Lassmann, Timo : rechercher sur Z-Library

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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

Année:

2009

Langue:

english

Fichier:

PDF, 980 KB

english, 2009

2

5′ end–centered expression profiling using cap-analysis gene expression and next-generation sequencing

Takahashi, Hazuki, Lassmann, Timo, Murata, Mitsuyoshi, Carninci, Piero

Journal:

Bioentrepreneur

Année:

2012

Langue:

english

Fichier:

PDF, 1.59 MB

english, 2012

3

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:

Année:

2014

Langue:

english

Fichier:

PDF, 6.75 MB

english, 2014

4

Transcriptional landscape of Mycobacterium tuberculosis infection in macrophages

Roy, Sugata, Schmeier, Sebastian, Kaczkowski, Bogumil, Arner, Erik, Alam, Tanvir, Ozturk, Mumin, Tamgue, Ousman, Parihar, Suraj P., Kawaji, Hideya, Itoh, Masayoshi, Lassmann, Timo, Carninci, Piero, Ha

Journal:

Scientific Reports

Année:

2018

Langue:

english

Fichier:

PDF, 5.14 MB

english, 2018

5

Correction to: Relatively frequent switching of transcription start sites during cerebellar development

Zhang, Peter, Dimont, Emmanuel, Ha, Thomas, Swanson, Douglas J., Itoh, Masayoshi, Kawaji, Hideya, Lassmann, Timo, Daub, Carsten O., Arner, Erik, Carninci, Piero, Hayashizaki, Yoshihide, Forrest, Alist

Journal:

Année:

2018

Langue:

english

Fichier:

PDF, 229 KB

english, 2018

6

An RNA-dependent RNA polymerase formed by TERT and the RMRP RNA

Maida, Yoshiko, Yasukawa, Mami, Furuuchi, Miho, Lassmann, Timo, Possemato, Richard, Okamoto, Naoko, Kasim, Vivi, Hayashizaki, Yoshihide, Hahn, William C., Masutomi, Kenkichi

Journal:

Année:

2009

Langue:

english

Fichier:

PDF, 663 KB

english, 2009

7

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

Année:

2009

Langue:

english

Fichier:

PDF, 392 KB

english, 2009

8

The regulated retrotransposon transcriptome of mammalian cells

Faulkner, Geoffrey J, Kimura, Yasumasa, Daub, Carsten O, Wani, Shivangi, Plessy, Charles, Irvine, Katharine M, Schroder, Kate, Cloonan, Nicole, Steptoe, Anita L, Lassmann, Timo

Journal:

Nature Genetics

Année:

2009

Langue:

english

Fichier:

PDF, 694 KB

english, 2009

9

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

Année:

2009

Langue:

english

Fichier:

PDF, 54 KB

english, 2009

10

Linking promoters to functional transcripts in small samples with nanoCAGE and CAGEscan

Plessy, Charles, Bertin, Nicolas, Takahashi, Hazuki, Simone, Roberto, Salimullah, Md, Lassmann, Timo, Vitezic, Morana, Severin, Jessica, Olivarius, Signe, Lazarevic, Dejan

Journal:

Année:

2010

Langue:

english

Fichier:

PDF, 1.13 MB

english, 2010

11

Kalign – an accurate and fast multiple sequence alignment algorithm

Timo Lassmann, Erik LL Sonnhammer

Journal:

BMC Bioinformatics

Année:

2005

Langue:

english

Fichier:

PDF, 292 KB

english, 2005

12

Automatic extraction of reliable regions from multiple sequence alignments

Timo Lassmann, Erik LL Sonnhammer

Journal:

BMC Bioinformatics

Année:

2007

Langue:

english

Fichier:

PDF, 1023 KB

english, 2007

13

The humanPINK1locus is regulatedin vivoby a non-coding natural antisense RNA during modulation of mitochondrial function

Camilla Scheele, Natasa Petrovic, Mohammad A Faghihi, Timo Lassmann, Katarina Fredriksson, Olav Rooyackers, Claes Wahlestedt, Liam Good, James A Timmons

Journal:

Année:

2007

Langue:

english

Fichier:

PDF, 562 KB

english, 2007

14

Quality assessment of multiple alignment programs

Timo Lassmann, Erik L.L Sonnhammer

Journal:

Année:

2002

Langue:

english

Fichier:

PDF, 376 KB

english, 2002

15

FANTOM4 EdgeExpressDB: an integrated database of promoters, genes, microRNAs, expression dynamics and regulatory interactions

Jessica Severin, Andrew M Waterhouse, Hideya Kawaji, Timo Lassmann…

Journal:

Année:

2009

Langue:

english

Fichier:

PDF, 568 KB

english, 2009

16

Landscape of transcription in human cells

Djebali, Sarah, Davis, Carrie A., Merkel, Angelika, Dobin, Alex, Lassmann, Timo, Mortazavi, Ali, Tanzer, Andrea, Lagarde, Julien, Lin, Wei, Schlesinger, Felix, Xue, Chenghai, Marinov, Georgi K., Khatu

Journal:

Année:

2012

Langue:

english

Fichier:

PDF, 3.45 MB

english, 2012

17

MOIRAI: a compact workflow system for CAGE analysis

Hasegawa, Akira, Daub, Carsten, Carninci, Piero, Hayashizaki, Yoshihide, Lassmann, Timo

Journal:

BMC Bioinformatics

Année:

2014

Langue:

english

Fichier:

PDF, 706 KB

english, 2014

18

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:

Année:

2014

Langue:

english

Fichier:

PDF, 486 KB

english, 2014

19

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:

Année:

2014

Langue:

english

Fichier:

PDF, 1.16 MB

english, 2014

20

TagDust2: a generic method to extract reads from sequencing data

Journal:

BMC Bioinformatics

Année:

2015

Langue:

english

Fichier:

PDF, 792 KB

english, 2015

21

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

Année:

2015

Langue:

english

Fichier:

PDF, 720 KB

english, 2015

22

Telomerase Reverse Transcriptase Regulates microRNAs

Lassmann, Timo, Maida, Yoshiko, Tomaru, Yasuhiro, Yasukawa, Mami, Ando, Yoshinari, Kojima, Miki, Kasim, Vivi, Simon, Christophe, Daub, Carsten, Carninci, Piero, Hayashizaki, Yoshihide, Masutomi, Kenki

Journal:

International Journal of Molecular Sciences

Année:

2015

Langue:

english

Fichier:

PDF, 721 KB

english, 2015

23

Off-Target Effect of Endogenous siRNA Derived from RMRP in Human Cells

Maida, Yoshiko, Kyo, Satoru, Lassmann, Timo, Hayashizaki, Yoshihide, Masutomi, Kenkichi

Journal:

International Journal of Molecular Sciences

Année:

2013

Langue:

english

Fichier:

PDF, 515 KB

english, 2013

24

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

Année:

2015

Langue:

english

Fichier:

PDF, 928 KB

english, 2015

25

Digital expression profiling of the compartmentalized translatome of Purkinje neurons

Kratz, Anton, Beguin, Pascal, Kaneko, Megumi, Chimura, Takahiko, Suzuki, Ana Maria, Matsunaga, Atsuko, Kato, Sachi, Bertin, Nicolas, Lassmann, Timo, Vigot, Réjan, Carninci, Piero, Plessy, Charles, Lau

Journal:

Genome Research

Année:

2014

Langue:

english

Fichier:

PDF, 1.84 MB

english, 2014

26

Redefining the transcriptional regulatory dynamics of classically and alternatively activated macrophages by deepCAGE transcriptomics

Roy, Sugata, Schmeier, Sebastian, Arner, Erik, Alam, Tanvir, Parihar, Suraj P., Ozturk, Mumin, Tamgue, Ousman, Kawaji, Hideya, de Hoon, Michiel J. L., Itoh, Masayoshi, Lassmann, Timo, Carninci, Piero,

Journal:

Nucleic Acids Research

Année:

2015

Langue:

english

Fichier:

PDF, 5.26 MB

english, 2015

27

Functional annotation of the vlinc class of non-coding RNAs using systems biology approach

Laurent, Georges St., Vyatkin, Yuri, Antonets, Denis, Ri, Maxim, Qi, Yao, Saik, Olga, Shtokalo, Dmitry, de Hoon, Michiel J.L., Kawaji, Hideya, Itoh, Masayoshi, Lassmann, Timo, Arner, Erik, Forrest, Al

Journal:

Nucleic Acids Research

Année:

2016

Langue:

english

Fichier:

PDF, 5.69 MB

english, 2016

28

DeepCAGE transcriptomics identify HOXD10 as transcription factor regulating lymphatic endothelial responses to VEGF-C

Klein, Sarah, Dieterich, Lothar C., Mathelier, Anthony, Chong, Chloé, Sliwa-Primorac, Adriana, Hong, Young-Kwon, Shin, Jay W., Lizio, Marina, Itoh, Masayoshi, Kawaji, Hideya, Lassmann, Timo, Daub, Car

Journal:

Journal of Cell Science

Année:

2016

Langue:

english

Fichier:

PDF, 3.05 MB

english, 2016

29

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:

Année:

2016

Langue:

english

Fichier:

PDF, 286 KB

english, 2016

30

Promoter-level expression clustering identifies time development of transcriptional regulatory cascades initiated by ErbB receptors in breast cancer cells

Mina, Marco, Magi, Shigeyuki, Jurman, Giuseppe, Itoh, Masayoshi, Kawaji, Hideya, Lassmann, Timo, Arner, Erik, Forrest, Alistair R. R., Carninci, Piero, Hayashizaki, Yoshihide, Daub, Carsten O., Okada-

Journal:

Scientific Reports

Année:

2015

Langue:

english

Fichier:

PDF, 2.06 MB

english, 2015

31

Transcriptional Dynamics During Human Adipogenesis and its Link to Adipose Morphology and Distribution

Ehrlund, Anna, Mejhert, Niklas, Björk, Christel, Andersson, Robin, Kulyté, Agné, Åström, Gaby, Itoh, Masayoshi, Kawaji, Hideya, Lassmann, Timo, Daub, Carsten O, Carninci, Piero, Forrest, Alistair RR,

Journal:

Année:

2016

Langue:

english

Fichier:

PDF, 4.56 MB

english, 2016

32

YY1 binding association with sex-biased transcription revealed through X-linked transcript levels and allelic binding analyses

Chen, Chih-yu, Shi, Wenqiang, Balaton, Bradley P., Matthews, Allison M., Li, Yifeng, Arenillas, David J., Mathelier, Anthony, Itoh, Masayoshi, Kawaji, Hideya, Lassmann, Timo, Hayashizaki, Yoshihide, C

Journal:

Scientific Reports

Année:

2016

Langue:

english

Fichier:

PDF, 5.20 MB

english, 2016

33

Transcriptome analysis of periodontitis-associated fibroblasts by CAGE sequencing identified DLX5 and RUNX2 long variant as novel regulators involved in periodontitis

Horie, Masafumi, Yamaguchi, Yoko, Saito, Akira, Nagase, Takahide, Lizio, Marina, Itoh, Masayoshi, Kawaji, Hideya, Lassmann, Timo, Carninci, Piero, Forrest, Alistair R. R., Hayashizaki, Yoshihide, Suzu

Journal:

Scientific Reports

Année:

2016

Langue:

english

Fichier:

PDF, 1.91 MB

english, 2016

34

Integrative CAGE and DNA Methylation Profiling Identify Epigenetically Regulated Genes in NSCLC

Horie, Masafumi, Kaczkowski, Bogumil, Ohshima, Mitsuhiro, Matsuzaki, Hirotaka, Noguchi, Satoshi, Mikami, Yu, Lizio, Marina, Itoh, Masayoshi, Kawaji, Hideya, Lassmann, Timo, Carninci, Piero, Hayashizak

Journal:

Molecular Cancer Research

Année:

2017

Langue:

english

Fichier:

PDF, 3.04 MB

english, 2017

35

Reference genotype and exome data from an Australian Aboriginal population for health-based research

Tang, Dave, Anderson, Denise, Francis, Richard W., Syn, Genevieve, Jamieson, Sarra E., Lassmann, Timo, Blackwell, Jenefer M.

Journal:

Scientific Data

Année:

2016

Langue:

english

Fichier:

PDF, 540 KB

english, 2016

36

Linking FANTOM5 CAGE peaks to annotations with CAGEscan

Bertin, Nicolas, Mendez, Mickaël, Hasegawa, Akira, Lizio, Marina, Abugessaisa, Imad, Severin, Jessica, Sakai-Ohno, Mizuho, Lassmann, Timo, Kasukawa, Takeya, Kawaji, Hideya, Hayashizaki, Yoshihide, For

Journal:

Scientific Data

Année:

2017

Langue:

english

Fichier:

PDF, 1.41 MB

english, 2017

37

Monitoring transcription initiation activities in rat and dog

Lizio, Marina, Mukarram, Abdul Kadir, Ohno, Mizuho, Watanabe, Shoko, Itoh, Masayoshi, Hasegawa, Akira, Lassmann, Timo, Severin, Jessica, Harshbarger, Jayson, Abugessaisa, Imad, Kasukawa, Takeya, Hon,

Journal:

Scientific Data

Année:

2017

Langue:

english

Fichier:

PDF, 1.95 MB

english, 2017

38

Discovery of Transcription Factors Novel to Mouse Cerebellar Granule Cell Development Through Laser-Capture Microdissection

Zhang, Peter G. Y., Yeung, Joanna, Gupta, Ishita, Ramirez, Miguel, Ha, Thomas, Swanson, Douglas J., Nagao-Sato, Sayaka, Itoh, Masayoshi, Kawaji, Hideya, Lassmann, Timo, Daub, Carsten O., Arner, Erik,

Journal:

Année:

2018

Langue:

english

Fichier:

PDF, 1.34 MB

english, 2018

39

Transcription start site profiling of 15 anatomical regions of the Macaca mulatta central nervous system

Francescatto, Margherita, Lizio, Marina, Philippens, Ingrid, Bontrop, Ronald, Sakai, Mizuho, Watanabe, Shoko, Itoh, Masayoshi, Hasegawa, Akira, Lassmann, Timo, Severin, Jessica, Harshbarger, Jayson, A

Journal:

Scientific Data

Année:

2017

Langue:

english

Fichier:

PDF, 1.74 MB

english, 2017

40

A phenotype centric benchmark of variant prioritisation tools

Anderson, Denise, Lassmann, Timo

Journal:

npj Genomic Medicine

Année:

2018

Langue:

english

Fichier:

PDF, 1.60 MB

english, 2018

41

Systematic analysis of transcription start sites in avian development

Lizio, Marina, Deviatiiarov, Ruslan, Nagai, Hiroki, Galan, Laura, Arner, Erik, Itoh, Masayoshi, Lassmann, Timo, Kasukawa, Takeya, Hasegawa, Akira, Ros, Marian A., Hayashizaki, Yoshihide, Carninci, Pie

Journal:

Année:

2017

Langue:

english

Fichier:

PDF, 14.72 MB

english, 2017

42

Analysis of the human monocyte-derived macrophage transcriptome and response to lipopolysaccharide provides new insights into genetic aetiology of inflammatory bowel disease

Baillie, J. Kenneth, Arner, Erik, Daub, Carsten, De Hoon, Michiel, Itoh, Masayoshi, Kawaji, Hideya, Lassmann, Timo, Carninci, Piero, Forrest, Alistair R. R., Hayashizaki, Yoshihide, Faulkner, Geoffrey

Journal:

Année:

2017

Langue:

english

Fichier:

PDF, 5.83 MB

english, 2017

43

Automated Workflow for Preparation of cDNA for Cap Analysis of Gene Expression on a Single Molecule Sequencer

Itoh, Masayoshi, Kojima, Miki, Nagao-Sato, Sayaka, Saijo, Eri, Lassmann, Timo, Kanamori-Katayama, Mutsumi, Kaiho, Ai, Lizio, Marina, Kawaji, Hideya, Carninci, Piero, Forrest, Alistair R. R., Hayashiza

Journal:

Année:

2012

Langue:

english

Fichier:

PDF, 452 KB

english, 2012

44

Ceruloplasmin Is a Novel Adipokine Which Is Overexpressed in Adipose Tissue of Obese Subjects and in Obesity-Associated Cancer Cells

Arner, Erik, Forrest, Alistair R. R., Ehrlund, Anna, Mejhert, Niklas, Itoh, Masayoshi, Kawaji, Hideya, Lassmann, Timo, Laurencikiene, Jurga, Rydén, Mikael, Arner, Peter, Wu, Qiong

Journal:

Année:

2014

Langue:

english

Fichier:

PDF, 881 KB

english, 2014

45

Application of Gene Expression Trajectories Initiated from ErbB Receptor Activation Highlights the Dynamics of Divergent Promoter Usage

Carbajo, Daniel, Magi, Shigeyuki, Itoh, Masayoshi, Kawaji, Hideya, Lassmann, Timo, Arner, Erik, Forrest, Alistair R. R., Carninci, Piero, Hayashizaki, Yoshihide, Daub, Carsten O., Okada-Hatakeyama, Ma

Journal:

Année:

2015

Langue:

english

Fichier:

PDF, 3.24 MB

english, 2015

46

Mapping Mammalian Cell-type-specific Transcriptional Regulatory Networks Using KD-CAGE and ChIP-seq Data in the TC-YIK Cell Line

Lizio, Marina, Ishizu, Yuri, Itoh, Masayoshi, Lassmann, Timo, Hasegawa, Akira, Kubosaki, Atsutaka, Severin, Jessica, Kawaji, Hideya, Nakamura, Yukio, Suzuki, Harukazu, Hayashizaki, Yoshihide, Carninci

Journal:

Frontiers in Genetics

Année:

2015

Langue:

english

Fichier:

PDF, 3.93 MB

english, 2015

47

Arylsulphatase A Pseudodeficiency (ARSA-PD), hypertension and chronic renal disease in Aboriginal Australians

Tang, Dave, Fakiola, Michaela, Syn, Genevieve, Anderson, Denise, Cordell, Heather J., Scaman, Elizabeth S. H., Davis, Elizabeth, Miles, Simon J., McLeay, Toby, Jamieson, Sarra E., Lassmann, Timo, Blac

Journal:

Scientific Reports

Année:

2018

Langue:

english

Fichier:

PDF, 2.62 MB

english, 2018

48

Elucidating the Interaction of CF Airway Epithelial Cells and Rhinovirus: Using the Host-Pathogen Relationship to Identify Future Therapeutic Strategies

Ling, Kak-Ming, Garratt, Luke W., Lassmann, Timo, Stick, Stephen M., Kicic, Anthony

Journal:

Frontiers in Pharmacology

Année:

2018

Langue:

english

Fichier:

PDF, 1020 KB

english, 2018

49

Antisense Transcription in Loci Associated to Hereditary Neurodegenerative Diseases

Zucchelli, Silvia, Fedele, Stefania, Vatta, Paolo, Calligaris, Raffaella, Heutink, Peter, Rizzu, Patrizia, Itoh, Masayoshi, Persichetti, Francesca, Santoro, Claudio, Kawaji, Hideya, Lassmann, Timo, Ha

Journal:

Molecular Neurobiology

Année:

2019

Langue:

english

Fichier:

PDF, 2.18 MB

english, 2019

50

Conserved temporal ordering of promoter activation implicates common mechanisms governing the immediate early response across cell types and stimuli

Vacca, Annalaura, Itoh, Masayoshi, Kawaji, Hideya, Arner, Erik, Lassmann, Timo, Daub, Carsten O., Carninci, Piero, Forrest, Alistair R. R., Hayashizaki, Yoshihide, Aitken, Stuart, Semple, Colin A.

Journal:

Année:

2018

Langue:

english

Fichier:

PDF, 991 KB

english, 2018