Chromatin & Transcription
2009
Backup in gene regulatory networks explains differences between binding and knockout results
Anthony Gitter,
Zehava Siegfried,
Michael Klutstein,
Oriol Fornes,
Baldo Oliva,
Itamar Simon
&
Ziv Bar-Joseph
doi:10.1038/msb.2009.33
Published online:
16 June 2009
Full Text | PDF (989K) | Supplementary information
A single transcription factor regulates evolutionarily diverse but functionally linked metabolic pathways in response to nutrient availability
Amy K Schmid,
David J Reiss,
Min Pan,
Tie Koide
&
Nitin S Baliga
doi:10.1038/msb.2009.40
Published online:
16 June 2009
Synopsis | Full Text | PDF (1,807K) | Supplementary information
Prevalence of transcription promoters within archaeal operons and coding sequences
Tie Koide,
David J Reiss,
J Christopher Bare,
Wyming Lee Pang,
Marc T Facciotti,
Amy K Schmid,
Min Pan,
Bruz Marzolf,
Phu T Van,
Fang-Yin Lo,
Abhishek Pratap,
Eric W Deutsch,
Amelia Peterson,
Dan Martin
&
Nitin S Baliga
doi:10.1038/msb.2009.42
Published online:
16 June 2009
Synopsis | Full Text | PDF (2,786K) | Supplementary information
Genomic analysis reveals a tight link between transcription factor dynamics and regulatory network architecture
Raja Jothi,
S Balaji,
Arthur Wuster,
Joshua A Grochow,
Jörg Gsponer,
Teresa M Przytycka,
L Aravind
&
M Madan Babu
doi:10.1038/msb.2009.52
Published online:
18 August 2009
Synopsis | Full Text | PDF (2,664K) | Supplementary information
Control and signal processing by transcriptional interference
Antoine Buetti-Dinh,
Rosemarie Ungricht,
János Z Kelemen,
Chetak Shetty,
Prasuna Ratna
&
Attila Becskei
doi:10.1038/msb.2009.61
Published online:
18 August 2009
Full Text | PDF (1,856K) | Supplementary information
Dissection of a complex transcriptional response using genome-wide transcriptional modelling
Martino Barenco,
Daniel Brewer,
Efterpi Papouli,
Daniela Tomescu,
Robin Callard,
Jaroslav Stark
&
Michael Hubank
doi:10.1038/msb.2009.84
Published online:
17 November 2009
Synopsis | Full Text | PDF (2,563K) | Supplementary information
2008
Ultrasensitive gene regulation by positive feedback loops in nucleosome modification
Kim Sneppen,
Mille A Micheelsen
&
Ian B Dodd
doi:10.1038/msb.2008.21
Published online:
15 April 2008
Full Text | PDF (252K) | Supplementary information
Genomic analysis of estrogen cascade reveals histone variant H2A.Z associated with breast cancer progression
Sujun Hua,
Caleb B Kallen,
Ruby Dhar,
Maria T Baquero,
Christopher E Mason,
Beth A Russell,
Parantu K Shah,
Jiang Liu,
Andrey Khramtsov,
Maria S Tretiakova,
Thomas N Krausz,
Olufunmilayo I Olopade,
David L Rimm
&
Kevin P White
doi:10.1038/msb.2008.25
Published online:
15 April 2008
Synopsis | Full Text | PDF (1,318K) | Supplementary information
Transient transcriptional responses to stress are generated by opposing effects of mRNA production and degradation
Ophir Shalem,
Orna Dahan,
Michal Levo,
Maria Rodriguez Martinez,
Itay Furman,
Eran Segal
&
Yitzhak Pilpel
doi:10.1038/msb.2008.59
Published online:
14 October 2008
Synopsis | Full Text | PDF (1,310K) | Supplementary information
p53-repressed miRNAs are involved with E2F in a feed-forward loop promoting proliferation
Ran Brosh,
Reut Shalgi,
Atar Liran,
Gilad Landan,
Katya Korotayev,
Giang Huong Nguyen,
Espen Enerly,
Hilde Johnsen,
Yosef Buganim,
Hilla Solomon,
Ido Goldstein,
Shalom Madar,
Naomi Goldfinger,
Anne-Lise Børresen-Dale,
Doron Ginsberg,
Curtis C Harris,
Yitzhak Pilpel,
Moshe Oren
&
Varda Rotter
doi:10.1038/msb.2008.65
Published online:
25 November 2008
Synopsis | Full Text | PDF (6,255K) | Supplementary information
On the relation between promoter divergence and gene expression evolution
Itay Tirosh,
Adina Weinberger,
Dana Bezalel,
Mark Kaganovich
&
Naama Barkai
doi:10.1038/msb4100198
Published online:
15 January 2008
Synopsis | Full Text | PDF (664K) | Supplementary information
2007
Tissue-specific regulatory elements in mammalian promoters
Andrew D Smith,
Pavel Sumazin
&
Michael Q Zhang
doi:10.1038/msb4100114
Published online:
16 January 2007
Full Text | PDF (199K) | Supplementary information
Reconstructing dynamic regulatory maps
Jason Ernst,
Oded Vainas,
Christopher T Harbison,
Itamar Simon
&
Ziv Bar-Joseph
doi:10.1038/msb4100115
Published online:
16 January 2007
Synopsis | Full Text | PDF (402K) | Supplementary information
Genome-wide transcriptional plasticity underlies cellular adaptation to novel challenge
Shay Stern,
Tali Dror,
Elad Stolovicki,
Naama Brenner
&
Erez Braun
doi:10.1038/msb4100147
Published online:
24 April 2007
Synopsis | Full Text | PDF (443K) | Supplementary information
Modeling the regulatory network of histone acetylation in Saccharomyces cerevisiae
Hung Pham,
Roberto Ferrari,
Shawn J Cokus,
Siavash K Kurdistani
&
Matteo Pellegrini
doi:10.1038/msb4100194
Published online:
18 December 2007
Synopsis | Full Text | PDF (250K) | Supplementary information
2006
Systems-level analyses identify extensive coupling among gene expression machines
Karolina Maciag,
Steven J Altschuler,
Michael D Slack,
Nevan J Krogan,
Andrew Emili,
Jack F Greenblatt,
Tom Maniatis
&
Lani F Wu
doi:10.1038/msb4100045
Published online:
17 January 2006
Synopsis | Full Text | PDF (825K) | Supplementary information
Deciphering principles of transcription regulation in eukaryotic genomes
Dat H Nguyen
&
Patrik D'haeseleer
doi:10.1038/msb4100054
Published online:
18 April 2006
Synopsis | Full Text | PDF (418K) | Supplementary information
A quantitative study of the benefits of co-regulation using the spoIIA operon as an example
Dagmar Iber
doi:10.1038/msb4100084
Published online:
22 August 2006
Full Text | PDF (149K)
Communication between levels of transcriptional control improves robustness and adaptivity
Alexander M Tsankov,
Christopher R Brown,
Michael C Yu,
Moe Z Win,
Pamela A Silver
&
Jason M Casolari
doi:10.1038/msb4100106
Published online:
28 November 2006
Synopsis | Full Text | PDF (1,496K) | Supplementary information