Associate Professor Jessica Mar

ARC Future Fellow and Group Leader

Australian Institute for Bioengineering and Nanotechnology

Overview

Qualifications

  • Doctor of Philosophy, Harvard University

Publications

  • Ding, Qiao, Kesavan, Kaamini, Lee, Kah Meng, Wimberger, Elyse, Robertson, Thomas, Gill, Melinder, Power, Dominique, Chang, Jeryn, Fard, Atefeh T., Mar, Jessica C., Henderson, Robert D., Heggie, Susan, McCombe, Pamela A., Jeffree, Rosalind L., Colditz, Michael J., Hilliard, Massimo A., Ng, Dominic C. H., Steyn, Frederik J., Phillips, William D., Wolvetang, Ernst J., Ngo, Shyuan T. and Noakes, Peter G. (2022). Impaired signaling for neuromuscular synaptic maintenance is a feature of Motor Neuron Disease. Acta Neuropathologica Communications, 10 (1) 61, 61. doi: 10.1186/s40478-022-01360-5

  • Ren, Zuen, Liang, Huizhi, Galbo, Phillip M., Dharmaratne, Malindrie, Kulkarni, Ameya S., Fard, Atefeh Taherian, Aoun, Marie Louise, Martinez-Lopez, Nuria, Suyama, Kimita, Benard, Outhiriaradjou, Zheng, Wei, Liu, Yang, Albanese, Joseph, Zheng, Deyou, Mar, Jessica C., Singh, Rajat, Prystowsky, Michael B., Norton, Larry and Hazan, Rachel B. (2022). Redox signaling by glutathione peroxidase 2 links vascular modulation to metabolic plasticity of breast cancer. Proceedings of the National Academy of Sciences, 119 (8) e2107266119. doi: 10.1073/pnas.2107266119

  • Watson, Ebony Rose, Taherian Fard, Atefeh and Mar, Jessica Cara (2022). Computational methods for single-cell imaging and omics data integration. Frontiers in Molecular Biosciences, 8 768106, 768106. doi: 10.3389/fmolb.2021.768106

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Grants

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Supervision

  • Doctor Philosophy

  • Doctor Philosophy

  • Doctor Philosophy

View all Supervision

Publications

Journal Article

  • Ding, Qiao, Kesavan, Kaamini, Lee, Kah Meng, Wimberger, Elyse, Robertson, Thomas, Gill, Melinder, Power, Dominique, Chang, Jeryn, Fard, Atefeh T., Mar, Jessica C., Henderson, Robert D., Heggie, Susan, McCombe, Pamela A., Jeffree, Rosalind L., Colditz, Michael J., Hilliard, Massimo A., Ng, Dominic C. H., Steyn, Frederik J., Phillips, William D., Wolvetang, Ernst J., Ngo, Shyuan T. and Noakes, Peter G. (2022). Impaired signaling for neuromuscular synaptic maintenance is a feature of Motor Neuron Disease. Acta Neuropathologica Communications, 10 (1) 61, 61. doi: 10.1186/s40478-022-01360-5

  • Ren, Zuen, Liang, Huizhi, Galbo, Phillip M., Dharmaratne, Malindrie, Kulkarni, Ameya S., Fard, Atefeh Taherian, Aoun, Marie Louise, Martinez-Lopez, Nuria, Suyama, Kimita, Benard, Outhiriaradjou, Zheng, Wei, Liu, Yang, Albanese, Joseph, Zheng, Deyou, Mar, Jessica C., Singh, Rajat, Prystowsky, Michael B., Norton, Larry and Hazan, Rachel B. (2022). Redox signaling by glutathione peroxidase 2 links vascular modulation to metabolic plasticity of breast cancer. Proceedings of the National Academy of Sciences, 119 (8) e2107266119. doi: 10.1073/pnas.2107266119

  • Watson, Ebony Rose, Taherian Fard, Atefeh and Mar, Jessica Cara (2022). Computational methods for single-cell imaging and omics data integration. Frontiers in Molecular Biosciences, 8 768106, 768106. doi: 10.3389/fmolb.2021.768106

  • Grapotte, Mathys, Saraswat, Manu, Bessière, Chloé, Menichelli, Christophe, Ramilowski, Jordan A., Severin, Jessica, Hayashizaki, Yoshihide, Itoh, Masayoshi, Tagami, Michihira, Murata, Mitsuyoshi, Kojima-Ishiyama, Miki, Noma, Shohei, Noguchi, Shuhei, Kasukawa, Takeya, Hasegawa, Akira, Suzuki, Harukazu, Nishiyori-Sueki, Hiromi, Frith, Martin C., Abugessaisa, Imad, Aitken, Stuart, Aken, Bronwen L., Alam, Intikhab, Alam, Tanvir, Alasiri, Rami, Alhendi, Ahmad M. N., Alinejad-Rokny, Hamid, Alvarez, Mariano J., Andersson, Robin, Arakawa, Takahiro ... Lecellier, Charles-Henri (2021). Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network. Nature Communications, 12 (1) 3297. doi: 10.1038/s41467-021-23143-7

  • de Torrente, Laurence, Zimmerman, Samuel, Suzuki, Masako, Christopeit, Maximilian, Greally, John M. and Mar, Jessica C. (2020). The shape of gene expression distributions matter: how incorporating distribution shape improves the interpretation of cancer transcriptomic data. BMC Bioinformatics, 21 (Suppl 21) 562, 562. doi: 10.1186/s12859-020-03892-w

  • Lu, Tianyuan and Mar, Jessica C. (2020). Investigating transcriptome-wide sex dimorphism by multi-level analysis of single-cell RNA sequencing data in ten mouse cell types. Biology of Sex Differences, 11 (1) 61, 61. doi: 10.1186/s13293-020-00335-2

  • Yu, Bo, Doni Jayavelu, Naresh, Battle, Stephanie L., Mar, Jessica C., Schimmel, Timothy, Cohen, Jacques and Hawkins, R. David (2020). Single-cell analysis of transcriptome and DNA methylome in human oocyte maturation. PLoS One, 15 (11) e0241698, e0241698. doi: 10.1371/journal.pone.0241698

  • Kulkarni, Ameya S., Peck, Bailey D., Walton, R. Grace, Kern, Philip A., Mar, Jessica C., Windham, Samuel T., Bamman, Marcas M., Barzilai, Nir and Peterson, Charlotte A. (2020). Metformin alters skeletal muscle transcriptome adaptations to resistance training in older adults. Aging, 12 (20), 19852-19866. doi: 10.18632/aging.104096

  • Piqué, Daniel G., Greally, John M. and Mar, Jessica C. (2020). Identification of a novel subgroup of endometrial cancer patients with loss of thyroid hormone receptor beta expression and improved survival. BMC Cancer, 20 (1) 857, 857. doi: 10.1186/s12885-020-07325-y

  • Ratnakumar, Abhirami, Weinhold, Nils, Mar, Jessica C. and Riaz, Nadeem (2020). Protein-protein interactions uncover candidate 'core genes' within omnigenic disease networks. PLoS Genetics, 16 (7) e1008903, e1008903. doi: 10.1371/journal.pgen.1008903

  • Wei, Qiaozhi, Nakahara, Fumio, Asada, Noboru, Zhang, Dachuan, Gao, Xin, Xu, Chunliang, Alfieri, Alan, Brodin, N. Patrik, Zimmerman, Samuel E., Mar, Jessica C., Guha, Chandan, Guo, Wenjun and Frenette, Paul S. (2020). Snai2 maintains bone marrow niche cells by repressing osteopontin expression. Developmental Cell, 53 (5), 503-513. doi: 10.1016/j.devcel.2020.04.012

  • Andriani, Grasiella A., Maggi, Elaine, Piqué, Daniel, Zimmerman, Samuel E., Lee, Moonsook, Quispe-Tintaya, Wilber, Maslov, Alexander, Campisi, Judith, Vijg, Jan, Mar, Jessica C. and Montagna, Cristina (2019). A direct comparison of interphase FISH versus low-coverage single cell sequencing to detect aneuploidy reveals respective strengths and weaknesses. Scientific Reports, 9 (1) 10508, 10508. doi: 10.1038/s41598-019-46606-w

  • Piqué, Daniel G., Andriani, Grasiella A., Maggi, Elaine, Zimmerman, Samuel E., Greally, John M., Montagna, Cristina and Mar, Jessica C. (2019). Aneuvis: web-based exploration of numerical chromosomal variation in single cells. BMC Bioinformatics, 20 (1) 336, 336. doi: 10.1186/s12859-019-2842-1

  • Raman, Pichai, Zimmerman, Samuel, Rathi, Komal S., de Torrenté, Laurence, Sarmady, Mahdi, Wu, Chao, Leipzig, Jeremy, Taylor, Deanne M., Tozeren, Aydin and Mar, Jessica C. (2019). A comparison of survival analysis methods for cancer gene expression RNA-Sequencing data. Cancer Genetics, 235-236, 1-12. doi: 10.1016/j.cancergen.2019.04.004

  • Taylor, Deanne M., Aronow, Bruce J., Tan, Kai, Bernt, Kathrin, Salomonis, Nathan, Greene, Casey S., Frolova, Alina, Henrickson, Sarah E., Wells, Andrew, Pei, Liming, Jaiswal, Jyoti K., Whitsett, Jeffrey, Hamilton, Kathryn E., MacParland, Sonya A., Kelsen, Judith, Heuckeroth, Robert O., Potter, S. Steven, Vella, Laura A., Terry, Natalie A., Ghanem, Louis R., Kennedy, Benjamin C., Helbig, Ingo, Sullivan, Kathleen E., Castelo-Soccio, Leslie, Kreigstein, Arnold, Herse, Florian, Nawijn, Martijn C., Koppelman, Gerard H., Haendel, Melissa ... White, Peter S. (2019). The Pediatric Cell Atlas: defining the growth phase of human development at single-cell resolution. Developmental Cell, 49 (1), 10-29. doi: 10.1016/j.devcel.2019.03.001

  • Mar, Jessica C. (2019). The rise of the distributions: why non-normality is important for understanding the transcriptome and beyond. Biophysical Reviews, 11 (1), 89-94. doi: 10.1007/s12551-018-0494-4

  • Piqué, Daniel G., Montagna, Cristina, Greally, John M. and Mar, Jessica C. (2019). A novel approach to modelling transcriptional heterogeneity identifies the oncogene candidate CBX2 in invasive breast carcinoma. British Journal of Cancer, 120 (7), 746-753. doi: 10.1038/s41416-019-0387-8

  • Ratnakumar, Abhirami, Zimmerman, Samuel E., Jordan, Bryen A. and Mar, Jessica C. (2019). Estrogen activates Alzheimer's disease genes. Alzheimer's and Dementia: Translational Research and Clinical Interventions, 5 (C), 906-917. doi: 10.1016/j.trci.2019.09.004

  • Xu, Chunliang, Gao, Xin, Wei, Qiaozhi, Nakahara, Fumio, Zimmerman, Samuel E., Mar, Jessica and Frenette, Paul S. (2018). Stem cell factor is selectively secreted by arterial endothelial cells in bone marrow. Nature Communications, 9 (1) 2449. doi: 10.1038/s41467-018-04726-3

  • Boulais, Philip E., Mizoguchi, Toshihide, Zimmerman, Samuel, Nakahara, Fumio, Vivie, Judith, Mar, Jessica C., van Oudenaarden, Alexander and Frenette, Paul S. (2018). The majority of CD45- Ter119- CD31- bone marrow cell fraction is of hematopoietic origin and contains erythroid and lymphoid progenitors. Immunity, 49 (4), 627-639. doi: 10.1016/j.immuni.2018.2018.08.019

  • Chen, Shuonan and Mar, Jessica C. (2018). Evaluating methods of inferring gene regulatory networks highlights their lack of performance for single cell gene expression data. BMC Bioinformatics, 19 (1) 232, 232. doi: 10.1186/s12859-018-2217-z

  • Kulkarni, Ameya S., Brutsaert, Erika F., Anghel, Valentin, Zhang, Kehao, Bloomgarden, Noah, Pollak, Michael, Mar, Jessica C., Hawkins, Meredith, Crandall, Jill P. and Barzilai, Nir (2018). Metformin regulates metabolic and nonmetabolic pathways in skeletal muscle and subcutaneous adipose tissues of older adults. Aging Cell, 17 (2) e12723, e12723. doi: 10.1111/acel.12723

  • Bueno, Raymund and Mar, Jessica C. (2017). Changes in gene expression variability reveal a stable synthetic lethal interaction network in BRCA2-ovarian cancers. Methods, 131, 74-82. doi: 10.1016/j.ymeth.2017.07.021

  • de Torrente, Laurence, Zimmerman, Samuel, Taylor, Deanne, Hasegawa, Yu, Wells, Christine A. and Mar, Jessica C. (2017). pathVar: a new method for pathway-based interpretation of gene expression variability. PeerJ, 2017 (5) e3334, e3334. doi: 10.7717/peerj.3334

  • Ito, Kyoko, Turcotte, Raphaël, Cui, Jinhua, Zimmerman, Samuel E., Pinho, Sandra, Mizoguchi, Toshihide, Arai, Fumio, Runnels, Judith M., Alt, Clemens, Teruya-Feldstein, Julie, Mar, Jessica C., Singh, Rajat, Suda, Toshio, Lin, Charles P., Frenette, Paul S. and Ito, Keisuke (2016). Self-renewal of a purified Tie2+ hematopoietic stem cell population relies on mitochondrial clearance. Science, 354 (6316), 1156-1160. doi: 10.1126/science.aaf5530

  • Taherian Fard, Atefeh, Srihari, Sriganesh, Mar, Jessica C. and Ragan, Mark A. (2016). Not just a colourful metaphor: modelling the landscape of cellular development using Hopfield networks. NPJ Systems Biology and Applications, 2 (1) 16001, 16001. doi: 10.1038/npjsba.2016.1

  • Hurst, Laurence D., Ghanbarian, Avazeh T., Forrest, Alistair R. R., Huminiecki, Lukasz, Rehli, Michael, Baillie, J. Kenneth, de Hoon, Michiel J. L., Haberle, Vanja, Lassmann, Timo, Kulakovskiy, Ivan V., Lizio, Marina, Itoh, Masayoshi, Andersson, Robin, Mungall, Christopher J., Meehan, Terrence F., Schmeier, Sebastian, Bertin, Nicolas, Jorgensen, Mette, Dimont, Emmanuel, Arner, Erik, Schmidl, Christian, Schaefer, Ulf, Medvedeva, Yulia A., Plessy, Charles, Vitezic, Morana, Severin, Jessica, Semple, Colin A., Ishizu, Yuri, Young, Robert S. ... Hayashizaki, Yoshihide (2015). The constrained maximal expression level owing to haploidy shapes gene content on the mammalian X chromosome. PLoS Biology, 13 (12) e1002315, e1002315. doi: 10.1371/journal.pbio.1002315

  • Carbajo, Daniel, Magi, Shigeyuki, Itoh, Masayoshi, Kawaji, Hideya, Lassmann, Timo, Arner, Erik, Forrest, Alistair R. R., Carninci, Piero, Hayashizaki, Yoshihide, Daub, Carsten O., Okada-Hatakeyama, Mariko and Mar, Jessica C. (2015). Application of gene expression trajectories initiated from ErbB receptor activation highlights the dynamics of divergent promoter usage. Plos One, 10 (12) e0144176, e0144176. doi: 10.1371/journal.pone.0144176

  • Hasegawa, Yu., Taylor, Deanne., Ovchinnikov, Dmitry A., Wolvetang, Ernst J., de Torrente, Laurence. and Mar, Jessica C. (2015). Variability of Gene Expression Identifies Transcriptional Regulators of Early Human Embryonic Development. PLoS Genetics, 11 (8) e1005428, e1005428. doi: 10.1371/journal.pgen.1005428

  • Hussein, Samer M. I., Puri, Mira C., Tonge, Peter D., Benevento, Marco, Corso, Andrew J., Clancy, Jennifer L., Mosbergen, Rowland, Li, Mira, Lee, Dong-Sung, Cloonan, Nicole, Wood, David L. A., Munoz, Javier, Middleton, Robert, Korn, Othmar, Patel, Hardip R., White, Carl A., Shin, Jong-Yeon, Gauthier, Maely E., Le Cao, Kim-Anh, Kim, Jong-Il, Mar, Jessica C., Shakiba, Nika, Ritchie, William, Rasko, John E. J., Grimmond, Sean M., Zandstra, Peter W., Wells, Christine A., Preiss, Thomas, Seo, Jeong-Sun ... Nagy, Andras (2015). Corrigendum: Genome-wide characterization of the routes to pluripotency. Nature, 523 (7562), 626-626. doi: 10.1038/nature14606

  • Tonge, Peter D., Corso, Andrew J., Monetti, Claudio, Hussein, Samer M. I., Puri, Mira C., Michael, Iacovos P., Li, Mira, Lee, Dong-Sung, Mar, Jessica C., Cloonan, Nicole, Wood, David L., Gauthier, Maely E., Korn, Othmar, Clancy, Jennifer L., Preiss, Thomas, Grimmond, Sean M., Shin, Jong-Yeon, Seo, Jeong-Sun, Wells, Christine A., Rogers, Ian M. and Nagy, Andras (2015). Erratum: Divergent reprogramming routes lead to alternative stem-cell states (Nature (2014) 516 (192-197) DOI: 10.1038/nature14047). Nature, 523 (7562), 626-626. doi: 10.1038/nature14607

  • Ramachandiran, Sampath, Adon, Arsene, Guo, Xiangxue, Wang, Yi, Wang, Huichen, Chen, Zhengjia, Kowalski, Jeanne, Sunay, Ustun R., Young, Andrew N., Brown, Theresa, Mar, Jessica C., Du, Yuhong, Fu, Haian, Mann, Karen P., Natkunam, Yasodha, Boise, Lawrence H., Saavedra, Harold I., Lossos, Izidore S. and Bernal-Mizrachi, Leon (2015). Chromosome instability in diffuse large B cell lymphomas is suppressed by activation of the noncanonical NF-κB pathway. International Journal of Cancer, 136 (10), 2341-2351. doi: 10.1002/ijc.29301

  • Li, Wenge, Calder, R. Brent, Mar, Jessica C. and Vijg, Jan (2015). Single-cell transcriptogenomics reveals transcriptional exclusion of ENU-mutated alleles. Mutation Research - Fundamental and Molecular Mechanisms of Mutagenesis, 772, 55-62. doi: 10.1016/j.mrfmmm.2015.01.002

  • Tonge, Peter D., Corso, Andrew J., Monetti, Claudio, Hussein, Samer M. I., Puri, Mira C., Michael, Iacovos P., Li, Mira, Lee, Dong-Sung, Mar, Jessica C., Cloonan, Nicole, Wood, David L., Gauthier, Maely E., Korn, Othmar, Clancy, Jennifer L., Preiss, Thomas, Grimmond, Sean M., Shin, Jong-Yeon, Seo, Jeong-Sun, Wells, Christine A., Rogers, Ian M. and Nagy, Andras (2014). Divergent reprogramming routes lead to alternative stem-cell states. Nature, 516 (7530), 192-197. doi: 10.1038/nature14047

  • Hussein, Samer M. I., Puri, Mira C., Tonge, Peter D., Benevento, Marco, Corso, Andrew J., Clancy, Jennifer L., Mosbergen, Rowland, Li, Mira, Lee, Dong-Sung, Cloonan, Nicole, Wood, David L. A., Munoz, Javier, Middleton, Robert, Korn, Othmar, Patel, Hardip R., White, Carl A., Shin, Jong-Yeon, Gauthier, Maely E., Le Cao, Kim-Anh, Kim, Jong-Il, Mar, Jessica C., Shakiba, Nika, Ritchie, William, Rasko, John E. J., Grimmond, Sean M., Zandstra, Peter W., Wells, Christine A., Preiss, Thomas, Seo, Jeong-Sun ... Nagy, Andras (2014). Genome-wide characterization of the routes to pluripotency. Nature, 516 (7530), 198-+. doi: 10.1038/nature14046

  • Wijetunga, N. Ari, Delahaye, Fabien, Zhao, Yong M., Golden, Aaron, Mar, Jessica C., Einstein, Francine H. and Greally, John M. (2014). The meta-epigenomic structure of purified human stem cell populations is defined at cis-regulatory sequences. Nature Communications, 5 (1) 6195. doi: 10.1038/ncomms6195

  • Mason, Elizabeth, Mar, Jessica C., Laslett, Andrew, Pera, Martin F., Quackenbush, John, Wolvetang, Ernst and Wells C. (2014). Gene expression variability as a unifying element of the pluripotency network. Stem Cell Reports, 3 (2), 365-377. doi: 10.1016/j.stemcr.2014.06.008

  • Hough, Shelley R., Thornton, Matthew, Mason, Elizabeth, Mar, Jessica C., Wells, Christine A. and Pera, Martin F. (2014). Single-cell gene expression profiles define self-renewing, pluripotent, and lineage primed states of human pluripotent stem cells. Stem Cell Reports, 2 (6), 881-895. doi: 10.1016/j.stemcr.2014.04.014

  • Mukhopadhyay, Rituparna, Lajugie, Julien, Fourel, Nicolas, Selzer, Ari, Schizas, Michael, Bartholdy, Boris, Mar, Jessica, Lin, Chii Mei, Martin, Melvenia M., Ryan, Michael, Aladjem, Mirit I. and Bouhassira, Eric E. (2014). Allele-specific genome-wide profiling in human primary erythroblasts reveal replication program organization. PLoS Genetics, 10 (5) e1004319, e1004319. doi: 10.1371/journal.pgen.1004319

  • Forest, Alistair R. R., Kawaji, Hideya, Rehli, Michael, Baillie, J. Kenneth, De Hoon, Michael J. L., Haberle, Vanja, Lassmann, Timo, Kulakovskiy, Ivan V., Lizio, Marina, Itoh, Masayoshi, Andersson, Robin, Mungall, Christopher J., Meehan, Terrence F., Schmeier, Sebastian, Bertin, Nicholas, Jorgensen, Mette, Dimont, Emmanuel, Arner, Erik, Schmidl, Christian, Schaefer, Ulf, Medvedeva, Yulia A., Plessy, Charles, Vitezic, Morana, Severin, Jessica, Semple, Colin A., Ishizu, Yuri, Young, Robert S., Francescatto, Margherita, Altschuler, Intikhab ... Hayashizaki, Yoshihide (2014). A promoter-level mammalian expression atlas. Nature, 507 (7493), 462-470. doi: 10.1038/nature13182

  • Goto, Derek B., Miyazawa, Hikota, Mar, Jessica C. and Sato, Masanao (2013). Not to be suppressed?: rethinking the host response at a root-parasite interface. Plant Science, 213, 9-17. doi: 10.1016/j.plantsci.2013.08.004

  • Kunisaki, Yuya, Bruns, Ingmar, Scheiermann, Christoph, Ahmed, Jalal, Pinho, Sandra, Zhang, Dachuan, Mizoguchi, Toshihide, Wei, Qiaozhi, Lucas, Daniel, Ito, Keisuke, Mar, Jessica C., Bergman, Aviv and Frenette, Paul S. (2013). Arteriolar niches maintain haematopoietic stem cell quiescence. Nature, 502 (7473), 637-643. doi: 10.1038/nature12612

  • Kouno, Tsukasa, de Hoon, Michiel, Mar, Jessica C., Tomaru, Yasuhiro, Kawano, Mitsuoki, Carninci, Piero, Suzuki, Harukazu, Hayashizaki, Yoshihide and Shin, Jay W. (2013). Temporal dynamics and transcriptional control using single-cell gene expression analysis. Genome Biology, 14 (10) R118. doi: 10.1186/gb-2013-14-10-r118

  • Rozenblatt-Rosen, Orit, Deo, Rahul C., Padi, Megha, Adelmant, Guillaume, Calderwood, Michael A., Rolland, Thomas, Grace, Miranda, Dricot, Amélie, Askenazi, Manor, Tavares, Maria, Pevzner, Samuel J., Abderazzaq, Fieda, Byrdsong, Danielle, Carvunis, Anne-Ruxandra, Chen, Alyce A., Cheng, Jingwei, Correll, Mick, Duarte, Melissa, Fan, Changyu, Feltkamp, Mariet C., Ficarro, Scott B., Franchi, Rachel, Garg, Brijesh K., Gulbahce, Natali, Hao, Tong, Holthaus, Amy M., James, Robert, Korkhin, Anna, Litovchick, Larisa ... Vidal, Marc (2012). Interpreting cancer genomes using systematic host network perturbations by tumour virus proteins. Nature, 487 (7408), 491-495. doi: 10.1038/nature11288

  • Nayler, Sam, Gatei, Magtouf, Kozlov, Sergei, Gatti, Richard, Mar, Jessica C., Wells, Christine A., Lavin, Martin and Wolvetang, Ernst (2012). Induced Pluripotent Stem Cells from Ataxia-Telangiectasia Recapitulate the Cellular Phenotype. Stem Cells Translational Medicine, 1 (7), 523-535. doi: 10.5966/sctm.2012-0024

  • Gulbahce, Natali, Yan, Han, Dricot, Amélie, Padi, Megha, Byrdsong, Danielle, Franchi, Rachel, Lee, Deok-Sun, Rozenblatt-Rosen, Orit, Mar, Jessica C., Calderwood, Michael A., Baldwin, Amy, Zhao, Bo, Santhanam, Balaji, Braun, Pascal, Simonis, Nicolas, Huh, Kyung-Won, Hellner, Karin, Grace, Miranda, Chen, Alyce, Rubio, Renee, Marto, Jarrod A., Christakis, Nicholas A., Kieff, Elliott, Roth, Frederick P., Roecklein-Canfield, Jennifer, DeCaprio, James A., Cusick, Michael E., Quackenbush, John, Hill, David E. ... Barabási, Albert-László (2012). Viral perturbations of host networks reflect disease etiology. PLoS Computational Biology, 8 (6) e1002531, e1002531. doi: 10.1371/journal.pcbi.1002531

  • Chittenden, Thomas W., Howe, Eleanor A., Taylor, Jennifer M., Mar, Jessica C., Aryee, Martin J., Gómez, Harold, Sultana, Razvan, Braisted, John, Nair, Sarita J., Quackenbush, John and Holmes, Chris (2012). nEASE: a method for gene ontology subclassification of high-throughput gene expression data. Bioinformatics, 28 (5) bts011, 726-728. doi: 10.1093/bioinformatics/bts011

  • Gewurz, Benjamin E., Towfic, Fadi, Mar, Jessica C., Shinners, Nicholas P., Takasaki, Kaoru, Zhao, Bo, Cahir-McFarland, Ellen D., Quackenbush, John, Xavier, Ramnik J. and Kieff, Elliott (2012). Genome-wide siRNA screen for mediators of NF-κB activation. Proceedings of the National Academy of Sciences of the United States of America, 109 (7), 2467-2472. doi: 10.1073/pnas.1120542109

  • Mar, Jessica C., Matigian, Nicholas A., Quackenbush, John and Wells, Christine A. (2011). Attract : A method for identifying core pathways that define cellular phenotypes. PLoS One, 6 (10 Article # e25445) e25445, e25445-1-e25445-6. doi: 10.1371/journal.pone.0025445

  • Zhao, Bo, Zou, James, Wang, Hongfang, Johannsen, Eric, Peng, Chih-Wen, Quackenbush, John, Mar, Jessica C., Morton, Cynthia Casson, Freedman, Matthew L., Blacklow, Stephen C., Aster, Jon C., Bernstein, Bradley E. and Kieff, Elliott (2011). Epstein-Barr virus exploits intrinsic B-lymphocyte transcription programs to achieve immortal cell growth. Proceedings of the National Academy of Sciences of the United States of America, 108 (36), 14902-14907. doi: 10.1073/pnas.1108892108

  • Mar, Jessica C., Matigian, Nicholas A., Mackay-Sim, Alan, Mellick, George D., Sue, Carolyn M., Silburn, Peter A., McGrath, John J., Quackenbush, John and Wells, Christine A. (2011). Variance of gene expression identifies altered network constraints in neurological disease. PLoS Genetics, 7 (8) e1002207, e1002207. doi: 10.1371/journal.pgen.1002207

  • Gewurz, Benjamin E., Mar, Jessica C., Padi, Megha, Zhao, Bo, Shinners, Nicholas P., Takasaki, Kaoru, Bedoya, Edward, Zou, James Y., Cahir-Mcfarland, Ellen, Quackenbush, John and Kieff, Elliott (2011). Canonical NF-κB activation is essential for Epstein-Barr virus latent membrane protein 1 TES2/CTAR2 gene regulation. Journal of Virology, 85 (13), 6764-6773. doi: 10.1128/JVI.00422-11

  • Mar, Jessica C., Wells, Christine A. and Quackenbush, John (2011). Defining an informativeness metric for clustering gene expression data. Bioinformatics, 27 (8) btr074, 1094-1100. doi: 10.1093/bioinformatics/btr074

  • Zhao, Bo, Mar, Jessica C., Maruo, Seiji, Lee, Sungwook, Gewurz, Benjamin E., Johannsen, Eric, Holton, Kristina, Rubio, Renee, Takada, Kenzo, Quackenbush, John and Kieff, Elliott (2011). Epstein-Barr virus nuclear antigen 3C regulated genes in lymphoblastoid cell lines. Proceedings of the National Academy of Sciences, 108 (1), 337-342. doi: 10.1073/pnas.1017419108

  • Chittenden, Thomas W., Pak, Jane, Rubio, Renee, Cheng, Hailing, Holton, Kristina, Prendergast, Niall, Glinskii, Vladimir, Cai, Yi, Culhane, Aedin, Bentink, Stefan, Schwede, Mathew, Mar, Jessica C., Howe, Eleanor A., Aryee, Martin, Sultana, Razvan, Lanahan, Anthony A., Taylor, Jennifer M., Holmes, Chris, Hahn, William C., Zhao, Jean J., Iglehart, J. Dirk and Quackenbush, John (2010). Therapeutic implications of GIPC1 silencing in cancer. PLoS ONE, 5 (12) e15581, e15581. doi: 10.1371/journal.pone.0015581

  • Mar, Jessica C. and Quackenbush, John (2009). Decomposition of gene expression state space trajectories. PLoS Computational Biology, 5 (12) e1000626. doi: 10.1371/journal.pcbi.1000626

  • Hellner, Karin, Mar, Jessica, Fang, Frank, Quackenbush, John and Münger, Karl (2009). HPV16 E7 oncogene expression in normal human epithelial cells causes molecular changes indicative of an epithelial to mesenchymal transition. Virology, 391 (1), 57-63. doi: 10.1016/j.virol.2009.05.036

  • Suzuki, H, Forrest, ARR, van Nimwegen, E, Daub, CO, Balwierz, PJ, Irvine, KM, Lassmann, T, Ravasi, T, Hasegawa, Y, de Hoon, MJL, Katayama, S, Schroder, K, Carninci, P, Tomaru, Y, Kanamori-Katayama, M, Kubosaki, A, Akalin, A, Ando, Y, Arner, E, Asada, M, Asahara, H, Bailey, T, Bajic, VB, Bauer, D, Beckhouse, AG, Bertin, N, Bjorkegren, J, Brombacher, F, Bulger, E ... Riken Omics Science Center (2009). The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line. Nature Genetics, 41 (5), 553-562. doi: 10.1038/ng.375

  • Mar, Jessica C., Kimura, Yasumasa, Schroder, Kate, Irvine, Katherine M., Hayashizaki, Yoshihide, Suzuki, Harukazu, Hume, David and Quackenbush, John (2009). Data-driven normalization strategies for high-throughput quantitative RT-PCR. BMC Bioinformatics, 10 (1) 110, 110.1-110.10. doi: 10.1186/1471-2105-10-110

  • Silver, Daniel P., Dimitrov, Stoil D., Feunteun, Jean, Gelman, Rebecca, Drapkin, Ronny, Lu, Shihua D., Shestakova, Elena, Velmurugan, Soundarapandian, DeNunzio, Nicholas, Dragomir, Serban, Mar, Jessica, Liu, Xiaoling, Rottenberg, Sven, Jonkers, Jos, Ganesan, Shridar and Livingston, David M. (2007). Further Evidence for BRCA1 Communication with the Inactive X Chromosome. Cell, 128 (5), 991-1002. doi: 10.1016/j.cell.2007.02.025

  • Mar, Jessica C., Rubio, Renee and Quackenbush, John (2006). Inferring steady state single-cell gene expression distributions from analysis of mesoscopic samples. Genome Biology, 7 (12) R119. doi: 10.1186/gb-2006-7-12-r119

  • Haas, David W., Geraghty, Daniel E., Andersen, Janet, Mar, Jessica, Motsinger, Alison A., D'Aquila, Richard T., Unutmaz, Derya, Benson, Constance A., Ritchie, Marylyn D. and Landay, Alan (2006). Immunogenetics of CD4 lymphocyte count recovery during antiretroviral therapy: An AIDS clinical trials group study. Journal of Infectious Diseases, 194 (8), 1098-1107. doi: 10.1086/507313

  • Mar, Jessica C., Harlow, Timothy J . and Ragan, Mark A. (2005). Bayesian and maximum likelihood phylogenetic analyses of protein sequence data under relative branch-length differences and model violation. BMC Evolutionary Biology, 5, 8.1-8.20. doi: 10.1186/1471-2148-5-8

  • Mar, J.C. and McLachlan, G.J. (2003). Model-based clustering in gene expression microarrays: an application to breast cancer data. International Journal of Software Engineering and Knowledge Engineering, 13 (6), 579-592. doi: 10.1142/S0218194003001482

Conference Publication

  • Ren, Zuen, Dharmaratne, Malindrie, Kulkarni, Ameya, Fard, Atefeh Taherian, Mar, Jessica, Galbo, Phillip M., Liu, Yang, Zheng, Deyou, Liang, Huizhi, Benard, Outhiriaradjou, Suyama, Kimita, Prystowsky, Michael B., Norton, Larry and Hazan, Rachel B. (2020). Redox regulation of tumor cell heterogeneity in the PyMT mammary tumor model revealed by single cell RNA sequencing. AACR Annual Meeting, Online, 22-24 June, 2020. Philadelphia, PA, United States: American Association for Cancer Research. doi: 10.1158/1538-7445.am2020-4426

  • Church, Benjamin V., Williams, Henry T. and Mar, Jessica C. (2019). Investigating skewness to understand gene expression heterogeneity in large patient cohorts. The International Conference on Intelligent Biology and Medicine (ICIBM 2019), Columbia, OH, United States, 9-11 June 2019. London, United Kingdom: BioMed Central. doi: 10.1186/s12859-019-3252-0

Grants (Administered at UQ)

PhD and MPhil Supervision

Current Supervision