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1

The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line

Suzuki, Harukazu, Forrest, Alistair R R, van Nimwegen, Erik, Daub, Carsten O, Balwierz, Piotr J, Irvine, Katharine M, Lassmann, Timo, Ravasi, Timothy, Hasegawa, Yuki, de Hoon, Michiel J L

Journal:

Nature Genetics

Year:

2009

Language:

english

File:

PDF, 980 KB

english, 2009

2

A promoter-level mammalian expression atlas

Forrest, Alistair R. R., Kawaji, Hideya, Rehli, Michael, Kenneth Baillie, J., de Hoon, Michiel J. L., Haberle, Vanja, Lassmann, Timo, Kulakovskiy, Ivan V., Lizio, Marina, Itoh, Masayoshi, Andersson, R

Journal:

Year:

2014

Language:

english

File:

PDF, 6.75 MB

english, 2014

3

Interactive visualization and analysis of large-scale sequencing datasets using ZENBU

Severin, Jessica, Lizio, Marina, Harshbarger, Jayson, Kawaji, Hideya, Daub, Carsten O, Hayashizaki, Yoshihide, Bertin, Nicolas, Forrest, Alistair R R

Journal:

Nature Biotechnology

Year:

2014

Language:

english

File:

PDF, 646 KB

english, 2014

4

A predictive computational framework for direct reprogramming between human cell types

Rackham, Owen J L, Firas, Jaber, Fang, Hai, Oates, Matt E, Holmes, Melissa L, Knaupp, Anja S, Suzuki, Harukazu, Nefzger, Christian M, Daub, Carsten O, Shin, Jay W, Petretto, Enrico, Forrest, Alistair

Journal:

Nature Genetics

Year:

2016

Language:

english

File:

PDF, 1.70 MB

english, 2016

5

Iselin's Disease: A Systematic Review

Forrester, Richard A., Eyre-Brook, Alistair I., Mannan, Ken

Journal:

The Journal of Foot and Ankle Surgery

Year:

2017

Language:

english

File:

PDF, 439 KB

english, 2017

6

Unravelling the molecular basis for regulatory T-cell plasticity and loss of function in disease

Sadlon, Timothy, Brown, Cheryl Y, Bandara, Veronika, Hope, Christopher M, Schjenken, John E, Pederson, Stephen M, Breen, James, Forrest, Alistair, Beyer, Marc, Robertson, Sarah, Barry, Simon C

Journal:

Clinical & Translational Immunology

Year:

2018

Language:

english

File:

PDF, 801 KB

english, 2018

7

CC Chemokine Ligand 2 and Leukemia Inhibitory Factor Cooperatively Promote Pluripotency in Mouse Induced Pluripotent Cells

Yuki Hasegawa, Naoko Takahashi, Alistair R. R. Forrest, Jay W. Shin, Yohei Kinoshita, Harukazu Suzuki, Yoshihide Hayashizaki

Journal:

Year:

2011

Language:

english

File:

PDF, 887 KB

english, 2011

8

Deriving and identifying hepatocytes from embryonic stem cells

Alistair J. Watt, Lesley M. Forrester

Journal:

Stem Cell Reviews and Reports

Year:

2006

Language:

english

File:

PDF, 145 KB

english, 2006

9

Subcellular Localization of Mammalian Type II Membrane Proteins

Rajith N. Aturaliya, J. Lynn Fink, Melissa J. Davis, Melvena S. Teasdale, Kelly A. Hanson, Kevin C. Miranda, Alistair R. R. Forrest, Sean M. Grimmond, Harukazu Suzuki, Mutsumi Kanamori, Chikatoshi Kai

Journal:

Year:

2006

Language:

english

File:

PDF, 14.41 MB

english, 2006

10

Tiny RNAs associated with transcription start sites in animals

Taft, Ryan J, Glazov, Evgeny A, Cloonan, Nicole, Simons, Cas, Stephen, Stuart, Faulkner, Geoffrey J, Lassmann, Timo, Forrest, Alistair R R, Grimmond, Sean M, Schroder, Kate

Journal:

Nature Genetics

Year:

2009

Language:

english

File:

PDF, 392 KB

english, 2009

11

Corrigendum: Tiny RNAs associated with transcription start sites in animals

Cloonan, Nicole, Simons, Cas, Taft, Ryan J, Glazov, Evgeny A, Stephen, Stuart, Faulkner, Geoffrey J, Lassmann, Timo, Forrest, Alistair R R, Grimmond, Sean M, Schroder, Kate

Journal:

Nature Genetics

Year:

2009

Language:

english

File:

PDF, 54 KB

english, 2009

12

Stem cell transcriptome profiling via massive-scale mRNA sequencing

Cloonan, Nicole, Forrest, Alistair R R, Kolle, Gabriel, Gardiner, Brooke B A, Faulkner, Geoffrey J, Brown, Mellissa K, Taylor, Darrin F, Steptoe, Anita L, Wani, Shivangi, Bethel, Graeme

Journal:

Year:

2008

Language:

english

File:

PDF, 489 KB

english, 2008

13

Regulation of CDC25B phosphatases subcellular localization

Davezac, Noélie, Baldin, Véronique, Gabrielli, Brian, Forrest, Alistair, Theis-Febvre, Nathalie, Yashida, Minoru, Ducommun, Bernard

Journal:

Year:

2000

Language:

english

File:

PDF, 244 KB

english, 2000

14

Cdc25B activity is regulated by 14-3-3

Forrest, Alistair, Gabrielli, Brian

Journal:

Year:

2001

Language:

english

File:

PDF, 314 KB

english, 2001

15

Novel genes regulated by Sonic Hedgehog in pluripotent mesenchymal cells

Ingram, Wendy J, Wicking, Carol A, Grimmond, Sean M, Forrest, Alistair R, Wainwright, Brandon J

Journal:

Year:

2002

Language:

english

File:

PDF, 270 KB

english, 2002

16

Anlaysis of complementary expression profiles following WT1 induction versus repression reveals the cholesterol/fatty acid synthetic pathways as a possible major target of WT1

Rae, Fiona Kaven, Martinez, Gemma, Gillinder, Kevin Robert, Smith, Aaron, Shooter, Gary, Forrest, Alistair Raymond, Grimmond, Sean Michael, Little, Melissa Helen

Journal:

Year:

2004

Language:

english

File:

PDF, 489 KB

english, 2004

17

The combination of gene perturbation assay and ChIP-chip reveals functional direct target genes for IRF8 in THP-1 cells

Atsutaka Kubosaki, Gabriella Lindgren, Michihira Tagami, Christophe Simon, Yasuhiro Tomaru, Hisashi Miura, Takahiro Suzuki, Erik Arner, Alistair R.R. Forrest, Katharine M. Irvine, Kate Schroder, Yuki

Journal:

Molecular Immunology

Year:

2010

Language:

english

File:

PDF, 567 KB

english, 2010

18

PhosphoregDB: The tissue and sub-cellular distribution of mammalian protein kinases and phosphatases

Alistair RR Forrest, Darrin F Taylor, J Lynn Fink, M Milena Gongora, Cameron Flegg, Rohan D Teasdale, Harukazu Suzuki, Mutsumi Kanamori, Chikatoshi Kai, Yoshihide Hayashizaki, Sean M Grimmond

Journal:

BMC Bioinformatics

Year:

2006

Language:

english

File:

PDF, 1.31 MB

english, 2006

19

A murine specific expansion of theRhoxcluster involved in embryonic stem cell biology is under natural selection

Melany Jackson, Alistair J Watt, Philippe Gautier, Derek Gilchrist, Johanna Driehaus, Gerard J Graham, Jon Keebler, Franck Prugnolle, Philip Awadalla, Lesley M Forrester

Journal:

Year:

2006

Language:

english

File:

PDF, 881 KB

english, 2006

20

Long non-coding antisense RNA controls Uchl1 translation through an embedded SINEB2 repeat

Carrieri, Claudia, Cimatti, Laura, Biagioli, Marta, Beugnet, Anne, Zucchelli, Silvia, Fedele, Stefania, Pesce, Elisa, Ferrer, Isidre, Collavin, Licio, Santoro, Claudio, Forrest, Alistair R. R., Carnin

Journal:

Year:

2012

Language:

english

File:

PDF, 692 KB

english, 2012

21

A rescue strategy for multimapping short sequence tags refines surveys of transcriptional activity by CAGE

Geoffrey J. Faulkner, Alistair R.R. Forrest, Alistair M. Chalk, Kate Schroder, Yoshihide Hayashizaki, Piero Carninci, David A. Hume, Sean M. Grimmond

Journal:

Year:

2008

Language:

english

File:

PDF, 767 KB

english, 2008

22

A gene trap integration provides an early in situ marker for hepatic specification of the foregut endoderm

Alistair J. Watt, Elizabeth A. Jones, Jan M. Ure, Diana Peddie, David I. Wilson, Lesley M. Forrester

Journal:

Mechanisms of Development

Year:

2001

Language:

english

File:

PDF, 1.28 MB

english, 2001

23

Pax9 and Jagged1 act downstream of Gli3 in vertebrate limb development

Edwina McGlinn, Kelly Lammerts van Bueren, Salvatore Fiorenza, Rong Mo, Alisa M. Poh, Alistair Forrest, Marcelo Bento Soares, Maria de Fatima Bonaldo, Sean Grimmond, Chi-chung Hui, Brandon Wainwright,

Journal:

Mechanisms of Development

Year:

2005

Language:

english

File:

PDF, 606 KB

english, 2005

24

Tissue-specific gene expression in soybean (Glycine max) detected by cDNA microarray analysis

Tina L. Maguire, Sean Grimmond, Alistair Forrest, Inaki Iturbe-Ormaetxe, Khalid Meksem, Peter Gresshoff

Journal:

Journal of Plant Physiology

Year:

2002

Language:

english

File:

PDF, 137 KB

english, 2002

25

Regulatory interdependence of myeloid transcription factors revealed by Matrix RNAi analysis

Yasuhiro Tomaru, Christophe Simon, Alistair RR Forrest, Hisashi Miura…

Journal:

Year:

2009

Language:

english

File:

PDF, 1.57 MB

english, 2009

26

Alternate transcription of the Toll-like receptor signaling cascade

Christine A Wells, Alistair M Chalk, Alistair Forrest, Darrin Taylor…

Journal:

Year:

2006

Language:

english

File:

PDF, 1.26 MB

english, 2006

27

Genome-wide review of transcriptional complexity in mouse protein kinases and phosphatases

Alistair RR Forrest, Darrin F Taylor, Mark L Crowe, Alistair M Chalk…

Journal:

Year:

2006

Language:

english

File:

PDF, 1.85 MB

english, 2006

28

Transcriptional profiling of the human fibrillin/LTBP gene family, key regulators of mesenchymal cell functions

Davis, Margaret R., Andersson, Robin, Severin, Jessica, de Hoon, Michiel, Bertin, Nicolas, Baillie, J. Kenneth, Kawaji, Hideya, Sandelin, Albin, Forrest, Alistair R.R., Summers, Kim M.

Journal:

Molecular Genetics and Metabolism

Year:

2014

Language:

english

File:

PDF, 1.25 MB

english, 2014

29

An Induction Gene Trap Screen in Embryonic Stem Cells: Identification of Genes that Respond to Retinoic Acid in vitro

Lesley M. Forrester, Andras Nagy, Mehran Sam, Alistair Watt, Lois Stevenson, Alan Bernstein, Alexandra L. Joyner and Wolfgang Wurst

Journal:

Proceedings of the National Academy of Sciences

Year:

1996

Language:

english

File:

PDF, 514 KB

english, 1996

30

Effects of cytosine methylation on transcription factor binding sites

Medvedeva, Yulia A, Khamis, Abdullah M, Kulakovskiy, Ivan V, Ba-Alawi, Wail, Bhuyan, Md Shariful I, Kawaji, Hideya, Lassmann, Timo, Harbers, Matthias, Forrest, Alistair RR, Bajic, Vladimir B

Journal:

Year:

2014

Language:

english

File:

PDF, 486 KB

english, 2014

31

Chromatin states reveal functional associations for globally defined transcription start sites in four human cell lines

Rye, Morten, Sandve, Geir, Daub, Carsten O, Kawaji, Hideya, Carninci, Piero, Forrest, Alistair RR, Drabløs, Finn

Journal:

Year:

2014

Language:

english

File:

PDF, 1017 KB

english, 2014

32

RECLU: a pipeline to discover reproducible transcriptional start sites and their alternative regulation using capped analysis of gene expression (CAGE)

Ohmiya, Hiroko, Vitezic, Morana, Frith, Martin C, Itoh, Masayoshi, Carninci, Piero, Forrest, Alistair RR, Hayashizaki, Yoshihide, Lassmann, Timo

Journal:

Year:

2014

Language:

english

File:

PDF, 1.16 MB

english, 2014

33

CCL2 enhances pluripotency of human induced pluripotent stem cells by activating hypoxia related genes

Hasegawa, Yuki, Tang, Dave, Takahashi, Naoko, Hayashizaki, Yoshihide, Forrest, Alistair R. R., the FANTOM consortium,, Suzuki, Harukazu

Journal:

Scientific Reports

Year:

2014

Language:

english

File:

PDF, 1.39 MB

english, 2014

34

Extra-Anatomic Urinary Diversion

PATERSON, PETER J., FORRESTER, ALISTAIR

Journal:

Journal of Endourology

Year:

1997

Language:

english

File:

PDF, 224 KB

english, 1997

35

The statistical geometry of transcriptome divergence in cell-type evolution and cancer

Liang, Cong, Forrest, Alistair R.R., Wagner, Günter P.

Journal:

Nature Communications

Year:

2015

Language:

english

File:

PDF, 320 KB

english, 2015

36

A simple metric of promoter architecture robustly predicts expression breadth of human genes suggesting that most transcription factors are positive regulators

Hurst, Laurence D, Sachenkova, Oxana, Daub, Carsten, Forrest, Alistair, Huminiecki, Lukasz

Journal:

Year:

2014

Language:

english

File:

PDF, 2.52 MB

english, 2014

37

Retinoic acid potentiates inflammatory cytokines in human mast cells: Identification of mast cells as prominent constituents of the skin retinoid network

Babina, Magda, Guhl, Sven, Motakis, Efthymios, Artuc, Metin, Hazzan, Tarek, Worm, Margitta, Forrest, Alistair R.R., Zuberbier, Torsten

Journal:

Molecular and Cellular Endocrinology

Year:

2015

Language:

english

File:

PDF, 1.37 MB

english, 2015

38

The Abundance of Short Proteins in the Mammalian Proteome

Frith, Martin C., Forrest, Alistair R., Nourbakhsh, Ehsan, Pang, Ken C., Kai, Chikatoshi, Kawai, Jun, Carninci, Piero, Hayashizaki, Yoshihide, Bailey, Timothy L., Grimmond, Sean M.

Journal:

Year:

2006

Language:

english

File:

PDF, 658 KB

english, 2006

39

Pseudo–Messenger RNA: Phantoms of the Transcriptome

Frith, Martin C., Wilming, Laurens G., Forrest, Alistair, Kawaji, Hideya, Tan, Sin Lam, Wahlestedt, Claes, Bajic, Vladimir B., Kai, Chikatoshi, Kawai, Jun, Carninci, Piero, Hayashizaki, Yoshihide, Bai

Journal:

Year:

2006

Language:

english

File:

PDF, 570 KB

english, 2006

40

Neurosis, Motivation and the Industrial Setting

Forrest, Alistair

Journal:

Occupational Medicine

Year:

1970

Language:

english

File:

PDF, 354 KB

english, 1970

41

Transcriptional Dynamics Reveal Critical Roles for Non-coding RNAs in the Immediate-Early Response

Aitken, Stuart, Magi, Shigeyuki, Alhendi, Ahmad M. N., Itoh, Masayoshi, Kawaji, Hideya, Lassmann, Timo, Daub, Carsten O., Arner, Erik, Carninci, Piero, Forrest, Alistair R. R., Hayashizaki, Yoshihide,

Journal:

PLoS Computational Biology

Year:

2015

Language:

english

File:

PDF, 720 KB

english, 2015

42

A draft network of ligand–receptor-mediated multicellular signalling in human

Ramilowski, Jordan A., Goldberg, Tatyana, Harshbarger, Jayson, Kloppman, Edda, Lizio, Marina, Satagopam, Venkata P., Itoh, Masayoshi, Kawaji, Hideya, Carninci, Piero, Rost, Burkhard, Forrest, Alistair

Journal:

Nature Communications

Year:

2015

Language:

english

File:

PDF, 687 KB

english, 2015

43

Whole genome transcriptome analysis

Forrest, Alistair R.R., Carninci, Piero

Journal:

Year:

2009

Language:

english

File:

PDF, 377 KB

english, 2009

44

The frequent evolutionary birth and death of functional promoters in mouse and human

Young, Robert S, Hayashizaki, Yosihide, Andersson, Robin, Sandelin, Albin, Kawaji, Hideya, Itoh, Masayoshi, Lassmann, Timo, Carninci, Piero, Bickmore, Wendy A, Forrest, Alistair R, Taylor, Martin S

Journal:

Genome Research

Year:

2015

Language:

english

File:

PDF, 928 KB

english, 2015

45

Complementing tissue characterization by integrating transcriptome profiling from the Human Protein Atlas and from the FANTOM5 consortium

Yu, Nancy Yiu-Lin, Hallström, Björn M., Fagerberg, Linn, Ponten, Fredrik, Kawaji, Hideya, Carninci, Piero, Forrest, Alistair R. R., FANTOM Consortium, The, Hayashizaki, Yoshihide, Uhlén, Mathias, Daub

Journal:

Nucleic Acids Research

Year:

2015

Language:

english

File:

PDF, 2.97 MB

english, 2015

46

A randomized trial comparing transjugular intrahepatic portosystemic stent-shunt with variceal band ligation in the prevention of rebleeding from esophageal varices

Jalan, Rajiv, Forrest, Ewan H., Stanley, Adrian J., Redhead, Doris N., Forbes, John, Dillon, John F., MacGilchrist, Alistair J., Finlayson, Niall D.C., Hayes, Peter C.

Journal:

European Journal of Gastroenterology & Hepatology

Year:

1998

File:

PDF, 98 KB

1998

47

CAGEd-oPOSSUM: motif enrichment analysis from CAGE-derived TSSs

Arenillas, David J., Forrest, Alistair R. R., Kawaji, Hideya, Lassmann, Timo, Wasserman, Wyeth W., Mathelier, Anthony

Journal:

Year:

2016

Language:

english

File:

PDF, 286 KB

english, 2016

48

Reinforcing the association between distal 1q CNVs and structural brain disorder: A case of a complex 1q43-q44 CNV and a review of the literature

Hemming, Isabel A., Forrest, Alistair R. R., Shipman, Peter, Woodward, Karen J., Walsh, Peter, Ravine, David G., Heng, Julian Ik-Tsen

Journal:

American Journal of Medical Genetics Part B: Neuropsychiatric Genetics

Year:

2016

Language:

english

File:

PDF, 1.52 MB

english, 2016

49

A Role for MOSPD1 in Mesenchymal Stem Cell Proliferation and Differentiation

Kara, Madina, Axton, Richard A., Jackson, Melany, Ghaffari, Sahar, Buerger, Katrin, Watt, Alistair J., Taylor, A. Helen, Orr, Brigid, Hardy, Winters R., Peault, Bruno, Forrester, Lesley M.

Journal:

Year:

2015

Language:

english

File:

PDF, 545 KB

english, 2015

50

New era in genetics of early onset muscle disease: Breakthroughs and challenges

Ravenscroft, Gianina, Davis, Mark R., Lamont, Phillipa, Forrest, Alistair, Laing, Nigel G.

Journal:

Seminars in Cell & Developmental Biology

Year:

2016

Language:

english

File:

PDF, 869 KB

english, 2016

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