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Articles

Aldose reductase, fructose and fat production in the liver

Peter Delannoy, Dean R. Tolan, Miguel A. Lanaspa, Iñigo San Millán, So Young Bae, Richard J. Johnson
Journal: Biochemical Journal
Biochem J (2025) 482 (05): 295–307.
https://doi.org/10.1042/BCJ20240748
Published: 19 February 2025
View article titled, Aldose reductase, fructose and fat production in the liver
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Articles

Integrating bacterial molecular genetics with chemical biology for renewed antibacterial drug discovery

Susannah L. Parkhill, Eachan O. Johnson
Journal: Biochemical Journal
Biochem J (2024) 481 (13): 839–864.
https://doi.org/10.1042/BCJ20220062
Published: 03 July 2024
View article titled, Integrating bacterial molecular genetics with chemical biology for renewed antibacterial drug discovery
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Articles

A guide to ERK dynamics, part 1: mechanisms and models

In Collection
Cell signaling in the 21st century
Abhineet Ram, Devan Murphy, Nicholaus DeCuzzi, Madhura Patankar, Jason Hu, Michael Pargett, John G. Albeck
Journal: Biochemical Journal
Biochem J (2023) 480 (23): 1887–1907.
https://doi.org/10.1042/BCJ20230276
Published: 01 December 2023
View article titled, A guide to ERK dynamics, part 1: mechanisms and models
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Articles

A guide to ERK dynamics, part 2: downstream decoding

In Collection
Cell signaling in the 21st century
Abhineet Ram, Devan Murphy, Nicholaus DeCuzzi, Madhura Patankar, Jason Hu, Michael Pargett, John G. Albeck
Journal: Biochemical Journal
Biochem J (2023) 480 (23): 1909–1928.
https://doi.org/10.1042/BCJ20230277
Published: 01 December 2023
View article titled, A guide to ERK dynamics, part 2: downstream decoding
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Articles

Are fibrinaloid microclots a cause of autoimmunity in Long Covid and other post-infection diseases?

Douglas B. Kell, Etheresia Pretorius
Journal: Biochemical Journal
Biochem J (2023) 480 (15): 1217–1240.
https://doi.org/10.1042/BCJ20230241
Published: 16 August 2023
View article titled, Are fibrinaloid microclots a cause of autoimmunity in Long Covid and other post-infection diseases?
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Articles

Principles of phosphoproteomics and applications in cancer research

In Collection
Cell signaling in the 21st century
Luke Higgins, Henry Gerdes, Pedro R. Cutillas
Journal: Biochemical Journal
Biochem J (2023) 480 (6): 403–420.
https://doi.org/10.1042/BCJ20220220
Published: 24 March 2023
View article titled, Principles of phosphoproteomics and applications in cancer research
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Articles

Combinatorial approaches for mitigating resistance to KRAS-targeted therapies

Hannah R. Warren, Sarah J. Ross, Paul D. Smith, Judy M. Coulson, Ian A. Prior
Journal: Biochemical Journal
Biochem J (2022) 479 (18): 1985–1997.
https://doi.org/10.1042/BCJ20220440
Published: 23 September 2022
View article titled, Combinatorial approaches for mitigating resistance to KRAS-targeted therapies
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Includes: Supplementary data
Articles

The potential role of ischaemia–reperfusion injury in chronic, relapsing diseases such as rheumatoid arthritis, Long COVID, and ME/CFS: evidence, mechanisms, and therapeutic implications

In Collection
Coronavirus
Douglas B. Kell, Etheresia Pretorius
Journal: Biochemical Journal
Biochem J (2022) 479 (16): 1653–1708.
https://doi.org/10.1042/BCJ20220154
Published: 31 August 2022
View article titled, The potential role of ischaemia–reperfusion injury in chronic, relapsing diseases such as rheumatoid arthritis, Long COVID, and ME/CFS: evidence, mechanisms, and therapeutic implications
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Articles

Highly sensitive tryptophan fluorescence probe for detecting rhythmic conformational changes of KaiC in the cyanobacterial circadian clock system

In Collection
Towards systems biochemistry
Atsushi Mukaiyama, Yoshihiko Furuike, Eiki Yamashita, Shuji Akiyama
Journal: Biochemical Journal
Biochem J (2022) 479 (14): 1505–1515.
https://doi.org/10.1042/BCJ20210544
Published: 19 July 2022
View article titled, Highly sensitive tryptophan fluorescence probe for detecting rhythmic conformational changes of KaiC in the cyanobacterial circadian clock system
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Includes: Supplementary data
Articles

Deciphering signal transduction networks in the liver by mechanistic mathematical modelling

In Collection
Towards systems biochemistry
Lorenza A. D’Alessandro, Ursula Klingmüller, Marcel Schilling
Journal: Biochemical Journal
Biochem J (2022) 479 (12): 1361–1374.
https://doi.org/10.1042/BCJ20210548
Published: 24 June 2022
View article titled, Deciphering signal transduction networks in the liver by mechanistic mathematical modelling
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Articles

Towards ‘end-to-end’ analysis and understanding of biological timecourse data

In Collection
Towards systems biochemistry
Siddhartha G. Jena, Alexander G. Goglia, Barbara E. Engelhardt
Journal: Biochemical Journal
Biochem J (2022) 479 (11): 1257–1263.
https://doi.org/10.1042/BCJ20220053
Published: 17 June 2022
View article titled, Towards ‘end-to-end’ analysis and understanding of biological timecourse data
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Articles

A structural approach to understanding enzymatic regulation of chemical reaction networks

In Collection
Towards systems biochemistry
Atsushi Mochizuki
Journal: Biochemical Journal
Biochem J (2022) 479 (11): 1265–1283.
https://doi.org/10.1042/BCJ20210545
Published: 17 June 2022
View article titled, A structural approach to understanding enzymatic regulation of chemical reaction networks
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Articles

Quantitative live-cell imaging of GPCR downstream signaling dynamics

In Collection
Towards systems biochemistry
Ryosuke Tany, Yuhei Goto, Yohei Kondo, Kazuhiro Aoki
Journal: Biochemical Journal
Biochem J (2022) 479 (8): 883–900.
https://doi.org/10.1042/BCJ20220021
Published: 21 April 2022
View article titled, Quantitative live-cell imaging of GPCR downstream signaling dynamics
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Includes: Supplementary data
Articles

Overexpression of phospholipid: diacylglycerol acyltransferase in Brassica napus results in changes in lipid metabolism and oil accumulation

Stepan Fenyk, Helen K. Woodfield, Trevor B. Romsdahl, Emma J. Wallington, Ruth E. Bates, David A. Fell, Kent D. Chapman, Tony Fawcett, John L. Harwood
Journal: Biochemical Journal
Biochem J (2022) 479 (6): 805–823.
https://doi.org/10.1042/BCJ20220003
Published: 31 March 2022
View article titled, Overexpression of phospholipid: diacylglycerol acyltransferase in Brassica napus results in changes in lipid metabolism and oil accumulation
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Includes: Supplementary data
Articles

Quantitative metabolic fluxes regulated by trans-omic networks

In Collection
Towards systems biochemistry
Satoshi Ohno, Saori Uematsu, Shinya Kuroda
Journal: Biochemical Journal
Biochem J (2022) 479 (6): 787–804.
https://doi.org/10.1042/BCJ20210596
Published: 31 March 2022
View article titled, Quantitative metabolic fluxes regulated by trans-omic networks
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Articles

Systems approaches to investigate the role of NF-κB signaling in aging

In Collection
Towards systems biochemistry
Masatoshi Haga, Mariko Okada
Journal: Biochemical Journal
Biochem J (2022) 479 (2): 161–183.
https://doi.org/10.1042/BCJ20210547
Published: 28 January 2022
View article titled, Systems approaches to investigate the role of NF-κB signaling in aging
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Articles

From the Belousov–Zhabotinsky reaction to biochemical clocks, traveling waves and cell cycle regulation

In Collection
Towards systems biochemistry
John J. Tyson
Journal: Biochemical Journal
Biochem J (2022) 479 (2): 185–206.
https://doi.org/10.1042/BCJ20210370
Published: 28 January 2022
View article titled, From the Belousov–Zhabotinsky reaction to biochemical clocks, traveling waves and cell cycle regulation
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Articles

Live imaging approach of dynamic multicellular responses in ERK signaling during vertebrate tissue development

In Collection
Towards systems biochemistry
Tsuyoshi Hirashima
Journal: Biochemical Journal
Biochem J (2022) 479 (2): 129–143.
https://doi.org/10.1042/BCJ20210557
Published: 20 January 2022
View article titled, Live imaging approach of dynamic multicellular responses in ERK signaling during vertebrate tissue development
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Articles

An ERK5–KLF2 signalling module regulates early embryonic gene expression and telomere rejuvenation in stem cells

Helen A. Brown, Charles A.C. Williams, Houjiang Zhou, Diana Rios-Szwed, Rosalia Fernandez-Alonso, Saria Mansoor, Liam McMulkin, Rachel Toth, Robert Gourlay, Julien Peltier, Nora Dieguez-Martinez, Matthias Trost, Jose M. Lizcano, Marios P. Stavridis, Greg M. Findlay
Journal: Biochemical Journal
Biochem J (2021) 478 (23): 4119–4136.
https://doi.org/10.1042/BCJ20210646
Published: 06 December 2021
View article titled, An ERK5–KLF2 signalling module regulates early embryonic gene expression and telomere rejuvenation in stem cells
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Articles

Signalling dynamics in embryonic development

Katharina F. Sonnen, Claudia Y. Janda
Journal: Biochemical Journal
Biochem J (2021) 478 (23): 4045–4070.
https://doi.org/10.1042/BCJ20210043
Published: 06 December 2021
View article titled, Signalling dynamics in embryonic development
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Articles

Kinases leave their mark on caspase substrates

Amy M. Weeks
Journal: Biochemical Journal
Biochem J (2021) 478 (17): 3179–3184.
https://doi.org/10.1042/BCJ20210399
Published: 07 September 2021
View article titled, Kinases leave their mark on caspase substrates
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Articles

Inhibitory feedback control of NF-κB signalling in health and disease

Jack A. Prescott, Jennifer P. Mitchell, Simon J. Cook
Journal: Biochemical Journal
Biochem J (2021) 478 (13): 2619–2664.
https://doi.org/10.1042/BCJ20210139
Published: 16 July 2021
View article titled, Inhibitory feedback control of NF-κB signalling in health and disease
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Articles

Whole-body metabolic fate of branched-chain amino acids

Megan C. Blair, Michael D. Neinast, Zoltan Arany
Journal: Biochemical Journal
Biochem J (2021) 478 (4): 765–776.
https://doi.org/10.1042/BCJ20200686
Published: 24 February 2021
View article titled, Whole-body metabolic fate of branched-chain amino acids
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Articles

Temporal modulation of the NF-κB RelA network in response to different types of DNA damage

Amy E. Campbell, Catarina Ferraz Franco, Ling-I Su, Emma K. Corbin, Simon Perkins, Anton Kalyuzhnyy, Andrew R. Jones, Philip J. Brownridge, Neil D. Perkins, Claire E. Eyers
Journal: Biochemical Journal
Biochem J (2021) 478 (3): 533–551.
https://doi.org/10.1042/BCJ20200627
Published: 10 February 2021
View article titled, Temporal modulation of the NF-κB RelA network in response to different types of DNA damage
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Includes: Supplementary data
Articles

Cytoskeleton regulators CAPZA2 and INF2 associate with CFTR to control its plasma membrane levels under EPAC1 activation

João D. Santos, Francisco R. Pinto, João F. Ferreira, Margarida D. Amaral, Manuela Zaccolo, Carlos M. Farinha
Journal: Biochemical Journal
Biochem J (2020) 477 (13): 2561–2580.
https://doi.org/10.1042/BCJ20200287
Published: 10 July 2020
View article titled, Cytoskeleton regulators CAPZA2 and INF2 associate with CFTR to control its plasma membrane levels under EPAC1 activation
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Includes: Supplementary data
Articles

Regulatory thiol oxidation in chloroplast metabolism, oxidative stress response and environmental signaling in plants

Lara Vogelsang, Karl-Josef Dietz
Journal: Biochemical Journal
Biochem J (2020) 477 (10): 1865–1878.
https://doi.org/10.1042/BCJ20190124
Published: 28 May 2020
View article titled, Regulatory thiol oxidation in chloroplast metabolism, oxidative stress response and environmental signaling in plants
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Articles

Reading the phosphorylation code: binding of the 14-3-3 protein to multivalent client phosphoproteins

Nikolai N. Sluchanko
Journal: Biochemical Journal
Biochem J (2020) 477 (7): 1219–1225.
https://doi.org/10.1042/BCJ20200084
Published: 09 April 2020
View article titled, Reading the phosphorylation code: binding of the 14-3-3 protein to multivalent client phosphoproteins
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Articles

Toward a systems approach to cytochrome P450 ensemble: interactions of CYP2E1 with other P450 species and their impact on CYP1A2

Nadezhda Y. Davydova, Bikash Dangi, Marc A. Maldonado, Nikita E. Vavilov, Victor G. Zgoda, Dmitri R. Davydov
Journal: Biochemical Journal
Biochem J (2019) 476 (23): 3661–3685.
https://doi.org/10.1042/BCJ20190532
Published: 12 December 2019
View article titled, Toward a systems approach to cytochrome P450 ensemble: interactions of CYP2E1 with other P450 species and their impact on CYP1A2
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Includes: Supplementary data
Articles

Arabidopsis 4-COUMAROYL-COA LIGASE 8 contributes to the biosynthesis of the benzenoid ring of coenzyme Q in peroxisomes

Eric Soubeyrand, Megan Kelly, Shea A. Keene, Ann C. Bernert, Scott Latimer, Timothy S. Johnson, Christian Elowsky, Thomas A. Colquhoun, Anna K. Block, Gilles J. Basset
Journal: Biochemical Journal
Biochem J (2019) 476 (22): 3521–3532.
https://doi.org/10.1042/BCJ20190688
Published: 27 November 2019
View article titled, Arabidopsis 4-COUMAROYL-COA LIGASE 8 contributes to the biosynthesis of the benzenoid ring of coenzyme Q in peroxisomes
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Includes: Supplementary data
Articles

Glycolytic flux in Saccharomyces cerevisiae is dependent on RNA polymerase III and its negative regulator Maf1

Roza Szatkowska, Manuel Garcia-Albornoz, Katarzyna Roszkowska, Stephen W. Holman, Emil Furmanek, Simon J. Hubbard, Robert J. Beynon, Malgorzata Adamczyk
Journal: Biochemical Journal
Biochem J (2019) 476 (7): 1053–1082.
https://doi.org/10.1042/BCJ20180701
Published: 04 April 2019
View article titled, Glycolytic flux in Saccharomyces cerevisiae is dependent on RNA polymerase III and its negative regulator Maf1
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Includes: Supplementary data
Articles

ParA proteins of secondary genome elements cross-talk and regulate radioresistance through genome copy number reduction in Deinococcus radiodurans

Ganesh Kumar Maurya, Swathi Kota, N. Naveen Kumar, Raghvendra Tewari, Hari S. Misra
Journal: Biochemical Journal
Biochem J (2019) 476 (5): 909–930.
https://doi.org/10.1042/BCJ20180799
Published: 15 March 2019
View article titled, ParA proteins of secondary genome elements cross-talk and regulate radioresistance through genome copy number reduction in Deinococcus radiodurans
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Includes: Supplementary data
Articles

G protein subunit phosphorylation as a regulatory mechanism in heterotrimeric G protein signaling in mammals, yeast, and plants

David Chakravorty, Sarah M. Assmann
Journal: Biochemical Journal
Biochem J (2018) 475 (21): 3331–3357.
https://doi.org/10.1042/BCJ20160819
Published: 09 November 2018
View article titled, G protein subunit phosphorylation as a regulatory mechanism in heterotrimeric G protein signaling in mammals, yeast, and plants
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Includes: Supplementary data
Articles

Systems analysis of metabolism in platelet concentrates during storage in platelet additive solution

Freyr Jóhannsson, Steinn Guðmundsson, Giuseppe Paglia, Sveinn Guðmundsson, Bernhard Palsson, Ólafur E. Sigurjónsson, Óttar Rolfsson
Journal: Biochemical Journal
Biochem J (2018) 475 (13): 2225–2240.
https://doi.org/10.1042/BCJ20170921
Published: 16 July 2018
View article titled, Systems analysis of metabolism in platelet concentrates during storage in platelet additive solution
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Includes: Supplementary data
Articles

Inhibition of FOXO1 transcription factor in primary human adipocytes mimics the insulin-resistant state of type 2 diabetes

In Collection
Editors' pick of research highlights published in the Biochemical Journal in 2018 & 2019
Meenu R. Rajan, Elin Nyman, Cecilia Brännmark, Charlotta S. Olofsson, Peter Strålfors
Journal: Biochemical Journal
Biochem J (2018) 475 (10): 1807–1820.
https://doi.org/10.1042/BCJ20180144
Published: 31 May 2018
View article titled, Inhibition of FOXO1 transcription factor in primary human adipocytes mimics the insulin-resistant state of type 2 diabetes
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Includes: Supplementary data
Articles

Differential effects of pannexins on noise-induced hearing loss

Julia M. Abitbol, John J. Kelly, Kevin Barr, Ashley L. Schormans, Dale W. Laird, Brian L. Allman
Journal: Biochemical Journal
Biochem J (2016) 473 (24): 4665–4680.
https://doi.org/10.1042/BCJ20160668
Published: 09 December 2016
View article titled, Differential effects of pannexins on noise-induced hearing loss
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Articles

Systematic approaches to identify E3 ligase substrates

Mary Iconomou, Darren N. Saunders
Journal: Biochemical Journal
Biochem J (2016) 473 (22): 4083–4101.
https://doi.org/10.1042/BCJ20160719
Published: 10 November 2016
View article titled, Systematic approaches to identify E3 ligase substrates
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Articles

Comparative proteomic assessment of matrisome enrichment methodologies

Lukas Krasny, Angela Paul, Patty Wai, Beatrice A. Howard, Rachael C. Natrajan, Paul H. Huang
Journal: Biochemical Journal
Biochem J (2016) 473 (21): 3979–3995.
https://doi.org/10.1042/BCJ20160686
Published: 27 October 2016
View article titled, Comparative proteomic assessment of matrisome enrichment methodologies
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Includes: Supplementary data
Articles

The role of TREX in gene expression and disease

Catherine G. Heath, Nicolas Viphakone, Stuart A. Wilson
Journal: Biochemical Journal
Biochem J (2016) 473 (19): 2911–2935.
https://doi.org/10.1042/BCJ20160010
Published: 27 September 2016
View article titled, The role of TREX in gene expression and disease
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