Transcriptome
A. Amlie-Wolf, Ryvkin, P., Tong, R., Dragomir, I., Suh, E. R., Xu, Y., Van Deerlin, V. M., Gregory, B. D., Kwong, L. K., Trojanowski, J. Q., Lee, V. M. - Y., San Wang, L. -, and Lee, E. B.,
“Transcriptomic Changes Due to Cytoplasmic TDP-43 Expression Reveal Dysregulation of Histone Transcripts and Nuclear Chromatin.”,
PLoS One, vol. 10, no. 10, p. e0141836, 2015.
Software
P. Ryvkin, Leung, Y. Yee, Silverman, I. M., Childress, M., Valladares, O., Dragomir, I., Gregory, B. D., and San Wang, L. -,
“HAMR: high-throughput annotation of modified ribonucleotides.”,
RNA, vol. 19, no. 12, pp. 1684-92, 2013.
Sequence Deletion
A. Amlie-Wolf, Ryvkin, P., Tong, R., Dragomir, I., Suh, E. R., Xu, Y., Van Deerlin, V. M., Gregory, B. D., Kwong, L. K., Trojanowski, J. Q., Lee, V. M. - Y., San Wang, L. -, and Lee, E. B.,
“Transcriptomic Changes Due to Cytoplasmic TDP-43 Expression Reveal Dysregulation of Histone Transcripts and Nuclear Chromatin.”,
PLoS One, vol. 10, no. 10, p. e0141836, 2015.
Sequence Analysis, RNA
P. Ryvkin, Leung, Y. Yee, Silverman, I. M., Childress, M., Valladares, O., Dragomir, I., Gregory, B. D., and San Wang, L. -,
“HAMR: high-throughput annotation of modified ribonucleotides.”,
RNA, vol. 19, no. 12, pp. 1684-92, 2013.
Sequence Alignment
P. Ryvkin, Leung, Y. Yee, Silverman, I. M., Childress, M., Valladares, O., Dragomir, I., Gregory, B. D., and San Wang, L. -,
“HAMR: high-throughput annotation of modified ribonucleotides.”,
RNA, vol. 19, no. 12, pp. 1684-92, 2013.
Saccharomyces cerevisiae
P. Ryvkin, Leung, Y. Yee, Silverman, I. M., Childress, M., Valladares, O., Dragomir, I., Gregory, B. D., and San Wang, L. -,
“HAMR: high-throughput annotation of modified ribonucleotides.”,
RNA, vol. 19, no. 12, pp. 1684-92, 2013.
RNA, Transfer
P. Ryvkin, Leung, Y. Yee, Silverman, I. M., Childress, M., Valladares, O., Dragomir, I., Gregory, B. D., and San Wang, L. -,
“HAMR: high-throughput annotation of modified ribonucleotides.”,
RNA, vol. 19, no. 12, pp. 1684-92, 2013.
RNA Splicing
A. Amlie-Wolf, Ryvkin, P., Tong, R., Dragomir, I., Suh, E. R., Xu, Y., Van Deerlin, V. M., Gregory, B. D., Kwong, L. K., Trojanowski, J. Q., Lee, V. M. - Y., San Wang, L. -, and Lee, E. B.,
“Transcriptomic Changes Due to Cytoplasmic TDP-43 Expression Reveal Dysregulation of Histone Transcripts and Nuclear Chromatin.”,
PLoS One, vol. 10, no. 10, p. e0141836, 2015.
RNA Processing, Post-Transcriptional
P. Ryvkin, Leung, Y. Yee, Silverman, I. M., Childress, M., Valladares, O., Dragomir, I., Gregory, B. D., and San Wang, L. -,
“HAMR: high-throughput annotation of modified ribonucleotides.”,
RNA, vol. 19, no. 12, pp. 1684-92, 2013.
RNA
P. Ryvkin, Leung, Y. Yee, Silverman, I. M., Childress, M., Valladares, O., Dragomir, I., Gregory, B. D., and San Wang, L. -,
“HAMR: high-throughput annotation of modified ribonucleotides.”,
RNA, vol. 19, no. 12, pp. 1684-92, 2013.
Reproducibility of Results
A. Amlie-Wolf, Ryvkin, P., Tong, R., Dragomir, I., Suh, E. R., Xu, Y., Van Deerlin, V. M., Gregory, B. D., Kwong, L. K., Trojanowski, J. Q., Lee, V. M. - Y., San Wang, L. -, and Lee, E. B.,
“Transcriptomic Changes Due to Cytoplasmic TDP-43 Expression Reveal Dysregulation of Histone Transcripts and Nuclear Chromatin.”,
PLoS One, vol. 10, no. 10, p. e0141836, 2015.
Nuclear Localization Signals
A. Amlie-Wolf, Ryvkin, P., Tong, R., Dragomir, I., Suh, E. R., Xu, Y., Van Deerlin, V. M., Gregory, B. D., Kwong, L. K., Trojanowski, J. Q., Lee, V. M. - Y., San Wang, L. -, and Lee, E. B.,
“Transcriptomic Changes Due to Cytoplasmic TDP-43 Expression Reveal Dysregulation of Histone Transcripts and Nuclear Chromatin.”,
PLoS One, vol. 10, no. 10, p. e0141836, 2015.
Molecular Sequence Annotation
P. Ryvkin, Leung, Y. Yee, Silverman, I. M., Childress, M., Valladares, O., Dragomir, I., Gregory, B. D., and San Wang, L. -,
“HAMR: high-throughput annotation of modified ribonucleotides.”,
RNA, vol. 19, no. 12, pp. 1684-92, 2013.
Mice, Transgenic
A. Amlie-Wolf, Ryvkin, P., Tong, R., Dragomir, I., Suh, E. R., Xu, Y., Van Deerlin, V. M., Gregory, B. D., Kwong, L. K., Trojanowski, J. Q., Lee, V. M. - Y., San Wang, L. -, and Lee, E. B.,
“Transcriptomic Changes Due to Cytoplasmic TDP-43 Expression Reveal Dysregulation of Histone Transcripts and Nuclear Chromatin.”,
PLoS One, vol. 10, no. 10, p. e0141836, 2015.
Mice
A. Amlie-Wolf, Ryvkin, P., Tong, R., Dragomir, I., Suh, E. R., Xu, Y., Van Deerlin, V. M., Gregory, B. D., Kwong, L. K., Trojanowski, J. Q., Lee, V. M. - Y., San Wang, L. -, and Lee, E. B.,
“Transcriptomic Changes Due to Cytoplasmic TDP-43 Expression Reveal Dysregulation of Histone Transcripts and Nuclear Chromatin.”,
PLoS One, vol. 10, no. 10, p. e0141836, 2015.
Male
P. Ryvkin, Leung, Y. Yee, Silverman, I. M., Childress, M., Valladares, O., Dragomir, I., Gregory, B. D., and San Wang, L. -,
“HAMR: high-throughput annotation of modified ribonucleotides.”,
RNA, vol. 19, no. 12, pp. 1684-92, 2013.
Humans
P. Ryvkin, Leung, Y. Yee, Silverman, I. M., Childress, M., Valladares, O., Dragomir, I., Gregory, B. D., and San Wang, L. -,
“HAMR: high-throughput annotation of modified ribonucleotides.”,
RNA, vol. 19, no. 12, pp. 1684-92, 2013.
A. Amlie-Wolf, Ryvkin, P., Tong, R., Dragomir, I., Suh, E. R., Xu, Y., Van Deerlin, V. M., Gregory, B. D., Kwong, L. K., Trojanowski, J. Q., Lee, V. M. - Y., San Wang, L. -, and Lee, E. B.,
“Transcriptomic Changes Due to Cytoplasmic TDP-43 Expression Reveal Dysregulation of Histone Transcripts and Nuclear Chromatin.”,
PLoS One, vol. 10, no. 10, p. e0141836, 2015.
Histones
A. Amlie-Wolf, Ryvkin, P., Tong, R., Dragomir, I., Suh, E. R., Xu, Y., Van Deerlin, V. M., Gregory, B. D., Kwong, L. K., Trojanowski, J. Q., Lee, V. M. - Y., San Wang, L. -, and Lee, E. B.,
“Transcriptomic Changes Due to Cytoplasmic TDP-43 Expression Reveal Dysregulation of Histone Transcripts and Nuclear Chromatin.”,
PLoS One, vol. 10, no. 10, p. e0141836, 2015.
HEK293 Cells
P. Ryvkin, Leung, Y. Yee, Silverman, I. M., Childress, M., Valladares, O., Dragomir, I., Gregory, B. D., and San Wang, L. -,
“HAMR: high-throughput annotation of modified ribonucleotides.”,
RNA, vol. 19, no. 12, pp. 1684-92, 2013.
Gene Knockdown Techniques
A. Amlie-Wolf, Ryvkin, P., Tong, R., Dragomir, I., Suh, E. R., Xu, Y., Van Deerlin, V. M., Gregory, B. D., Kwong, L. K., Trojanowski, J. Q., Lee, V. M. - Y., San Wang, L. -, and Lee, E. B.,
“Transcriptomic Changes Due to Cytoplasmic TDP-43 Expression Reveal Dysregulation of Histone Transcripts and Nuclear Chromatin.”,
PLoS One, vol. 10, no. 10, p. e0141836, 2015.
Gene Expression Profiling
A. Amlie-Wolf, Ryvkin, P., Tong, R., Dragomir, I., Suh, E. R., Xu, Y., Van Deerlin, V. M., Gregory, B. D., Kwong, L. K., Trojanowski, J. Q., Lee, V. M. - Y., San Wang, L. -, and Lee, E. B.,
“Transcriptomic Changes Due to Cytoplasmic TDP-43 Expression Reveal Dysregulation of Histone Transcripts and Nuclear Chromatin.”,
PLoS One, vol. 10, no. 10, p. e0141836, 2015.
Female
P. Ryvkin, Leung, Y. Yee, Silverman, I. M., Childress, M., Valladares, O., Dragomir, I., Gregory, B. D., and San Wang, L. -,
“HAMR: high-throughput annotation of modified ribonucleotides.”,
RNA, vol. 19, no. 12, pp. 1684-92, 2013.
DNA-Binding Proteins
A. Amlie-Wolf, Ryvkin, P., Tong, R., Dragomir, I., Suh, E. R., Xu, Y., Van Deerlin, V. M., Gregory, B. D., Kwong, L. K., Trojanowski, J. Q., Lee, V. M. - Y., San Wang, L. -, and Lee, E. B.,
“Transcriptomic Changes Due to Cytoplasmic TDP-43 Expression Reveal Dysregulation of Histone Transcripts and Nuclear Chromatin.”,
PLoS One, vol. 10, no. 10, p. e0141836, 2015.
Cytoplasm
A. Amlie-Wolf, Ryvkin, P., Tong, R., Dragomir, I., Suh, E. R., Xu, Y., Van Deerlin, V. M., Gregory, B. D., Kwong, L. K., Trojanowski, J. Q., Lee, V. M. - Y., San Wang, L. -, and Lee, E. B.,
“Transcriptomic Changes Due to Cytoplasmic TDP-43 Expression Reveal Dysregulation of Histone Transcripts and Nuclear Chromatin.”,
PLoS One, vol. 10, no. 10, p. e0141836, 2015.