Literature DB >> 24076985

ExpressionBlast: mining large, unstructured expression databases.

Guy E Zinman1, Shoshana Naiman, Yariv Kanfi, Haim Cohen, Ziv Bar-Joseph.   

Abstract

Mesh：

Year:  2013        PMID： 24076985     DOI： 10.1038/nmeth.2630

Source DB:  PubMed          Journal:  Nat Methods        ISSN： 1548-7091            Impact factor:   28.547


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  5 in total

1.  The sirtuin SIRT6 regulates lifespan in male mice.

Authors:  Yariv Kanfi; Shoshana Naiman; Gail Amir; Victoria Peshti; Guy Zinman; Liat Nahum; Ziv Bar-Joseph; Haim Y Cohen
Journal:  Nature       Date:  2012-02-22       Impact factor: 49.962

2.  Genomewide RNA expression profiling in lung identifies distinct signatures in idiopathic pulmonary arterial hypertension and secondary pulmonary hypertension.

Authors:  Revathi Rajkumar; Kazuhisa Konishi; Thomas J Richards; David C Ishizawar; Andrew C Wiechert; Naftali Kaminski; Ferhaan Ahmad
Journal:  Am J Physiol Heart Circ Physiol       Date:  2010-01-15       Impact factor: 4.733

3.  SIRT6 protects against pathological damage caused by diet-induced obesity.

Authors:  Yariv Kanfi; Victoria Peshti; Reuven Gil; Shoshana Naiman; Liat Nahum; Eran Levin; Noga Kronfeld-Schor; Haim Y Cohen
Journal:  Aging Cell       Date:  2009-12-28       Impact factor: 9.304

4.  NCBI GEO: mining tens of millions of expression profiles--database and tools update.

Authors:  Tanya Barrett; Dennis B Troup; Stephen E Wilhite; Pierre Ledoux; Dmitry Rudnev; Carlos Evangelista; Irene F Kim; Alexandra Soboleva; Maxim Tomashevsky; Ron Edgar
Journal:  Nucleic Acids Res       Date:  2006-11-11       Impact factor: 16.971

5.  InParanoid 7: new algorithms and tools for eukaryotic orthology analysis.

Authors:  Gabriel Ostlund; Thomas Schmitt; Kristoffer Forslund; Tina Köstler; David N Messina; Sanjit Roopra; Oliver Frings; Erik L L Sonnhammer
Journal:  Nucleic Acids Res       Date:  2009-11-05       Impact factor: 16.971
  5 in total
  17 in total

1.  NutriGenomeDB: a nutrigenomics exploratory and analytical platform.

Authors:  Roberto Martín-Hernández; Guillermo Reglero; José M Ordovás; Alberto Dávalos
Journal:  Database (Oxford)       Date:  2019-01-01       Impact factor: 3.451

2.  Selecting the most appropriate time points to profile in high-throughput studies.

Authors:  Michael Kleyman; Emre Sefer; Teodora Nicola; Celia Espinoza; Divya Chhabra; James S Hagood; Naftali Kaminski; Namasivayam Ambalavanan; Ziv Bar-Joseph
Journal:  Elife       Date:  2017-01-26       Impact factor: 8.140

3.  Hippocampal subregions exhibit both distinct and shared transcriptomic responses to aging and nonneurodegenerative cognitive decline.

Authors:  Dustin R Masser; Georgina V Bixler; Robert M Brucklacher; Han Yan; Cory B Giles; Jonathan D Wren; William E Sonntag; Willard M Freeman
Journal:  J Gerontol A Biol Sci Med Sci       Date:  2014-07-02       Impact factor: 6.053

4.  Tradeoffs between Dense and Replicate Sampling Strategies for High-Throughput Time Series Experiments.

Authors:  Emre Sefer; Michael Kleyman; Ziv Bar-Joseph
Journal:  Cell Syst       Date:  2016-07-21       Impact factor: 10.304

Review 5.  Stems cells, big data and compendium-based analyses for identifying cell types, signalling pathways and gene regulatory networks.

Authors:  Md Humayun Kabir; Michael D O'Connor
Journal:  Biophys Rev       Date:  2019-01-25

6.  Oklahoma Nathan Shock Aging Center - assessing the basic biology of aging from genetics to protein and function.

Authors:  Holly Van Remmen; Willard M Freeman; Benjamin F Miller; Michael Kinter; Jonathan D Wren; Ann Chiao; Rheal A Towner; Timothy A Snider; William E Sonntag; Arlan Richardson
Journal:  Geroscience       Date:  2021-10-04       Impact factor: 7.713

7.  SigCom LINCS: data and metadata search engine for a million gene expression signatures.

Authors:  John Erol Evangelista; Daniel J B Clarke; Zhuorui Xie; Alexander Lachmann; Minji Jeon; Kerwin Chen; Kathleen M Jagodnik; Sherry L Jenkins; Maxim V Kuleshov; Megan L Wojciechowicz; Stephan C Schürer; Mario Medvedovic; Avi Ma'ayan
Journal:  Nucleic Acids Res       Date:  2022-05-07       Impact factor: 19.160

8.  Hidden treasures in "ancient" microarrays: gene-expression portrays biology and potential resistance pathways of major lung cancer subtypes and normal tissue.

Authors:  Konstantinos Kerkentzes; Vincenzo Lagani; Ioannis Tsamardinos; Mogens Vyberg; Oluf Dimitri Røe
Journal:  Front Oncol       Date:  2014-09-29       Impact factor: 6.244

9.  GEMINI: a computationally-efficient search engine for large gene expression datasets.

Authors:  Timothy DeFreitas; Hachem Saddiki; Patrick Flaherty
Journal:  BMC Bioinformatics       Date:  2016-02-24       Impact factor: 3.169

10.  Extraction and analysis of signatures from the Gene Expression Omnibus by the crowd.

Authors:  Zichen Wang; Caroline D Monteiro; Kathleen M Jagodnik; Nicolas F Fernandez; Gregory W Gundersen; Andrew D Rouillard; Sherry L Jenkins; Axel S Feldmann; Kevin S Hu; Michael G McDermott; Qiaonan Duan; Neil R Clark; Matthew R Jones; Yan Kou; Troy Goff; Holly Woodland; Fabio M R Amaral; Gregory L Szeto; Oliver Fuchs; Sophia M Schüssler-Fiorenza Rose; Shvetank Sharma; Uwe Schwartz; Xabier Bengoetxea Bausela; Maciej Szymkiewicz; Vasileios Maroulis; Anton Salykin; Carolina M Barra; Candice D Kruth; Nicholas J Bongio; Vaibhav Mathur; Radmila D Todoric; Udi E Rubin; Apostolos Malatras; Carl T Fulp; John A Galindo; Ruta Motiejunaite; Christoph Jüschke; Philip C Dishuck; Katharina Lahl; Mohieddin Jafari; Sara Aibar; Apostolos Zaravinos; Linda H Steenhuizen; Lindsey R Allison; Pablo Gamallo; Fernando de Andres Segura; Tyler Dae Devlin; Vicente Pérez-García; Avi Ma'ayan
Journal:  Nat Commun       Date:  2016-09-26       Impact factor: 14.919
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