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56. Mission Statement

Author

Foehl, Jack, primary, Hartman, Stephen, additional, Levine, Lauren, additional, and Cooney, Amy Schwartz, additional

Published
2021
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58. Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project

Author

Birney, Ewan, Stamatoyannopoulos, John A., Dutta, Anindya, Guigo, Roderic, Gingeras, Thomas R., Margulies, Elliott H., Weng, Zhiping, Snyder, Michael, Dermitzakis, Emmanouil T., Thurman, Robert E., Kuehn, Michael S., Taylor, Christopher M., Neph, Shane, Koch, Christoph M., Asthana, Saurabh, Malhotra, Ankit, Adzhubei, Ivan, Greenbaum, Jason A., Andrews, Robert M., Flicek, Paul, Boyle, Patrick J., Cao, Hua, Carter, Nigel P., Clelland, Gayle K., Davis, Sean, Day, Nathan, Dhami, Pawandeep, Dillon, Shane C., Dorschner, Michael O., Fiegler, Heike, Giresi, Paul G., Goldy, Jeff, Hawrylycz, Michael, Haydock, Andrew, Humbert, Richard, James, Keith D., Johnson, Brett E., Johnson, Ericka M., Frum, Tristan T., Rosenzweig, Elizabeth R., Karnani, Neerja, Lee, Kirsten, Lefebvre, Gregory C., Navas, Patrick A., Neri, Fidencio, Parker, Stephen C. J., Sabo, Peter J., Sandstrom, Richard, Shafer, Anthony, Vetrie, David, Weaver, Molly, Wilcox, Sarah, Yu1, Man, Collins, Francis S., Dekker, Job, Lieb, Jason D., Tullius, Thomas D., Crawford, Gregory E., Sunyaev, Shamil, Noble, William S., Dunham, Ian, Denoeud, France, Reymond, Alexandre, Kapranov, Philipp, Rozowsky, Joel, Zheng, Deyou, Castelo, Robert, Frankish, Adam, Harrow, Jennifer, Ghosh, Srinka, Sandelin, Albin, Hofacker, Ivo L., Baertsch, Robert, Keefe, Damian, Dike, Sujit, Cheng, Jill, Hirsch, Heather A., Sekinger, Edward A., Lagarde, Julien, Abril, Josep F., Shahab, Atif, Flamm, Christoph, Fried, Claudia, Hackermuller, Jorg, Hertel, Jana, Lindemeyer, Manja, Missal, Kristin, Tanzer, Andrea, Washietl, Stefan, Korbel, Jan, Emanuelsson, Olof, Pedersen, Jakob S., Holroyd, Nancy, Taylor, Ruth, Swarbreck, David, Matthews, Nicholas, Dickson, Mark C., Thomas, Daryl J., Weirauch, Matthew T., Gilbert, James, Drenkow, Jorg, Bell, Ian, Zhao, XiaoDong, Srinivasan, K.G., Sung, Wing-Kin, Ooi, Hong Sain, Chiu, Kuo Ping, Foissac, Sylvain, Alioto, Tyler, Brent, Michael, Pachter, Lior, Tress, Michael L., Valencia, Alfonso, Choo, Siew Woh, Choo, Chiou Yu, Ucla, Catherine, Manzano, Caroline, Wyss, Carine, Cheung, Evelyn, Clark, Taane G., Brown, James B., Ganesh, Madhavan, Patel, Sandeep, Tammana, Hari, Chrast, Jacqueline, Henrichsen, Charlotte N., Kai, Chikatoshi, Kawai, Jun, Nagalakshmi, Ugrappa, Wu, Jiaqian, Lian, Zheng, Lian, Jin, Newburger, Peter, Zhang, Xueqing, Bickel, Peter, Mattick, John S., Carninci, Piero, Hayashizaki, Yoshihide, Weissman, Sherman, Hubbard, Tim, Myers, Richard M., Rogers, Jane, Stadler, Peter F., Lowe, Todd M., Wei, Chia-Lin, Ruan, Yijun, Struhl, Kevin, Gerstein, Mark, Antonarakis, Stylianos E., Fu, Yutao, Green, Eric D., Karaoz, Ulaş, Siepel, Adam, Taylor, James, Liefer, Laura A., Wetterstrand, Kris A., Good, Peter J., Feingold, Elise A., Guyer, Mark S., Cooper, Gregory M., Asimenos, George, Dewey, Colin N., Hou, Minmei, Nikolaev, Sergey, Montoya-Burgos, Juan I., Loytynoja, Ari, Whelan, Simon, Pardi, Fabio, Massingham, Tim, Huang, Haiyan, Zhang, Nancy R., Holmes, Ian, Mullikin, James C., Ureta-Vidal, Abel, Paten, Benedict, Seringhaus, Michael, Church, Deanna, Rosenbloom, Kate, Kent, W. James, Stone, Eric A., Batzoglou, Serafim, Goldman, Nick, Hardison, Ross C., Haussler, David, Miller, Webb, Sidow, Arend, Trinklein, Nathan D., Zhang, Zhengdong D., Barrera, Leah, Stuart, Rhona, King, David C., Ameur, Adam, Enroth, Stefan, Bieda, Mark C., Kim, Jonghwan, Bhinge, Akshay A., Jiang, Nan, Liu, Jun, Yao, Fei, Vega, Vinsensius B., Lee, Charlie W.H., Ng, Patrick, Yang, Annie, Moqtaderi, Zarmik, Zhu, Zhou, Xu, Xiaoqin, Squazzo, Sharon, Oberley, Matthew J., Inman, David, Singer, Michael A., Richmond, Todd A., Munn, Kyle J., Rada-Iglesias, Alvaro, Wallerman, Ola, Komorowski, Jan, Fowler, Joanna C., Couttet, Phillippe, Bruce, Alexander W., Dovey, Oliver M., Ellis, Peter D., Langford, Cordelia F., Nix, David A., Euskirchen, Ghia, Hartman, Stephen, Urban, Alexander E., Kraus, Peter, Van Calcar, Sara, Heintzman, Nate, Hoon Kim, Tae, Wang, Kun, Qu, Chunxu, Hon, Gary, Luna, Rosa, Glass, Christopher K., Rosenfeld, M. Geoff, Aldred, Shelley Force, Cooper, Sara J., Halees, Anason, Lin, Jane M., Shulha, Hennady P., Zhang, Xiaoling, Xu, Mousheng, Haidar, Jaafar N. S., Yu, Yong, Birney*, Ewan, Iyer, Vishwanath R., Green, Roland D., Wadelius, Claes, Farnham, Peggy J., Ren, Bing, Harte, Rachel A., Hinrichs, Angie S., Trumbower, Heather, Clawson, Hiram, Hillman-Jackson, Jennifer, Zweig, Ann S., Smith, Kayla, Thakkapallayil, Archana, Barber, Galt, Kuhn, Robert M., Karolchik, Donna, Armengol, Lluis, Bird, Christine P., de Bakker, Paul I. W., Kern, Andrew D., Lopez-Bigas, Nuria, Martin, Joel D., Stranger, Barbara E., Woodroffe, Abigail, Davydov, Eugene, Dimas, Antigone, Eyras, Eduardo, Hallgrimsdottir, Ingileif B., Huppert, Julian, Zody, Michael C., Abecasis, Goncalo R., Estivill, Xavier, Bouffard, Gerard G., Guan, Xiaobin, Hansen, Nancy F., Idol, Jacquelyn R., Maduro, Valerie V.B., Maskeri, Baishali, McDowell, Jennifer C., Park, Morgan, Thomas, Pamela J., Young, Alice C., Blakesley, Robert W., Baylor College of Medicine, Human Genome Sequencing Center, Muzny, Donna M., Sodergren, Erica, Wheeler, David A., Worley, Kim C., Jiang, Huaiyang, Weinstock, George M., Gibbs, Richard A., Graves, Tina, Fulton, Robert, Mardis, Elaine R., Wilson, Richard K., Clamp, Michele, Cuff, James, Gnerre, Sante, Jaffe, David B., Chang, Jean L., Lindblad-Toh, Kerstin, Lander, Eric S., Koriabine, Maxim, Nefedov, Mikhail, Osoegawa, Kazutoyo, Yoshinaga, Yuko, Zhu, Baoli, and de Jong, Pieter J.

Subjects
Environmental issues, Science and technology, Zoology and wildlife conservation
Abstract

Author(s): The ENCODE Project Consortium; Analysis Coordination; Ewan Birney (corresponding author) [1]; John A. Stamatoyannopoulos (corresponding author) [2]; Anindya Dutta (corresponding author) [3]; Roderic Guigó (corresponding author) [4, 5]; Thomas [...]

Published
2007
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59. Remembrances of Dean Garbarino.

Author

Hartman, Stephen, Kania, Arthur J., O'Brien, J. Willard, and Sopher, Jacalyn C.

Subjects
Villanova University. School of Law -- Officials and employees, Deans (in schools) -- Testimonials
Published
2006

60. Global changes in STAT target selection and transcription regulation upon interferon treatments

Author

Hartman, Stephen E., Bertone, Paul, Nath, Anjali K., Royce, Thomas E., Weissman, Sherman, and Snyder, Michael

Subjects
Transducers -- Research, Human chromosomes -- Research, DNA-ligand interactions -- Research, Genetic research, Biological sciences
Abstract

The regions of human chromosome 22 bound by Single Transducers and Activators of Transcription (STAT)1 and STAT2 in interferon-treated cells are identified using chromatin immunoprecipitation and DNA microarray analysis. Results demonstrate that the DNA-binding behavior of STAT1 homodimers is not conserved between the different interferon treatment conditions.

Published
2005

62. Distribution of NF-[kappa]B-binding sites across human chromosome 22

Author

Martone, Rebecca, Euskirchen, Ghia, Bertone, Paul, Hartman, Stephen, Royce, Thomas E., Luscombe, Nicholas M., Rinn, John L., Nelson, F. Kenneth, Miller, Perry, Gerstein, Mark, Weissman, Sherman, and Snyder, Michael

Subjects
Cells -- Research, Science and technology
Abstract

We have mapped the chromosomal binding site distribution of a transcription factor in human cells. The NF-[kappa]B family of transcription factors plays an essential role in regulating the induction of genes involved in several physiological processes, including apoptosis, immunity, and inflammation. The binding sites of the NF-[kappa]B family member p65 were determined by using chromatin immunoprecipitation and a genomic microarray of human chromosome 22 DNA. Sites of binding were observed along the entire chromosome in both coding and noncoding regions, with an enrichment at the 5' end of genes. Strikingly, a significant proportion of binding was seen in intronic regions, demonstrating that transcription factor binding is not restricted to promoter regions. NF-[kappa]B binding was also found at genes whose expression was regulated by tumor necrosis factor [alpha], a known inducer of NF-[kappa]B-dependent gene expression, as well as adjacent to genes whose expression is not affected by tumor necrosis factor [alpha]. Many of these latter genes are either known to be activated by NF-[kappa]B under other conditions or are consistent with NF-[kappa]B's role in the immune and apoptotic responses. Our results suggest that binding is not restricted to promoter regions and that NF-KB binding occurs at a significant number of genes whose expression is not altered, thereby suggesting that binding alone is not sufficient for gene activation.

Published
2003

67. Bruton's tyrosine kinase regulates apoptosis and JNK/SAPK kinase activity

Author

Yawakami, Yuko, Miura, Toru, Bissonnette, Reid, Hata, Daisuke, Khan, Wasif N., Kitamura, Toshio, Maeda-Yamamoto, Mari, Hartman, Stephen E., Yao, Libo, Alt, Frederick W., and Kawakami, Toshiaki

Subjects
Protein tyrosine kinase -- Research, Cell death -- Research, Mice -- Genetic aspects, Science and technology
Abstract

Mast cells derived from Bruton's tyrosine kinase (Btk)-defective xid or btk null mice showed greater expansion in culture containing interleukin-3 (IL-3) than those from wild-type (wt) mice. Although the proliferative response to IL-3 was not significantly different between the wt and xid mast cells, xid and btk null mast cells died by apoptosis more slowly than their wt counterparts upon IL-3 deprivation. Consistent with these findings, the apoptosis-linked c-Jun N-terminal kinase/stress-activated protein kinase (JNK) activity was compromised in these btk-mutated cells upon Fc[Epsilon]RI crosslinking or upon stimulation with IL-3 or with stem cell factor. p38 activity was less severely, but significantly, affected by btk mutation, whereas extracellular signal-regulated kinases were not affected by the same mutation. Btk-mediated regulation of apoptosis and JNK activity was confirmed by reconstitution of btk null mutant mast cells with the wt btk cDNA. Furthermore, growth factor withdrawal induced the activation and sustained activity of JNK in wt mast cells, while JNK activity was consistently lower in btk-mutated mast cells. These results support the notion that Btk regulates apoptosis through the JNK activation.

Published
1997

68. A family survives genocide

Author

Weine, Stevan, Vojvoda, Dolores, Hartman, Stephen, and Hyman, Leslie

Subjects
Genocide -- Research, Family psychotherapy -- Research, Psychology and mental health
Abstract

This is a case study of a family that survived genocide and a discussion of families and massive psychic trauma. This family, like many others from Bosnia-Herzegovina, was driven from their home by Serb forces - 'ethnically cleansed' - then eventually escaped to Croatia, and was later resettled in the United States. They were referred to us, a group of mental health professionals who established the Bosnian Refugee Trauma Program at the Yale Psychiatric Institute (YPI). We have done clinical, testimony, and research work with the refugee families from Bosnia who resettled in our region, described in part in prior reports (Weine, Becker et al. 1995a, 1995b; Weine and Laub 1995).

Published
1997

69. Adolescent survivors of 'ethnic cleansing': observations on the first year in America

Author

Weine, Stevan, Becker, Daniel F., McGlashan, Thomas H., Vojvoda, Dolores, Hartman, Stephen, and Robbins, Judith P.

Subjects
Psychic trauma -- Research, Genocide -- Psychological aspects, Teenagers -- Psychological aspects, Post-traumatic stress disorder -- Psychological aspects, Family and marriage, Psychology and mental health
Published
1995

72. Online databases: information available electronically

Author

Hartman, Stephen W., Qureshi, Anique, and Siegel, Joel G.

Subjects
Business information services -- Evaluation, Online information services -- Evaluation, Online services -- Evaluation, Database industry -- Evaluation, Information services -- Evaluation, Banking, finance and accounting industries, Business, Business database, Database industry, Online information service, Evaluation
Abstract

There has been a tremendous growth in the online database industry in terms of the number and types of databases, producers, and vendors. Never before has management had real-time access [...]

Published
1997

73. What the CPA must know about computer networks (LANs and WANs)

Author

Qureshi, Anique A., Hartman, Stephen, and Siegel, Joel

Subjects
Computer networks -- Evaluation, Communications software -- Evaluation, Information networks -- Evaluation, Banking, finance and accounting industries, Business, Evaluation
Abstract

Computer networks play a dominant role in transmitting information within CPA firms and other companies. A network is simply a set of computers (or terminals) interconnected by transmission paths. These [...]

Published
1997

78. The CD25-binding antibody Daclizumab High-Yield Process has a distinct glycosylation pattern and reduced antibody-dependent cell-mediated cytotoxicity in comparison to Zenapax®

Author

Ganguly, Bishu, primary, Balasa, Balaji, additional, Efros, Lyubov, additional, Hinton, Paul R., additional, Hartman, Stephen, additional, Thakur, Archana, additional, Xiong, Joanna M., additional, Schmidt, Brian, additional, Robinson, Randy R., additional, Sornasse, Thierry, additional, Vexler, Vladimir, additional, and Sheridan, James P., additional

Published
2016
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79. The transcriptional activity of human Chromosome 22

Author

Rinn, John L., Euskirchen, Ghia, Bertone, Paul, Martone, Rebecca, Luscombe, Nicholas M., Hartman, Stephen, Harrison, Paul M., Nelson, F. Kenneth, Miller, Perry, Gerstein, Mark, Weissman, Sherman, and Snyder, Michael

Subjects
Genetic research -- Analysis, Genetic transcription -- Physiological aspects, Human chromosomes -- Genetic aspects, DNA microarrays -- Genetic aspects, RNA -- Genetic aspects, Placenta -- Genetic aspects, Biological sciences
Abstract

Research has been conducted on human cromosome 22. The authors report the construction of DNA microarray which represents the unique sequences of this chromosome, and the use of the microarray for measuring global-transcriptional activity in placental poly(A) (super)+ RNA.

Published
2003

80. Regulation of protein kinase C[Beta]I by two protein-tyrosine kinases, Btk and Syk

Author

Kawakami, Yuko, Kitaura, Jiro, Hartman, Stephen E., Lowell, Clifford A., Siraganian, Reuben P., and Kawakami, Toshiaki

Subjects
Protein tyrosine kinase -- Research, Mast cells -- Research, Science and technology
Abstract

Two protein-tyrosine kinases, Bruton's tyrosine kinase (Btk) and Syk, and members of the protein kinase C (PKC) subfamily of serine/threonine kinases play crucial roles in signal transduction through antigen receptors in B lymphocytes and high-affinity IgE receptors (Fc[Epsilon]RI) in mast cells. The present study provides genetic, biochemical, and pharmacological evidence that, on Fc[Epsilon]RI stimulation, Syk regulates Btk, and Btk selectively regulates the membrane translocation and enzymatic activity of PKC[Beta]I among the conventional PKC isoforms ([Alpha], [Beta]I, and [Beta]II) expressed in mast cells. Syk/Btk-mediated PKC[Beta]I regulation is involved in transcriptional activation of the IL-2 and tumor necrosis factor [Alpha] genes through the JNK pathway induced by Fc[Epsilon]RI stimulation. Accordingly, Fc[Epsilon]RI-induced production of these cytokines is inhibited by specific inhibitors of Btk and Syk, as well as broad-specificity inhibitors of PKC and a selective inhibitor of PKC[Beta]. Specific regulation of PKC[Beta]I by Btk is consistent with the selective association of Btk with PKC[Beta]I. Components of this signaling pathway may represent all attractive set of potential targets of pharmaceutical interference for the treatment of allergic and other immunologic diseases.

Published
2000

81. Reification and the Ecstasy of the Chelsea Boy

Author

Hartman, Stephen

Subjects
Gay men -- Psychological aspects, Substance abuse -- Psychological aspects, Homosexuality -- Psychological aspects, Psychology and mental health, Women's issues/gender studies
Abstract

This essay describes the convergence of psychological and political experience in gay men's development of subjectivity. It explores a process whereby gay men recognize themselves to be gay like other gays and articulate their individual way of being gay through this act of recognition. Reification is introduced to describe the gay subject's encounter with objectified gayness-a task of individuation that is often overlooked. The psycho-political space where these acts of recognition and individuation occur is called 'Chelsea space,' here, so as to offer a way of thinking about substance use among urban, gay 'Chelsea Boys.' Case material is woven through the essay, and different degrees of substance use are understood to reflect different uses of the subject/object encounter that occurs in Chelsea space. [Article copies available for a fee from The Haworth Document Delivery Service: 1-800-342-9678. E-mail address: Website: ] KEYWORDS. Homosexuality, substance abuse, reification, psychoanalytic theory, gay substance abusers, recognition, Chelsea Boys

Published
2000

82. A genomic analysis of RNA polymerase II modification and chromatin architecture related to 3' end RNA polyadenylation

Author

Zheng Lian, Karpikov, Alexander, Jin Lian, Mahajan, Milind C., Hartman, Stephen, Gerstein, Mark, Snyder, Michael, and Weissman, Sherman M.

Subjects
Human genome -- Analysis, Lysine -- Chemical properties, Oxidation-reduction reaction -- Analysis, RNA polymerases -- Structure, RNA polymerases -- Chemical properties, Genetic transcription -- Analysis, Health
Abstract

A novel approach to prepare 3' end fragments from polyadenylated RNA to map the position of the poly (A) addition site using oligonucleotide arrays tiling 1 percent of the human genome and gain insight into transcript 3' end formation and transcription termination. Results provide insight into extensive sites of poly (A) addition and relatively complex mechanism of transcription termination that involves reduction of histone 3 lysine 36 trimethylation prior to RNA polymerase dephosphorylation and release from DNA.

Published
2008

83. Mapping of transcription factor binding regions in mammalian cells by ChIP: Comparison of array- and sequencing-based technologies

Author

Euskirchen, Ghia M., Rozowsky, Joel S., Chia-Lin Wei, Wah Heng Lee, Zhengdong, D. Zhang, Hartman, Stephen, Emanuelsson, Olof, Stolc, Viktor, Weissman, Sherman, Gerstein, Mark B., Yijun Ruan, and Snyder, Michael

Subjects
Cell cycle -- Research, Chromosome mapping -- Research, DNA microarrays -- Analysis, Nucleotide sequencing -- Analysis, Health
Abstract

The transcription factor binding region mapping is done by using chromatin immunoprecipitation (Chip) technique in DNA microarray analysis and in DNA sequencing. Both the techniques were found to be complementary to each other in their detection capacities.

Published
2007

92. Communications

Author

Casstevens, Thomas W., Kramer, Gerald H., Hartman, Stephen W., Diggins, John P., and Zartman, I. William

Published
1971

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