Literature DB >> 25978996

Application guide for omics approaches to cell signaling.

Zhong Yao1, Julia Petschnigg2, Robin Ketteler2, Igor Stagljar3.   

Abstract

Research in signal transduction aims to identify the functions of different signaling pathways in physiological and pathological states. Traditional techniques using biochemical, genetic or cell biological approaches have made important contributions to our understanding of cellular signaling. However, the single-gene approach does not take into account the full complexity of cell signaling. With the availability of omics techniques, great progress has been made in understanding signaling networks. Omics approaches can be classified into two categories: 'molecular profiling', including genomic, proteomic, post-translational modification and interactome profiling; and 'molecular perturbation', including genetic and functional perturbations.

Mesh:

Substances:

Year:  2015        PMID: 25978996     DOI: 10.1038/nchembio.1809

Source DB:  PubMed          Journal:  Nat Chem Biol        ISSN: 1552-4450            Impact factor:   15.040


  100 in total

1.  Protein tag-mediated conjugation of oligonucleotides to recombinant affinity binders for proximity ligation.

Authors:  Gucci Jijuan Gu; Mikaela Friedman; Christian Jost; Kai Johnsson; Masood Kamali-Moghaddam; Andreas Plückthun; Ulf Landegren; Ola Söderberg
Journal:  N Biotechnol       Date:  2012-06-02       Impact factor: 5.079

2.  High-throughput transfection of differentiated primary neurons from rat forebrain.

Authors:  Shane Marine; Jamie Freeman; Antonella Riccio; Marie-Louise Axenborg; Johan Pihl; Robin Ketteler; Sara Aspengren
Journal:  J Biomol Screen       Date:  2012-03-08

Review 3.  The model organism as a system: integrating 'omics' data sets.

Authors:  Andrew R Joyce; Bernhard Ø Palsson
Journal:  Nat Rev Mol Cell Biol       Date:  2006-03       Impact factor: 94.444

Review 4.  Concepts in sumoylation: a decade on.

Authors:  Ruth Geiss-Friedlander; Frauke Melchior
Journal:  Nat Rev Mol Cell Biol       Date:  2007-12       Impact factor: 94.444

5.  Teaching an old scaffold new tricks: monobodies constructed using alternative surfaces of the FN3 scaffold.

Authors:  Akiko Koide; John Wojcik; Ryan N Gilbreth; Robert J Hoey; Shohei Koide
Journal:  J Mol Biol       Date:  2011-12-16       Impact factor: 5.469

Review 6.  Cell signaling by receptor tyrosine kinases.

Authors:  Mark A Lemmon; Joseph Schlessinger
Journal:  Cell       Date:  2010-06-25       Impact factor: 41.582

7.  Direct observation of individual endogenous protein complexes in situ by proximity ligation.

Authors:  Ola Söderberg; Mats Gullberg; Malin Jarvius; Karin Ridderstråle; Karl-Johan Leuchowius; Jonas Jarvius; Kenneth Wester; Per Hydbring; Fuad Bahram; Lars-Gunnar Larsson; Ulf Landegren
Journal:  Nat Methods       Date:  2006-10-29       Impact factor: 28.547

8.  High-content genome-wide RNAi screens identify regulators of parkin upstream of mitophagy.

Authors:  Samuel A Hasson; Lesley A Kane; Koji Yamano; Chiu-Hui Huang; Danielle A Sliter; Eugen Buehler; Chunxin Wang; Sabrina M Heman-Ackah; Tara Hessa; Rajarshi Guha; Scott E Martin; Richard J Youle
Journal:  Nature       Date:  2013-11-24       Impact factor: 49.962

9.  Dynamic reprogramming of the kinome in response to targeted MEK inhibition in triple-negative breast cancer.

Authors:  James S Duncan; Martin C Whittle; Kazuhiro Nakamura; Amy N Abell; Alicia A Midland; Jon S Zawistowski; Nancy L Johnson; Deborah A Granger; Nicole Vincent Jordan; David B Darr; Jerry Usary; Pei-Fen Kuan; David M Smalley; Ben Major; Xiaping He; Katherine A Hoadley; Bing Zhou; Norman E Sharpless; Charles M Perou; William Y Kim; Shawn M Gomez; Xin Chen; Jian Jin; Stephen V Frye; H Shelton Earp; Lee M Graves; Gary L Johnson
Journal:  Cell       Date:  2012-04-13       Impact factor: 41.582

Review 10.  Host cell factors in HIV replication: meta-analysis of genome-wide studies.

Authors:  Frederic D Bushman; Nirav Malani; Jason Fernandes; Iván D'Orso; Gerard Cagney; Tracy L Diamond; Honglin Zhou; Daria J Hazuda; Amy S Espeseth; Renate König; Sourav Bandyopadhyay; Trey Ideker; Stephen P Goff; Nevan J Krogan; Alan D Frankel; John A T Young; Sumit K Chanda
Journal:  PLoS Pathog       Date:  2009-05-29       Impact factor: 6.823

View more
  26 in total

Review 1.  Signal Transduction at the Single-Cell Level: Approaches to Study the Dynamic Nature of Signaling Networks.

Authors:  L Naomi Handly; Jason Yao; Roy Wollman
Journal:  J Mol Biol       Date:  2016-07-16       Impact factor: 5.469

2.  Multiple functions of protein phosphatases in receptor tyrosine kinase signaling revealed by interactome analysis.

Authors:  Zhong Yao; Igor Stagljar
Journal:  Mol Cell Oncol       Date:  2017-02-26

3.  Kinase network dysregulation in a human induced pluripotent stem cell model of DISC1 schizophrenia.

Authors:  Eduard Bentea; Erica A K Depasquale; Sinead M O'Donovan; Courtney R Sullivan; Micah Simmons; James H Meador-Woodruff; Ying Zhou; Chongchong Xu; Bing Bai; Junmin Peng; Hongjun Song; Guo-Li Ming; Jarek Meller; Zhexing Wen; Robert E McCullumsmith
Journal:  Mol Omics       Date:  2019-06-10

4.  A Global Analysis of the Receptor Tyrosine Kinase-Protein Phosphatase Interactome.

Authors:  Zhong Yao; Katelyn Darowski; Nicole St-Denis; Victoria Wong; Fabian Offensperger; Annabel Villedieu; Shahreen Amin; Ramy Malty; Hiroyuki Aoki; Hongbo Guo; Yang Xu; Caterina Iorio; Max Kotlyar; Andrew Emili; Igor Jurisica; Benjamin G Neel; Mohan Babu; Anne-Claude Gingras; Igor Stagljar
Journal:  Mol Cell       Date:  2017-01-05       Impact factor: 17.970

5.  FRETting about the affinity of bimolecular protein-protein interactions.

Authors:  Tao Lin; Brandon L Scott; Adam D Hoppe; Suvobrata Chakravarty
Journal:  Protein Sci       Date:  2018-10       Impact factor: 6.725

6.  Photoaffinity-engineered protein scaffold for systematically exploring native phosphotyrosine signaling complexes in tumor samples.

Authors:  Bizhu Chu; An He; Yeteng Tian; Wan He; Peizhong Chen; Jintao Hu; Ruilian Xu; Wenbin Zhou; Mingjie Zhang; Pengyuan Yang; Shawn S C Li; Ying Sun; Pengfei Li; Tony Hunter; Ruijun Tian
Journal:  Proc Natl Acad Sci U S A       Date:  2018-09-06       Impact factor: 11.205

Review 7.  Proteomic Analysis of Postsynaptic Protein Complexes Underlying Neuronal Plasticity.

Authors:  Anthony J Baucum
Journal:  ACS Chem Neurosci       Date:  2017-02-23       Impact factor: 4.418

8.  Identification of an elaborate complex mediating postsynaptic inhibition.

Authors:  Akiyoshi Uezu; Daniel J Kanak; Tyler W A Bradshaw; Erik J Soderblom; Christina M Catavero; Alain C Burette; Richard J Weinberg; Scott H Soderling
Journal:  Science       Date:  2016-09-09       Impact factor: 47.728

Review 9.  Phenotypic screening with primary neurons to identify drug targets for regeneration and degeneration.

Authors:  Daniel J Cooper; Giulia Zunino; John L Bixby; Vance P Lemmon
Journal:  Mol Cell Neurosci       Date:  2016-07-18       Impact factor: 4.314

Review 10.  Studying Cellular Signal Transduction with OMIC Technologies.

Authors:  Benjamin D Landry; David C Clarke; Michael J Lee
Journal:  J Mol Biol       Date:  2015-08-03       Impact factor: 5.469

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.