Podvin, S., Jones, J., Kang, A., Goodman, R., Reed, P., Lietz, C.B., Then, J., Lee, K.C., Eyler, L.T., Jeste, D.V., Gage, F.H., Hook, V. Human iN neuronal model of schizophrenia displays dysregulation of chromogranin B and related neuropeptide transmitter signatures. (2024) Molecular Psychiatry. DOI: 10.1038/s41380-024-02422-x

Traxler, L., Lucciola, R., Herdy, J.R., Jones, J.R., Mertens, J., Gage, F.H. Neural cell state shifts and fate loss in ageing and age-related diseases. (2023) Nat Rev Neurol. DOI: 10.1038/s41582-023-00815-0

Stronati, E., Giraldez, S., Huang, L., Abraham, E., McGuire, G.R., Hsu, H.T., Jones, K.A., Estarás, C. YAP1 regulates the self-organized fate patterning of hESC-derived gastruloids. (2022) Stem Cell Reports. DOI: 10.1016/j.stemcr.2021.12.012

Choi, S.H., Kim, S., Jones, K.A. Gene expression regulation by CDK12: a versatile kinase in cancer with functions beyond CTD phosphorylation. (2020) Experimental & Molecular Medicine. DOI: 10.1038/s12276-020-0442-9

Choi, S.H., Martinez, T.F., Kim, S., Donaldson, C., Shokhirev, M.N., Saghatelian, A., Jones, K.A. CDK12 phosphorylates 4E-BP1 to enable mTORC1-dependent translation and mitotic genome stability. (2019) Genes & Development. 33(7-8):418-435. DOI: 10.1101/gad.322339.118

Hsu, H.T., Estarás, C., Huang, L., Jones, K.A. Specifying the Anterior Primitive Streak by Modulating YAP1 Levels in Human Pluripotent Stem Cells. (2018) Stem Cell Reports. 11(6):1357-1364. DOI: 10.1016/j.stemcr.2018.10.013

Xu, M., Moresco, J.J., Chang, M., Mukim, A., Smith, D., Diedrich, J.K., Yates, J.R., Jones, K.A. SHMT2 and the BRCC36/BRISC deubiquitinase regulate HIV-1 Tat K63-ubiquitylation and destruction by autophagy. (2018) PLOS pathogens. 14(5):e1007071. DOI: 10.1371/journal.ppat.1007071

Estarás, C., Hsu, H.T., Huang, L., Jones, K.A. YAP repression of the WNT3 gene controls hESC differentiation along the cardiac mesoderm lineage. (2017) Genes & Development. 31(22):2250-2263. DOI: 10.1101/gad.307512.117

Estarás, C., Benner, C., Jones, K.A. SMADs and YAP compete to control elongation of β-catenin:LEF-1-recruited RNAPII during hESC differentiation. (2015) Molecular Cell. 58(5):780-93. DOI: 10.1016/j.molcel.2015.04.001

Chen, Y., Zhang, L., Estarás, C., Choi, S.H., Moreno, L., Karn, J., Moresco, J.J., Yates, J.R., Jones, K.A. A gene-specific role for the Ssu72 RNAPII CTD phosphatase in HIV-1 Tat transactivation. (2014) Genes & Development. 28(20):2261-75. DOI: 10.1101/gad.250449.114

Jones, K.A. Changing the core of transcription. (2014) Elife. 3:e03575.

Choi, S.H., Estarás, C., Moresco, J.J., Yates, J.R., Jones, K.A. α-Catenin interacts with APC to regulate β-catenin proteolysis and transcriptional repression of Wnt target genes. (2013) Genes & Development. 27(22):2473-88. DOI: 10.1101/gad.229062.113

Türbachova, I., Schwachula, T., Vasconcelos, I., Mustea, A., Baldinger, T., Jones, K.A., Bujard, H., Olek, A., Olek, K., Gellhaus, K., Braicu, I., Könsgen, D., Fryer, C., Ravot, E., Hellwag, A., Westerfeld, N., Gruss, O.J., Meissner, M., Hasan, M.T., Weber, M., Hoffmüller, U., Zimmermann, S., Loddenkemper, C., Mahner, S., Babel, N., Berns, E., Adams, R., Zeilinger, R., Baron, U., Vergote, I., Maughan, T., Marme, F., Dickhaus, T., Sehouli, J., Olek, S. The cellular ratio of immune tolerance (immunoCRIT) is a definite marker for aggressiveness of solid tumors and may explain tumor dissemination patterns. (2013) Epigenetics. 8(11):1226-35. DOI: 10.4161/epi.26334

Jones, K.A. A SirT'N repression for Notch. (2011) Molecular Cell. 42(5):559-60. DOI: 10.1016/j.molcel.2011.05.017

Chen, Y., Zhang, L., Jones, K.A. SKIP counteracts p53-mediated apoptosis via selective regulation of p21Cip1 mRNA splicing. (2011) Genes & Development. 25(7):701-16. DOI: 10.1101/gad.2002611

Jones, K.A. Outsmarting a mastermind. (2009) Developmental Cell. 17(6):750-2. DOI: 10.1016/j.devcel.2009.12.002

Brès, V., Yoshida, T., Pickle, L., Jones, K.A. SKIP interacts with c-Myc and Menin to promote HIV-1 Tat transactivation. (2009) Molecular Cell. 36(1):75-87. DOI: 10.1016/j.molcel.2009.08.015

Yoh, S.M., Lucas, J.S., Jones, K.A. The Iws1:Spt6:CTD complex controls cotranscriptional mRNA biosynthesis and HYPB/Setd2-mediated histone H3K36 methylation. (2008) Genes & Development. 22(24):3422-34. DOI: 10.1101/gad.1720008

Jones, K.A., Kemp, C.R. Wnt-induced proteolytic targeting. (2008) Genes & Development. 22(22):3077-81. DOI: 10.1101/gad.1741008

Brès, V., Yoh, S.M., Jones, K.A. The multi-tasking P-TEFb complex. (2008) Current Opinion in Cell Biology. 20(3):334-40. DOI: 10.1016/j.ceb.2008.04.008

Jones, K.A. Transcription strategies in terminally differentiated cells: shaken to the core. (2007) Genes & Development. 21(17):2113-7. DOI: 10.1101/gad.1598007

Yoh, S.M., Cho, H., Pickle, L., Evans, R.M., Jones, K.A. The Spt6 SH2 domain binds Ser2-P RNAPII to direct Iws1-dependent mRNA splicing and export. (2007) Genes & Development. 21(2):160-74. DOI: 10.1101/gad.1503107

Wang, S., Jones, K.A. CK2 controls the recruitment of Wnt regulators to target genes in vivo. (2006) Current Biology. 16(22):2239-44. DOI: 10.1016/j.cub.2006.09.034

Willert, K., Jones, K.A. Wnt signaling: is the party in the nucleus? (2006) Genes & Development. 20(11):1394-404. DOI: 10.1101/gad.1424006

Sierra, J., Yoshida, T., Joazeiro, C.A., Jones, K.A. The APC tumor suppressor counteracts beta-catenin activation and H3K4 methylation at Wnt target genes. (2006) Genes & Development. 20(5):586-600. DOI: 10.1101/gad.1385806

Brès, V., Gomes, N., Pickle, L., Jones, K.A. A human splicing factor, SKIP, associates with P-TEFb and enhances transcription elongation by HIV-1 Tat. (2005) Genes & Development. 19(10):1211-26. DOI: 10.1101/gad.1291705

Fryer, C.J., White, J.B., Jones, K.A. Mastermind recruits CycC:CDK8 to phosphorylate the Notch ICD and coordinate activation with turnover. (2004) Molecular Cell. 16(4):509-20. DOI: 10.1016/j.molcel.2004.10.014

Gomes, N., Garber, M.E., Jones, K.A. Techniques to analyze the HIV-1 Tat and TAR RNA-dependent recruitment and activation of the cyclin T1: CDK9 (P-TEFb) transcription elongation factor. (2003) Methods in Enzymology. 371:324-36. DOI: 10.1016/S0076-6879(03)71024-6

Orlando, V., Jones, K.A. Wild chromatin: regulation of eukaryotic genes in their natural chromatin context. (2002) Genes & Development. 16(16):2039-44. DOI: 10.1101/gad.1017402

Fryer, C.J., Lamar, E., Turbachova, I., Kintner, C., Jones, K.A. Mastermind mediates chromatin-specific transcription and turnover of the Notch enhancer complex. (2002) Genes & Development. 16(11):1397-411. DOI: 10.1101/gad.991602

Tutter, A.V., Fryer, C.J., Jones, K.A. Chromatin-specific regulation of LEF-1-beta-catenin transcription activation and inhibition in vitro. (2001) Genes & Development. 15(24):3342-54. DOI: 10.1101/gad.946501

Zhang, J., Tamilarasu, N., Hwang, S., Garber, M.E., Huq, I., Jones, K.A., Rana, T.M. HIV-1 TAR RNA enhances the interaction between Tat and cyclin T1. (2000) Journal of Biological Chemistry. 275(44):34314-9. DOI: 10.1074/jbc.M006804200

Kadam, S., McAlpine, G.S., Phelan, M.L., Kingston, R.E., Jones, K.A., Emerson, B.M. Functional selectivity of recombinant mammalian SWI/SNF subunits. (2000) Genes & Development. 14(19):2441-51.

Garber, M.E., Mayall, T.P., Suess, E.M., Meisenhelder, J., Thompson, N.E., Jones, K.A. CDK9 autophosphorylation regulates high-affinity binding of the human immunodeficiency virus type 1 tat-P-TEFb complex to TAR RNA. (2000) Molecular and Cellular Biology. 20(18):6958-69.

Jones, K.A., Kadonaga, J.T. Exploring the transcription-chromatin interface. (2000) Genes & Development. 14(16):1992-6.

Garber, M.E., Jones, K.A. HIV-1 Tat: coping with negative elongation factors. (1999) Current Opinion in Immunology. 11(4):460-5. DOI: 10.1016/S0952-7915(99)80077-6

Tutter, A., McAlpine, G.S., Jones, K.A. Mechanism of chromatin recognition and transcriptional regulation by LEF-1 and the Wnt/Wg-responsive LEF-1:beta-catenin complex. (1999) Cold Spring Harbor Symposia on Quantitative Biology. 64:445-452.

Garber, M.E., Wei, P., Caderas, G., Jones, K.A. Protein and RNA affinity selection techniques using HIV-1 Tat. (1999) Methods in Enzymology. 306:352-64.

Herrmann, C.H., Carroll, R.G., Wei, P., Jones, K.A., Rice, A.P. Tat-associated kinase, TAK, activity is regulated by distinct mechanisms in peripheral blood lymphocytes and promonocytic cell lines. (1998) Journal of Virology. 72(12):9881-8.

Garber, M.E., Wei, P., KewalRamani, V.N., Mayall, T.P., Herrmann, C.H., Rice, A.P., Littman, D.R., Jones, K.A. The interaction between HIV-1 Tat and human cyclin T1 requires zinc and a critical cysteine residue that is not conserved in the murine CycT1 protein. (1998) Genes & Development. 12(22):3512-27.

Tutter, A., Jones, K.A. Chemicals that footprint DNA: hitting HIV-1 in the minor groove. (1998) Proceedings of the National Academy of Sciences of the United States of America. 95(22):12739-41.

Garber, M.E., Wei, P., Jones, K.A. HIV-1 Tat interacts with cyclin T1 to direct the P-TEFb CTD kinase complex to TAR RNA. (1998) Cold Spring Harbor Symposia on Quantitative Biology. 63:371-380.

Wei, P., Garber, M.E., Fang, S.M., Fischer, W.H., Jones, K.A. A novel CDK9-associated C-type cyclin interacts directly with HIV-1 Tat and mediates its high-affinity, loop-specific binding to TAR RNA. (1998) Cell. 92(4):451-462.

Sheridan, P.L., Mayall, T.P., Verdin, E., Jones, K.A. Histone acetyltransferases regulate HIV-1 enhancer activity in vitro. (1997) Genes & Development. 11(24):3327-40.

Jones, K.A. Taking a new TAK on tat transactivation. (1997) Genes & Development. 11(20):2593-9.

Mayall, T.P., Sheridan, P.L., Montminy, M.R., Jones, K.A. Distinct roles for P-CREB and LEF-1 in TCR alpha enhancer assembly and activation on chromatin templates in vitro. (1997) Genes & Development. 11(7):887-99.

Jones, K.A. Taking out Tat. (1996) Nature Biotechnology. 14(11):1542-3. DOI: 10.1038/nbt1196-1542

Okamoto, H., Sheline, C.T., Corden, J.L., Jones, K.A., Peterlin, B.M. Trans-activation by human immunodeficiency virus Tat protein requires the C-terminal domain of RNA polymerase II. (1996) Proceedings of the National Academy of Sciences of the United States of America. 93(21):11575-9.

Pazin, M.J., Sheridan, P.L., Cannon, K., Cao, Z., Keck, J.G., Kadonaga, J.T., Jones, K.A. NF-kappa B-mediated chromatin reconfiguration and transcriptional activation of the HIV-1 enhancer in vitro. (1996) Genes & Development. 10(1):37-49.

Sheridan, P.L., Sheline, C.T., Cannon, K., Voz, M.L., Pazin, M.J., Kadonaga, J.T., Jones, K.A. Activation of the HIV-1 enhancer by the LEF-1 HMG protein on nucleosome-assembled DNA in vitro. (1995) Genes & Development. 9(17):2090-104.

Lin, Y., Sheridan, P.L., Jones, K.A., Evans, G.A. The HIP116 SNF2/SW12-related transcription factor gene (SNF2L3) is located on human chromosome 3q25.1-q26.1. (1995) Genomics. 27(2):381-2. DOI: 10.1006/geno.1995.1064

Sheridan, P.L., Schorpp, M., Voz, M.L., Jones, K.A. Cloning of an SNF2/SWI2-related protein that binds specifically to the SPH motifs of the SV40 enhancer and to the HIV-1 promoter. (1995) Journal of Biological Chemistry. 270(9):4575-87.

Jones, K.A., Peterlin, B.M. Control of RNA initiation and elongation at the HIV-1 promoter. (1994) Annual Review of Biochemistry. 63:717-43. DOI: 10.1146/annurev.bi.63.070194.003441

Carlsson, P., Waterman, M.L., Jones, K.A. The hLEF/TCF-1 alpha HMG protein contains a context-dependent transcriptional activation domain that induces the TCR alpha enhancer in T cells. (1993) Genes & Development. 7(12A):2418-30.

Zenzie-Gregory, B., Sheridan, P., Jones, K.A., Smale, S.T. HIV-1 core promoter lacks a simple initiator element but contains a bipartite activator at the transcription start site. (1993) Journal of Biological Chemistry. 268(21):15823-32.

Jones, K.A. Tat and the HIV-1 promoter. (1993) Current Opinion in Cell Biology. 5(3):461-8.

Sheridan, P.L., Sheline, C.T., Milocco, L.H., Jones, K.A. Tat and the HIV-1 promoter: A model for RNA-mediated regulation of transcription (1993) Seminars in Virology. 4(1):690808. DOI: 10.1016/1044-5773(93)80010-L

Sheline, C.T., Milocco, L.H., Jones, K.A. Two distinct nuclear transcription factors recognize loop and bulge residues of the HIV-1 TAR RNA hairpin. (1991) Genes & Development. 5(12B):2508-20.

Waterman, M.L., Fischer, W.H., Jones, K.A. A thymus-specific member of the HMG protein family regulates the human T cell receptor C alpha enhancer. (1991) Genes & Development. 5(4):656-69.

Waterman, M.L., Jones, K.A. Purification of TCF-1 alpha, a T-cell-specific transcription factor that activates the T-cell receptor C alpha gene enhancer in a context-dependent manner. (1990) New Biologist. 2(7):621-636.

Jones, K.A. HIV trans-activation and transcription control mechanisms. (1989) New Biologist. 1(2):127-135.

Toohey, M.G., Jones, K.A. In vitro formation of short RNA polymerase II transcripts that terminate within the HIV-1 and HIV-2 promoter-proximal downstream regions. (1989) Genes & Development. 3(3):265-82.

Jones, K.A., Luciw, P.A., Duchange, N. Structural arrangements of transcription control domains within the 5'-untranslated leader regions of the HIV-1 and HIV-2 promoters. (1988) Genes & Development. 2(9):1101-14.

Dinter, H., Chiu, R., Imagawa, M., Karin, M., Jones, K.A. In vitro activation of the HIV-1 enhancer in extracts from cells treated with a phorbol ester tumor promoter. (1987) EMBO Journal. 6(13):4067-71.

Jones, K.A., Kadonaga, J.T., Rosenfeld, P.J., Kelly, T.J., Tjian, R. A cellular DNA-binding protein that activates eukaryotic transcription and DNA replication. (1987) Cell. 48(1):79-89.

Jones, K.A., Kadonaga, J.T., Luciw, P.A., Tjian, R. Activation of the AIDS retrovirus promoter by the cellular transcription factor, Sp1. (1986) Science. 232(4751):755-9.

Kadonaga, J.T., Jones, K.A., Tjian, R. Promoter-specific activation of RNA polymerase II transcription by Sp1 (1986) Trends in Biochemical Sciences. 11(1):20-23. DOI: 10.1016/0968-0004(86)90226-4

Jones, K.A., Tjian, R. Sp1 binds to promoter sequences and activates herpes simplex virus 'immediate-early' gene transcription in vitro. (1985) Nature. 317(6033):179-82.

Jones, K.A., Yamamoto, K.R., Tjian, R. Two distinct transcription factors bind to the HSV thymidine kinase promoter in vitro. (1985) Cell. 42(2):559-72.

Jones, K.A., Myers, R.M., Tjian, R. Mutational analysis of simian virus 40 large T antigen DNA binding sites. (1984) EMBO Journal. 3(13):3247-55.

Jones, K.A., Tjian, R. Essential contact residues within SV40 large T antigen binding sites I and II identified by alkylation-interference. (1984) Cell. 36(1):155-62.