-
1
-
-
58049200457
-
OCT4 spliced variants are differentially expressed in human pluripotent and nonpluripotent cells
-
Atlasi Y., Mowla S.J., Ziaee S.A., Gokhale P.J., Andrews P.W. OCT4 spliced variants are differentially expressed in human pluripotent and nonpluripotent cells. Stem Cells 2008, 26:3068-3074.
-
(2008)
Stem Cells
, vol.26
, pp. 3068-3074
-
-
Atlasi, Y.1
Mowla, S.J.2
Ziaee, S.A.3
Gokhale, P.J.4
Andrews, P.W.5
-
2
-
-
77952029221
-
Deciphering the splicing code
-
Barash Y., Calarco J.A., Gao W., Pan Q., Wang X., Shai O., Blencowe B.J., Frey B.J. Deciphering the splicing code. Nature 2010, (465):53-59.
-
(2010)
Nature
, Issue.465
, pp. 53-59
-
-
Barash, Y.1
Calarco, J.A.2
Gao, W.3
Pan, Q.4
Wang, X.5
Shai, O.6
Blencowe, B.J.7
Frey, B.J.8
-
3
-
-
36248983165
-
Mediator complexes and eukaryotic transcription regulation: an overview
-
Casamassimi A., Napoli C. Mediator complexes and eukaryotic transcription regulation: an overview. Biochimie 2007, 89:1439-1446.
-
(2007)
Biochimie
, vol.89
, pp. 1439-1446
-
-
Casamassimi, A.1
Napoli, C.2
-
4
-
-
84873188319
-
Alternative splicing switching in stem cell lineages
-
Chepelev I., Chen X. Alternative splicing switching in stem cell lineages. Front. Biol. (Beijing) 2013, 8:50-59.
-
(2013)
Front. Biol. (Beijing)
, vol.8
, pp. 50-59
-
-
Chepelev, I.1
Chen, X.2
-
5
-
-
84872376792
-
The Mediator complex and transcription elongation
-
Conaway R.C., Conaway J.W. The Mediator complex and transcription elongation. Biochim. Biophys. Acta 2013, 1829:69-75.
-
(2013)
Biochim. Biophys. Acta
, vol.1829
, pp. 69-75
-
-
Conaway, R.C.1
Conaway, J.W.2
-
6
-
-
77955393112
-
Uncovering the complexity of transcriptomes with RNA-Seq
-
Costa V., Angelini C., De Feis I., Ciccodicola A. Uncovering the complexity of transcriptomes with RNA-Seq. J. Biomed. Biotechnol. 2010, 2010:853916.
-
(2010)
J. Biomed. Biotechnol.
, vol.2010
, pp. 853916
-
-
Costa, V.1
Angelini, C.2
De Feis, I.3
Ciccodicola, A.4
-
7
-
-
79955399112
-
Massive-scale RNA-Seq analysis of non ribosomal transcriptome in human trisomy 21
-
Costa V., Angelini C., D'Apice L., Mutarelli M., Casamassimi A., Sommese L., Gallo M.A., Aprile M., Esposito R., Leone L., Donizetti A., Crispi S., Rienzo M., Sarubbi B., Calabrò R., Picardi M., Salvatore P., Infante T., De Berardinis P., Napoli C., Ciccodicola A. Massive-scale RNA-Seq analysis of non ribosomal transcriptome in human trisomy 21. PLoS One 2011, 6:e18493.
-
(2011)
PLoS One
, vol.6
-
-
Costa, V.1
Angelini, C.2
D'Apice, L.3
Mutarelli, M.4
Casamassimi, A.5
Sommese, L.6
Gallo, M.A.7
Aprile, M.8
Esposito, R.9
Leone, L.10
Donizetti, A.11
Crispi, S.12
Rienzo, M.13
Sarubbi, B.14
Calabrò, R.15
Picardi, M.16
Salvatore, P.17
Infante, T.18
De Berardinis, P.19
Napoli, C.20
Ciccodicola, A.21
more..
-
8
-
-
84872493355
-
RNA-Seq and human complex diseases: recent accomplishments and future perspectives
-
Costa V., Aprile M., Esposito R., Ciccodicola A. RNA-Seq and human complex diseases: recent accomplishments and future perspectives. Eur. J. Hum. Genet. 2013, 21:134-142.
-
(2013)
Eur. J. Hum. Genet.
, vol.21
, pp. 134-142
-
-
Costa, V.1
Aprile, M.2
Esposito, R.3
Ciccodicola, A.4
-
9
-
-
82755162926
-
Alternative splicing produces Nanog protein variants with different capacities for self-renewal and pluripotency in embryonic stem cells
-
Das S., Jena S., Levasseur D.N. Alternative splicing produces Nanog protein variants with different capacities for self-renewal and pluripotency in embryonic stem cells. J. Biol. Chem. 2011, 286:42690-42703.
-
(2011)
J. Biol. Chem.
, vol.286
, pp. 42690-42703
-
-
Das, S.1
Jena, S.2
Levasseur, D.N.3
-
10
-
-
80052223272
-
An alternative splicing switch regulates embryonic stem cell pluripotency and reprogramming
-
Gabut M., Samavarchi-Tehrani P., Wang X., Slobodeniuc V., O'Hanlon D., Sung H.K., Alvarez M., Talukder S., Pan Q., Mazzoni E.O., Nedelec S., Wichterle H., Woltjen K., Hughes T.R., Zandstra P.W., Nagy A., Wrana J.L., Blencowe B.J. An alternative splicing switch regulates embryonic stem cell pluripotency and reprogramming. Cell 2011, 147:132-146.
-
(2011)
Cell
, vol.147
, pp. 132-146
-
-
Gabut, M.1
Samavarchi-Tehrani, P.2
Wang, X.3
Slobodeniuc, V.4
O'Hanlon, D.5
Sung, H.K.6
Alvarez, M.7
Talukder, S.8
Pan, Q.9
Mazzoni, E.O.10
Nedelec, S.11
Wichterle, H.12
Woltjen, K.13
Hughes, T.R.14
Zandstra, P.W.15
Nagy, A.16
Wrana, J.L.17
Blencowe, B.J.18
-
11
-
-
84870899165
-
Deep sequence analysis of non-small cell lung cancer: integrated analysis of gene expression, alternative splicing, and single nucleotide variations in lung adenocarcinomas with and without oncogenic KRAS mutations
-
Kalari K.R., Rossell D., Necela B.M., Asmann Y.W., Nair A., Baheti S., Kachergus J.M., Younkin C.S., Baker T., Carr J.M., Tang X., Walsh M.P., Chai H.S., Sun Z., Hart S.N., Leontovich A.A., Hossain A., Kocher J.P., Perez E.A., Reisman D.N., Fields A.P., Thompson E.A. Deep sequence analysis of non-small cell lung cancer: integrated analysis of gene expression, alternative splicing, and single nucleotide variations in lung adenocarcinomas with and without oncogenic KRAS mutations. Front. Oncol. 2012, 2:12.
-
(2012)
Front. Oncol.
, vol.2
, pp. 12
-
-
Kalari, K.R.1
Rossell, D.2
Necela, B.M.3
Asmann, Y.W.4
Nair, A.5
Baheti, S.6
Kachergus, J.M.7
Younkin, C.S.8
Baker, T.9
Carr, J.M.10
Tang, X.11
Walsh, M.P.12
Chai, H.S.13
Sun, Z.14
Hart, S.N.15
Leontovich, A.A.16
Hossain, A.17
Kocher, J.P.18
Perez, E.A.19
Reisman, D.N.20
Fields, A.P.21
Thompson, E.A.22
more..
-
12
-
-
0036226603
-
BLAT - the BLAST-like alignment tool
-
Kent W.J. BLAT - the BLAST-like alignment tool. Genome Res. 2002, 12:656-664.
-
(2002)
Genome Res.
, vol.12
, pp. 656-664
-
-
Kent, W.J.1
-
13
-
-
59249093974
-
The human CDK8 subcomplex is a histone kinase that requires Med12 for activity and can function independently of mediator
-
Knuesel M.T., Meyer K.D., Donner A.J., Espinosa J.M., Taatjes D.J. The human CDK8 subcomplex is a histone kinase that requires Med12 for activity and can function independently of mediator. Mol. Cell. Biol. 2009, 29:650-661.
-
(2009)
Mol. Cell. Biol.
, vol.29
, pp. 650-661
-
-
Knuesel, M.T.1
Meyer, K.D.2
Donner, A.J.3
Espinosa, J.M.4
Taatjes, D.J.5
-
14
-
-
79952103374
-
Endothelial progenitor cells as therapeutic agents in the microcirculation: an update
-
Napoli C., Hayashi T., Cacciatore F., Casamassimi A., Casini C., Al-Omran M., Ignarro L.J. Endothelial progenitor cells as therapeutic agents in the microcirculation: an update. Atherosclerosis 2011, 215:9-22.
-
(2011)
Atherosclerosis
, vol.215
, pp. 9-22
-
-
Napoli, C.1
Hayashi, T.2
Cacciatore, F.3
Casamassimi, A.4
Casini, C.5
Al-Omran, M.6
Ignarro, L.J.7
-
15
-
-
84857060369
-
Unraveling framework of the ancestral Mediator complex in human diseases
-
Napoli C., Sessa M., Infante T., Casamassimi A. Unraveling framework of the ancestral Mediator complex in human diseases. Biochimie 2012, 94:579-587.
-
(2012)
Biochimie
, vol.94
, pp. 579-587
-
-
Napoli, C.1
Sessa, M.2
Infante, T.3
Casamassimi, A.4
-
16
-
-
26444554538
-
Diversification of stem cell molecular repertoire by alternative splicing
-
Pritsker M., Doniger T.T., Kramer L.C., Westcot S.E., Lemischka I.R. Diversification of stem cell molecular repertoire by alternative splicing. Proc. Natl. Acad. Sci. U. S. A. 2005, 102:14290-14295.
-
(2005)
Proc. Natl. Acad. Sci. U. S. A.
, vol.102
, pp. 14290-14295
-
-
Pritsker, M.1
Doniger, T.T.2
Kramer, L.C.3
Westcot, S.E.4
Lemischka, I.R.5
-
17
-
-
77953476159
-
Mediator subunits: gene expression pattern, a novel transcript identification and nuclear localization in human endothelial progenitor cells
-
Rienzo M., Nagel J., Casamassimi A., Giovane A., Dietzel S., Napoli C. Mediator subunits: gene expression pattern, a novel transcript identification and nuclear localization in human endothelial progenitor cells. Biochim. Biophys. Acta 2010, 1799:487-495.
-
(2010)
Biochim. Biophys. Acta
, vol.1799
, pp. 487-495
-
-
Rienzo, M.1
Nagel, J.2
Casamassimi, A.3
Giovane, A.4
Dietzel, S.5
Napoli, C.6
-
18
-
-
84862886232
-
Distinct alternative splicing patterns of mediator subunit genes during endothelial progenitor cell differentiation
-
Rienzo M., Casamassimi A., Schiano C., Grimaldi V., Infante T., Napoli C. Distinct alternative splicing patterns of mediator subunit genes during endothelial progenitor cell differentiation. Biochimie 2012, 94:1828-1832.
-
(2012)
Biochimie
, vol.94
, pp. 1828-1832
-
-
Rienzo, M.1
Casamassimi, A.2
Schiano, C.3
Grimaldi, V.4
Infante, T.5
Napoli, C.6
-
19
-
-
84878537095
-
Identification of valid reference housekeeping genes for gene expression analysis in tumor neovascularization studies
-
Rienzo M., Schiano C., Casamassimi A., Grimaldi V., Infante T., Napoli C. Identification of valid reference housekeeping genes for gene expression analysis in tumor neovascularization studies. Clin. Transl. Oncol. 2013, 15:211-218.
-
(2013)
Clin. Transl. Oncol.
, vol.15
, pp. 211-218
-
-
Rienzo, M.1
Schiano, C.2
Casamassimi, A.3
Grimaldi, V.4
Infante, T.5
Napoli, C.6
-
20
-
-
73449125132
-
Alternative splicing in the differentiation of human embryonic stem cells into cardiac precursors
-
Salomonis N., Nelson B., Vranizan K., Pico A.R., Hanspers K., Kuchinsky A., Ta L., Mercola M., Conklin B.R. Alternative splicing in the differentiation of human embryonic stem cells into cardiac precursors. PLoS Comput. Biol. 2009, 5:e1000553.
-
(2009)
PLoS Comput. Biol.
, vol.5
-
-
Salomonis, N.1
Nelson, B.2
Vranizan, K.3
Pico, A.R.4
Hanspers, K.5
Kuchinsky, A.6
Ta, L.7
Mercola, M.8
Conklin, B.R.9
-
21
-
-
77953764202
-
Alternative splicing regulates mouse embryonic stem cell pluripotency and differentiation
-
Salomonis N., Schlieve C.R., Pereira L., Wahlquist C., Colas A., Zambon A.C., Vranizan K., Spindler M.J., Pico A.R., Cline M.S., Clark T.A., Williams A., Blume J.E., Samal E., Mercola M., Merrill B.J., Conklin B.R. Alternative splicing regulates mouse embryonic stem cell pluripotency and differentiation. Proc. Natl. Acad. Sci. U. S. A. 2010, 107:10514-10519.
-
(2010)
Proc. Natl. Acad. Sci. U. S. A.
, vol.107
, pp. 10514-10519
-
-
Salomonis, N.1
Schlieve, C.R.2
Pereira, L.3
Wahlquist, C.4
Colas, A.5
Zambon, A.C.6
Vranizan, K.7
Spindler, M.J.8
Pico, A.R.9
Cline, M.S.10
Clark, T.A.11
Williams, A.12
Blume, J.E.13
Samal, E.14
Mercola, M.15
Merrill, B.J.16
Conklin, B.R.17
-
22
-
-
84906546336
-
AnaLysis of Expression on human chromosome 21, ALE-HSA21: a pilot integrated web resource
-
bau009
-
Scarpato M., Esposito R., Evangelista D., Aprile M., Ambrosio M.R., Angelini C., Ciccodicola A., Costa V. AnaLysis of Expression on human chromosome 21, ALE-HSA21: a pilot integrated web resource. Database (Oxford) 2014, bau009.
-
(2014)
Database (Oxford)
-
-
Scarpato, M.1
Esposito, R.2
Evangelista, D.3
Aprile, M.4
Ambrosio, M.R.5
Angelini, C.6
Ciccodicola, A.7
Costa, V.8
-
23
-
-
80052034056
-
The structure of CDK8/CycC implicates specificity in the CDK/cyclin family and reveals interaction with a deep pocket binder
-
Schneider E.V., Böttcher J., Blaesse M., Neumann L., Huber R., Maskos K. The structure of CDK8/CycC implicates specificity in the CDK/cyclin family and reveals interaction with a deep pocket binder. J. Mol. Biol. 2011, 412:251-266.
-
(2011)
J. Mol. Biol.
, vol.412
, pp. 251-266
-
-
Schneider, E.V.1
Böttcher, J.2
Blaesse, M.3
Neumann, L.4
Huber, R.5
Maskos, K.6
-
24
-
-
43049179830
-
Multiple roles for Med12 in vertebrate endoderm development
-
Shin C.H., Chung W.S., Hong S.K., Ober E.A., Verkade H., Field H.A., Huisken J., Stainier D.Y. Multiple roles for Med12 in vertebrate endoderm development. Dev. Biol. 2008, 317:467-479.
-
(2008)
Dev. Biol.
, vol.317
, pp. 467-479
-
-
Shin, C.H.1
Chung, W.S.2
Hong, S.K.3
Ober, E.A.4
Verkade, H.5
Field, H.A.6
Huisken, J.7
Stainier, D.Y.8
-
25
-
-
65449136284
-
TopHat: discovering splice junctions with RNA-Seq
-
Trapnell C., Pachter L., Salzberg S.L. TopHat: discovering splice junctions with RNA-Seq. Bioinformatics 2009, 25:1105-1111.
-
(2009)
Bioinformatics
, vol.25
, pp. 1105-1111
-
-
Trapnell, C.1
Pachter, L.2
Salzberg, S.L.3
-
26
-
-
79251644774
-
Whole transcriptome sequencing reveals gene expression and splicing differences in brain regions affected by Alzheimer's disease
-
Twine N.A., Janitz K., Wilkins M.R., Janitz M. Whole transcriptome sequencing reveals gene expression and splicing differences in brain regions affected by Alzheimer's disease. PLoS One 2011, 6:e16266.
-
(2011)
PLoS One
, vol.6
-
-
Twine, N.A.1
Janitz, K.2
Wilkins, M.R.3
Janitz, M.4
-
27
-
-
80053562921
-
Identification of potentially new bifunctional RNA based on genome-wide data-mining of alternative splicing events
-
Ulveling D., Francastel C., Hubé F. Identification of potentially new bifunctional RNA based on genome-wide data-mining of alternative splicing events. Biochimie 2011, 93:2024-2027.
-
(2011)
Biochimie
, vol.93
, pp. 2024-2027
-
-
Ulveling, D.1
Francastel, C.2
Hubé, F.3
-
28
-
-
33751209807
-
A subunit of the mediator complex regulates vertebrate neuronal development
-
Wang X., Yang N., Uno E., Roeder R.G., Guo S. A subunit of the mediator complex regulates vertebrate neuronal development. Proc. Natl. Acad. Sci. U. S. A. 2006, 103:17284-17289.
-
(2006)
Proc. Natl. Acad. Sci. U. S. A.
, vol.103
, pp. 17284-17289
-
-
Wang, X.1
Yang, N.2
Uno, E.3
Roeder, R.G.4
Guo, S.5
-
30
-
-
39449115394
-
I-TASSER server for protein 3D structure prediction
-
Zhang Y. I-TASSER server for protein 3D structure prediction. BMC Bioinformatics 2008, 9:40.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 40
-
-
Zhang, Y.1
|