland; P Glenisson; F C Holstege; I F Kim; V Markowitz; J C Matese; H Parkinson; A Robinson; U Sarkans; S Schulze-Kremer; J Stewart; R Taylor; J Vilo; M Vingron
Journal:  Nat Genet       Date:  2001-12       Impact factor: 38.330

2.  Automated gating of flow cytometry data via robust model-based clustering.

Authors:  Kenneth Lo; Ryan Remy Brinkman; Raphael Gottardo
Journal:  Cytometry A       Date:  2008-04       Impact factor: 4.355

3.  MIFlowCyt: the minimum information about a Flow Cytometry Experiment.

Authors:  Jamie A Lee; Josef Spidlen; Keith Boyce; Jennifer Cai; Nicholas Crosbie; Mark Dalphin; Jeff Furlong; Maura Gasparetto; Michael Goldberg; Elizabeth M Goralczyk; Bill Hyun; Kirstin Jansen; Tobias Kollmann; Megan Kong; Robert Leif; Shannon McWeeney; Thomas D Moloshok; Wayne Moore; Garry Nolan; John Nolan; Janko Nikolich-Zugich; David Parrish; Barclay Purcell; Yu Qian; Biruntha Selvaraj; Clayton Smith; Olga Tchuvatkina; Anne Wertheimer; Peter Wilkinson; Christopher Wilson; James Wood; Robert Zigon; Richard H Scheuermann; Ryan R Brinkman
Journal:  Cytometry A       Date:  2008-10       Impact factor: 4.355

4.  Cytometry by time-of-flight shows combinatorial cytokine expression and virus-specific cell niches within a continuum of CD8+ T cell phenotypes.

Authors:  Evan W Newell; Natalia Sigal; Sean C Bendall; Garry P Nolan; Mark M Davis
Journal:  Immunity       Date:  2012-01-27       Impact factor: 31.745

Review 5.  Standardizing immunophenotyping for the Human Immunology Project.

Authors:  Holden T Maecker; J Philip McCoy; Robert Nussenblatt
Journal:  Nat Rev Immunol       Date:  2012-02-17       Impact factor: 53.106

6.  A unified framework for biomedical terminologies and ontologies.

Authors:  Werner Ceusters; Barry Smith
Journal:  Stud Health Technol Inform       Date:  2010

7.  Promoting coherent minimum reporting guidelines for biological and biomedical investigations: the MIBBI project.

Authors:  Chris F Taylor; Dawn Field; Susanna-Assunta Sansone; Jan Aerts; Rolf Apweiler; Michael Ashburner; Catherine A Ball; Pierre-Alain Binz; Molly Bogue; Tim Booth; Alvis Brazma; Ryan R Brinkman; Adam Michael Clark; Eric W Deutsch; Oliver Fiehn; Jennifer Fostel; Peter Ghazal; Frank Gibson; Tanya Gray; Graeme Grimes; John M Hancock; Nigel W Hardy; Henning Hermjakob; Randall K Julian; Matthew Kane; Carsten Kettner; Christopher Kinsinger; Eugene Kolker; Martin Kuiper; Nicolas Le Novère; Jim Leebens-Mack; Suzanna E Lewis; Phillip Lord; Ann-Marie Mallon; Nishanth Marthandan; Hiroshi Masuya; Ruth McNally; Alexander Mehrle; Norman Morrison; Sandra Orchard; John Quackenbush; James M Reecy; Donald G Robertson; Philippe Rocca-Serra; Henry Rodriguez; Heiko Rosenfelder; Javier Santoyo-Lopez; Richard H Scheuermann; Daniel Schober; Barry Smith; Jason Snape; Christian J Stoeckert; Keith Tipton; Peter Sterk; Andreas Untergasser; Jo Vandesompele; Stefan Wiemann
Journal:  Nat Biotechnol       Date:  2008-08       Impact factor: 54.908

8.  Molecular detection of targeted major histocompatibility complex I-bound peptides using a probabilistic measure and nanospray MS3 on a hybrid quadrupole-linear ion trap.

Authors:  Bruce Reinhold; Derin B Keskin; Ellis L Reinherz
Journal:  Anal Chem       Date:  2010-10-08       Impact factor: 6.986

9.  LabKey Server: an open source platform for scientific data integration, analysis and collaboration.

Authors:  Elizabeth K Nelson; Britt Piehler; Josh Eckels; Adam Rauch; Matthew Bellew; Peter Hussey; Sarah Ramsay; Cory Nathe; Karl Lum; Kevin Krouse; David Stearns; Brian Connolly; Tom Skillman; Mark Igra
Journal:  BMC Bioinformatics       Date:  2011-03-09       Impact factor: 3.307

10.  The Stanford Data Miner: a novel approach for integrating and exploring heterogeneous immunological data.

Authors:  Janet C Siebert; Wes Munsil; Yael Rosenberg-Hasson; Mark M Davis; Holden T Maecker
Journal:  J Transl Med       Date:  2012-03-28       Impact factor: 5.531
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  31 in total

1.  Siglec-1 Macrophages and the Contribution of IFN to the Development of Autoimmune Congenital Heart Block.

Authors:  Robert M Clancy; Marc Halushka; Sara E Rasmussen; Tenzin Lhakhang; Miao Chang; Jill P Buyon
Journal:  J Immunol       Date:  2018-12-05       Impact factor: 5.422

Review 2.  High-Dimensional Immunology for Schizophrenia Research: A Short Perspective.

Authors:  George K Lewis
Journal:  Schizophr Bull       Date:  2018-08-20       Impact factor: 9.306

Review 3.  A review of quantitative modeling of B cell responses to antigenic challenge.

Authors:  Timothy P Hickling; Xiaoying Chen; Paolo Vicini; Satyaprakash Nayak
Journal:  J Pharmacokinet Pharmacodyn       Date:  2014-10-19       Impact factor: 2.745

4.  A sense of immunity: scientists are detailing the immune system as never before.

Authors:  Amanda B Keener
Journal:  Nat Med       Date:  2015-01       Impact factor: 53.440

5.  The human IgG anti-carbohydrate repertoire exhibits a universal architecture and contains specificity for microbial attachment sites.

Authors:  Christoph Schneider; David F Smith; Richard D Cummings; Kayluz Frias Boligan; Robert G Hamilton; Bruce S Bochner; Sylvia Miescher; Hans-Uwe Simon; Anastas Pashov; Tchavdar Vassilev; Stephan von Gunten
Journal:  Sci Transl Med       Date:  2015-01-07       Impact factor: 17.956

6.  CytoML for cross-platform cytometry data sharing.

Authors:  Greg Finak; Wenxin Jiang; Raphael Gottardo
Journal:  Cytometry A       Date:  2018-12       Impact factor: 4.355

7.  Systems immunology reveals markers of susceptibility to West Nile virus infection.

Authors:  Feng Qian; Gautam Goel; Hailong Meng; Xiaomei Wang; Fuping You; Lesley Devine; Khadir Raddassi; Melissa N Garcia; Kristy O Murray; Christopher R Bolen; Renaud Gaujoux; Shai S Shen-Orr; David Hafler; Erol Fikrig; Ramnik Xavier; Steven H Kleinstein; Ruth R Montgomery
Journal:  Clin Vaccine Immunol       Date:  2014-10-29

8.  High standards for high dimensional investigations.

Authors:  Ruth R Montgomery
Journal:  Cytometry A       Date:  2016-09-23       Impact factor: 4.355

Review 9.  Cancer systems immunology.

Authors:  Nathan E Reticker-Flynn; Edgar G Engleman
Journal:  Elife       Date:  2020-07-13       Impact factor: 8.140

Review 10.  How to dissect the plasticity of antigen-specific immune response: a tissue perspective.

Authors:  D Amodio; V Santilli; P Zangari; N Cotugno; E C Manno; S Rocca; P Rossi; C Cancrini; A Finocchi; A Chassiakos; C Petrovas; P Palma
Journal:  Clin Exp Immunol       Date:  2019-10-31       Impact factor: 4.330
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