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  Transcriptional and genomic mayhem due to aging-induced nucleosome loss in budding yeast.

  Chen, K., 2014, In: Microbial cell factories.

  Research output: Contribution to journal › Article › peer-review

• Transcriptional and posttranscriptional regulation of sexually differentiated rat liver cytochrome P-450 by growth hormone

  Mode, A., Wiersma-Larsson, E. & Gustafsson, J. Å., Jul 1989, In: Molecular Endocrinology. 3, 7, p. 1142-1147 6 p.

  Research output: Contribution to journal › Article › peer-review
  48 Scopus citations

• Transcriptional and posttranslational up-regulation of HER3 (ErbB3) compensates for inhibition of the HER2 tyrosine kinase

  Garrett, J. T., Olivares, M. G., Rinehart, C., Granja-Ingram, N. D., Sánchez, V., Chakrabarty, A., Dave, B., Cook, R. S., Pao, W., McKinely, E., Manning, H. C., Chang, J. C. & Arteaga, C. L., Mar 22 2011, In: Proceedings of the National Academy of Sciences of the United States of America. 108, 12, p. 5021-5026 6 p.

  Research output: Contribution to journal › Article › peer-review
  331 Scopus citations

• Transcriptional control of M13 phage DNA replication.

  Mitra, S., 1974, In: Basic life sciences. 3, p. 383-393 11 p.

  Research output: Contribution to journal › Article › peer-review

• Transcriptional feedback and definition of the circadian pacemaker in Drosophila and animals

  Rosbash, M., Bradley, S., Kadener, S., Li, Y., Luo, W., Menet, J. S., Nagoshi, E., Palm, K., Schoer, R., Shang, Y. & Tang, C. H. A., 2007, In: Cold Spring Harbor Symposia on Quantitative Biology. 72, p. 75-83 9 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access
  27 Scopus citations

• Transcriptional organization, regulation and role of the Porphyromonas gingivalis W83 hmu haemin-uptake locus

  Lewis, J. P., Plata, K., Yu, F., Rosato, A. & Anaya, C., Nov 2006, In: Microbiology. 152, 11, p. 3367-3382 16 p.

  Research output: Contribution to journal › Article › peer-review
  58 Scopus citations

• Transcriptional profiling of Rickettsia prowazekii coding and non-coding transcripts during in vitro host-pathogen and vector-pathogen interactions

  Schroeder, C. L. C., Narra, H. P., Sahni, A., Khanipov, K., Patel, J., Fofanov, Y. & Sahni, S. K., Oct 2017, In: Ticks and Tick-borne Diseases. 8, 6, p. 827-836 10 p.

  Research output: Contribution to journal › Article › peer-review
  13 Scopus citations

• Transcriptional profiling suggests that Barrett's metaplasia is an early intermediate stage in esophageal adenocarcinogenesis

  Wang, S., Zhan, M., Yin, J., Abraham, J. M., Mori, Y., Sato, F., Xu, Y., Olaru, A., Berki, A. T., Li, H., Schulmann, K., Kan, T., Hamilton, J. P., Paun, B., Yu, M. M., Jin, Z., Cheng, Y., Ito, T., Mantzur, C., Greenwald, B. D. & 1 others, Meltzer, S. J., Jun 1 2006, In: Oncogene. 25, 23, p. 3346-3356 11 p.

  Research output: Contribution to journal › Article › peer-review
  102 Scopus citations

• Transcriptional profiling validates involvement of extracellular matrix and proteinases genes in mouse gonad development

  Piprek, R. P., Kolasa, M., Podkowa, D., Kloc, M. & Kubiak, J. Z., Feb 1 2018, In: Mechanisms of Development. 149, p. 9-19 11 p.

  Research output: Contribution to journal › Article › peer-review
  19 Scopus citations

• Transcriptional read-through induction treatment trial in intestinal failure induced by an EpCAM nonsense mutation

  Sivagnanam, M., Mueller, J. L., Szigeti, R., Gopalakrishna, G. S. & Kellermayer, R., 2012, In: Case Reports in Medicine. 2012, 173195.

  Research output: Contribution to journal › Article › peer-review

  Open Access
  4 Scopus citations

• Transcriptional regulation by a point mutant of adenovirus-2 E1a product lacking DNA binding activity

  Zu, Y. L., Takamatsu, Y., Zhao, M. J., Maekawa, T., Handa, H. & Ishii, S., 1992, In: Journal of Biological Chemistry. 267, 28, p. 20181-20187 7 p.

  Research output: Contribution to journal › Article › peer-review
  20 Scopus citations

• Transcriptional regulation of alpha 2(I) collagen gene expression by fibroblast growth factor-2 in MC3T3-E1 osteoblast-like cells

  Fang, M. A., Glackin, C. A., Sadhu, A. & McDougall, S., Mar 15 2001, In: Journal of Cellular Biochemistry. 80, 4, p. 550-559 10 p.

  Research output: Contribution to journal › Article › peer-review
  33 Scopus citations

• Transcriptional regulation of core autophagy and lysosomal genes by the androgen receptor promotes prostate cancer progression

  Blessing, A. M., Rajapakshe, K., Reddy Bollu, L., Shi, Y., White, M. A., Pham, A. H., Lin, C., Jonsson, P., Cortes, C. J., Cheung, E., La Spada, A. R., Bast, R. C., Merchant, F. A., Coarfa, C. & Frigo, D., Mar 4 2017, In: Autophagy. 13, 3, p. 506-521 16 p.

  Research output: Contribution to journal › Article › peer-review
  57 Scopus citations

• Transcriptional Regulation of Germinal Center B and Plasma Cell Fates by Dynamical Control of IRF4

  Ochiai, K., Maienschein-Cline, M., Simonetti, G., Chen, J., Rosenthal, R., Brink, R., Chong, A. S., Klein, U., Dinner, A. R., Singh, H. & Sciammas, R., May 23 2013, In: Immunity. 38, 5, p. 918-929 12 p.

  Research output: Contribution to journal › Article › peer-review
  235 Scopus citations

• Transcriptional regulation of photosynthesis operons in Rhodobacter sphaeroides 2.4.1

  Zeilstra-Ryalls, J. H., Gomelsky, M., Yeliseev, A. A., Eraso, J. M. & Kaplan, S., Jan 1 1998, In: Methods in Enzymology. 297, p. 151-166 16 p.

  Research output: Contribution to journal › Article › peer-review
  17 Scopus citations

• Transcriptional regulation of puc operon expression in Rhodobacter sphaeroides. Involvement of an integration host factor-binding sequence

  Lee, J. K., Wang, S., Eraso, J. M., Gardner, J. & Kaplan, S., 1993, In: Journal of Biological Chemistry. 268, 32, p. 24491-24497 7 p.

  Research output: Contribution to journal › Article › peer-review
  17 Scopus citations

• Transcriptional regulation of rat P-450 2C gene subfamily members by the sexually dimorphic pattern of growth hormone secretion

  Legraverend, C., Mode, A., Westin, S., Ström, A., Eguchi, H., Zaphiropoulos, P. G. & Gustafsson, J. Å., Feb 1 1992, In: Molecular Endocrinology. 6, 2, p. 259-266 8 p.

  Research output: Contribution to journal › Article › peer-review
  143 Scopus citations

• Transcriptional regulation of the heme oxygenase 1 gene by pyrrolidine dithiocarbamate

  Hartsfield, C. L., Alam, J. & Choi, A. M. K., 1998, In: FASEB Journal. 12, 15, p. 1675-1682 8 p.

  Research output: Contribution to journal › Article › peer-review
  87 Scopus citations

• Transcriptional regulation of the HO-1 gene in cultured macrophages exposed to model airborne particulate matter

  Chin, B. Y., Trush, M. A., Choi, A. M. K. & Risby, T. H., Mar 1 2003, In: American Journal of Physiology - Lung Cellular and Molecular Physiology. 284, 3 28-3, p. L473-L480

  Research output: Contribution to journal › Article › peer-review
  21 Scopus citations

• Transcriptional regulation of the sodium-coupled neutral amino acid transporter (SNAT2) by 17β-estradiol

  Velázquez-Villegas, L. A., Ortíz, V., Strom̈, A., Torres, N., Engler, D. A., Matsunami, R., Ordaz-Rosado, D., García-Becerra, R., López-Barradas, A. M., Larrea, F., Gustafsson, J. Å. & Tovar, A. R., Aug 5 2014, In: Proceedings of the National Academy of Sciences of the United States of America. 111, 31, p. 11443-11448 6 p.

  Research output: Contribution to journal › Article › peer-review
  15 Scopus citations

• Transcriptional regulation of Tlr11 gene expression in epithelial cells

  Cai, Z., Shi, Z., Sanchez, A., Zhang, T., Liu, M., Yang, J., Wang, F. & Zhang, D., Nov 27 2009, In: Journal of Biological Chemistry. 284, 48, p. 33088-33096 9 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access
  10 Scopus citations

• Transcriptional repression of p53 by parkin and impairment by mutations associated with autosomal recessive juvenile Parkinson's disease

  da Costa, C. A., Sunyach, C., Giaime, E., West, A., Corti, O., Brice, A., Safe, S., Abou-Sleiman, P. M., Wood, N. W., Takahashi, H., Goldberg, M. S., Shen, J. & Checler, F., 2009, In: Nature Cell Biology. 11, 11, p. 1370-1375 6 p.

  Research output: Contribution to journal › Article › peer-review
  148 Scopus citations

• Transcriptional repression of target genes by LEUNIG and SEUSS, two interacting regulatory proteins for Arabidopsis flower development

  Sridhar, V. V., Surendrarao, A., Gonzalez, D., Steven Conlan, R. & Liu, Z., Aug 3 2004, In: Proceedings of the National Academy of Sciences of the United States of America. 101, 31, p. 11494-11499 6 p.

  Research output: Contribution to journal › Article › peer-review
  113 Scopus citations

• Transcriptional signaling pathways inversely regulated in Alzheimer's disease and glioblastoma multiform

  Liu, T., Ren, D., Zhu, X., Yin, Z., Jin, G., Zhao, Z., Robinson, D., Li, X., Wong, K., Cui, K., Zhao, H. & Wong, S. T. C., Dec 10 2013, In: Scientific Reports. 3, 3467.

  Research output: Contribution to journal › Article › peer-review
  24 Scopus citations

• Transcriptional synergism on the pS2 gene promoter between a p160 coactivator and estrogen receptor-α depends on the coactivator subtype, the type of estrogen response element, and the promoter context

  Barkhem, T., Haldosén, L. A., Gustafsson, J. Å. & Nilsson, S., Nov 1 2002, In: Molecular Endocrinology. 16, 11, p. 2571-2581 11 p.

  Research output: Contribution to journal › Article › peer-review
  34 Scopus citations

• Transcriptional targets shared by estrogen receptor-related receptors (ERRs) and estrogen receptor (ER) α, but not by ERβ

  Vanacker, J. M., Pettersson, K., Gustafsson, J. Å. & Laudet, V., Aug 2 1999, In: EMBO Journal. 18, 15, p. 4270-4279 10 p.

  Research output: Contribution to journal › Article › peer-review
  285 Scopus citations

• Transcription coupled base excision repair in mammalian cells: So little is known and so much to uncover

  Chakraborty, A., Tapryal, N., Islam, A., Mitra, S. & Hazra, T., Nov 2021, In: DNA Repair. 107, 103204.

  Research output: Contribution to journal › Article › peer-review
  1 Scopus citations

• Transcription factor Bcl11b controls selection of invariant natural killer T-cells by regulating glycolipid presentation in double-positive thymocytes

  Albu, D. I., VanValkenburgh, J., Morin, N., Califano, D., Jenkins, N. A., Copeland, N. G., Liu, P. & Avram, D., Apr 12 2011, In: Proceedings of the National Academy of Sciences of the United States of America. 108, 15, p. 6211-6216 6 p.

  Research output: Contribution to journal › Article › peer-review
  35 Scopus citations

• Transcription factor IRF4 drives dendritic cells to promote Th2 differentiation

  Williams, J. W., Tjota, M. Y., Clay, B. S., Vander Lugt, B., Bandukwala, H. S., Hrusch, C. L., Decker, D. C., Blaine, K. M., Fixsen, B. R., Singh, H., Sciammas, R. & Sperling, A. I., Dec 20 2013, In: Nature Communications. 4, 2990.

  Research output: Contribution to journal › Article › peer-review
  228 Scopus citations

• Transcription factor NFkB a potential molecular marker for predicting and improving treatment efficacy in esophageal cancer

  Izzo, J. G., Wu, T., Malhotra, U., Ensor, J., Luthra, R., Chao, C. K., Swisher, S. G., Liao, Z., Aggarwal, B. B., Hittelman, W. N. & Ajani, J. A., Jun 20 2006, In: Journal of Clinical Oncology. 24, 18_suppl, p. 10065

  Research output: Contribution to journal › Article › peer-review

• Transcription factor PITX3 gene in Parkinson's disease

  Le, W., Nguyen, D., Lin, X. W., Rawal, P., Huang, M., Ding, Y., Xie, W., Deng, H. & Jankovic, J., Apr 2011, In: Neurobiology of Aging. 32, 4, p. 750-753 4 p.

  Research output: Contribution to journal › Article › peer-review
  28 Scopus citations

• Transcription factors Sp1 and Sp3 regulate expression of human extracellular superoxide dismutase in lung fibroblasts

  Zelko, I. N., Mueller, M. R. & Folz, R. J., Aug 1 2008, In: American Journal of Respiratory Cell and Molecular Biology. 39, 2, p. 243-251 9 p.

  Research output: Contribution to journal › Article › peer-review
  27 Scopus citations

• Transcription factor TCF4 maintains the properties of human corneal epithelial stem cells

  Lu, R., Qu, Y., Ge, J., Zhang, L., Su, Z., Pflugfelder, S. C. & Li, D-Q., Apr 2012, In: Stem cells (Dayton, Ohio). 30, 4, p. 753-61 9 p.

  Research output: Contribution to journal › Article › peer-review
  45 Scopus citations

• Transcription of cyclooxygenase-2 is enhanced in transformed mammary epithelial cells

  Subbaramaiah, K., Telang, N., Ramonetti, J. T., Araki, R., DeVito, B., Weksler, B. B. & Dannenberg, A. J., Oct 1 1996, In: Cancer research. 56, 19, p. 4424-4429 6 p.

  Research output: Contribution to journal › Article › peer-review
  420 Scopus citations

• Transcription regulation of CDKN1A (p21/CIP1/WAF1) by TRF2 is epigenetically controlled through the REST repressor complex

  Hussain, T., Saha, D., Purohit, G., Kar, A., Kishore Mukherjee, A., Sharma, S., Sengupta, S., Dhapola, P., Maji, B., Vedagopuram, S., Horikoshi, N. T., Horikoshi, N., Pandita, R. K., Bhattacharya, S., Bajaj, A., Riou, J. F., Pandita, T. K. & Chowdhury, S., Dec 1 2017, In: Scientific Reports. 7, 1, 11541.

  Research output: Contribution to journal › Article › peer-review
  31 Scopus citations

• Transcription termination factor Pcf11 limits the processivity of Pol II on an HIV provirus to repress gene expression

  Zhang, Z., Klatt, A., Henderson, A. J. & Gilmour, D. S., Jul 1 2007, In: Genes & development. 21, 13, p. 1609-14 6 p.

  Research output: Contribution to journal › Article › peer-review
  28 Scopus citations

• Transcriptome adaptation of group B Streptococcus to growth in human amniotic fluid

  Sitkiewicz, I., Green, N. M., Guo, N., Bongiovanni, A. M., Witkin, S. S. & Musser, J. M., Jul 1 2009, In: PLoS ONE. 4, 7, e6114.

  Research output: Contribution to journal › Article › peer-review
  33 Scopus citations

• Transcriptome analysis identifies genes involved in sex determination and development of Xenopus laevis gonads

  Piprek, R. P., Damulewicz, M., Kloc, M. & Kubiak, J. Z., Mar 1 2018, In: Differentiation. 100, p. 46-56 11 p.

  Research output: Contribution to journal › Article › peer-review
  9 Scopus citations

• Transcriptome analysis of human adipocytes implicates the NOD-like receptor pathway in obesity-induced adipose inflammation

  Yin, Z., Deng, T., Peterson, L. E., Yu, R., Lin, J., Hamilton, D. J., Reardon, P. R., Sherman, V., Winnier, G. E., Zhan, M., Lyon, C. J., Wong, S. T. C. & Hsueh, W. A., Aug 25 2014, In: Molecular and cellular endocrinology. 394, 1-2, p. 80-87 8 p.

  Research output: Contribution to journal › Article › peer-review
  48 Scopus citations

• Transcriptome Analysis of Individual Stromal Cell Populations Identifies Stroma-Tumor Crosstalk in Mouse Lung Cancer Model

  Choi, H., Sheng, J., Gao, D., Li, F., Durrans, A., Ryu, S., Lee, S. B., Narula, N., Rafii, S., Elemento, O., Altorki, N. K., Wong, S. T. C. & Mittal, V., Feb 24 2015, In: Cell Reports. 10, 7, p. 1187-1201 15 p.

  Research output: Contribution to journal › Article › peer-review
  63 Scopus citations

• Transcriptome analysis of mouse stem cells and early embryos

  Sharov, A. A., Piao, Y., Matoba, R., Dudekula, D. B., Qian, Y., VanBuren, V., Falco, G., Martin, P. R., Stagg, C. A., Bassey, U. C., Wang, Y., Carter, M. G., Hamatani, T., Aiba, K., Akutsu, H., Sharova, L., Tanaka, T. S., Kimber, W. L., Yoshikawa, T., Jaradat, S. A. & 20 others, Pantano, S., Nagaraja, R., Boheler, K. R., Taub, D., Hodes, R. J., Longo, D. L., Schlessinger, D., Keller, J., Klotz, E., Kelsoe, G., Umezawa, A., Vescovi, A. L., Rossant, J., Kunath, T., Hogan, B. L. M., Curci, A., D'Urso, M., Kelso, J., Hide, W. & Ko, M. S. H., 2003, In: PLoS biology. 1, 3

  Research output: Contribution to journal › Article › peer-review
  151 Scopus citations

• Transcriptome analysis of synaptoneurosomes identifies neuroplasticity genes overexpressed in incipient Alzheimer's disease

  Williams, C., Shai, R. M., Wu, Y., Hsu, Y. H., Sitzer, T., Spann, B., McCleary, C., Mo, Y. & Miller, C. A., Mar 19 2009, In: PLoS ONE. 4, 3, e4936.

  Research output: Contribution to journal › Article › peer-review
  84 Scopus citations

• Transcriptome analysis of the zebrafish mind bomb mutant

  Hwang, J., Kim, H. S., Seok, J. W., Kim, J. D., Koun, S., Park, S. Y., Lee, J., Kim, H. S., Kim, H. S., Kim, K. S., Chang, K. T., Ryoo, Z. Y., Wang, S. M., Huh, T. L. & Lee, S., Jan 2009, In: Molecular Genetics and Genomics. 281, 1, p. 77-85 9 p.

  Research output: Contribution to journal › Article › peer-review
  9 Scopus citations

• Transcriptome coexpression map of human embryonic stem cells

  Li, H., Liu, Y., Shin, S., Sun, Y., Loring, J. F., Mattson, M. P., Rao, M. S. & Zhan, M., 2006, In: BMC genomics. 7, 103.

  Research output: Contribution to journal › Article › peer-review
  26 Scopus citations

• Transcriptome of rat subcortical white matter and spinal cord after spinal injury and cortical stimulation

  Kondiles, B. R., Wei, H., Chaboub, L. S., Horner, P. J., Wu, J. Q. & Perlmutter, S. I., Dec 2021, In: Scientific Data. 8, 1, 175.

  Research output: Contribution to journal › Article › peer-review

  Open Access

• Transcriptome profiling reveals male- and female-specific gene expression pattern and novel gene candidates for the control of sex determination and gonad development in Xenopus laevis

  Piprek, R. P., Damulewicz, M., Tassan, J. P., Kloc, M. & Kubiak, J. Z., May 19 2019, In: Development Genes and Evolution. 229, 2-3, p. 53-72 20 p.

  Research output: Contribution to journal › Article › peer-review
  14 Scopus citations

• Transcriptome remodeling contributes to epidemic disease caused by the human pathogen Streptococcus pyogenes

  Beres, S. B., Kachroo, P., Nasser, W., Olsen, R. J., Zhu, L., Flores, A. R., de la Riva, I., Paez-Mayorga, J., Jimenez, F. E., Cantu, C., Vuopio, J., Jalava, J., Kristinsson, K. G., Gottfredsson, M., Corander, J., Fittipaldi, N., Di Luca, M. C., Petrelli, D., Vitali, L. A., Raiford, A. & 2 others, Jenkins, L. & Musser, J. M., 2016, In: mBio. 7, 3, e00403-16.

  Research output: Contribution to journal › Article › peer-review
  35 Scopus citations

• Transcriptome response to nitrosative stress in Rhodobacter sphaeroides 2.4.1

  Arai, H., Hyeob Roh, J., Eraso, J. M. & Kaplan, S., 2013, In: Bioscience, Biotechnology and Biochemistry. 77, 1, p. 111-118 8 p.

  Research output: Contribution to journal › Article › peer-review
  14 Scopus citations

• Transcriptome sequencing across a prostate cancer cohort identifies PCAT-1, an unannotated lincRNA implicated in disease progression

  Prensner, J. R., Iyer, M. K., Balbin, O. A., Dhanasekaran, S. M., Cao, Q., Brenner, J. C., Laxman, B., Asangani, I. A., Grasso, C. S., Kominsky, H. D., Cao, X., Jing, X., Wang, X., Siddiqui, J., Wei, J. T., Robinson, D., Iyer, H. K., Palanisamy, N., Maher, C. A. & Chinnaiyan, A. M., Aug 2011, In: Nature Biotechnology. 29, 8, p. 742-749 8 p.

  Research output: Contribution to journal › Article › peer-review
  773 Scopus citations

• Transcriptomic analysis by RNA-seq reveals AP-1 pathway as key regulator that green tea may rely on to inhibit lung tumorigenesis

  Pan, J., Zhang, Q., Xiong, D., Vedell, P., Yan, Y., Jiang, H., Cui, P., Ding, F., Tichelaar, J. W., Wang, Y., Lubet, R. A. & You, M., Jan 2014, In: Molecular Carcinogenesis. 53, 1, p. 19-29 11 p.

  Research output: Contribution to journal › Article › peer-review
  13 Scopus citations