Search Results - "Wani, Shivangi"

Genome-wide gene expression changes in postpartum depression point towards an altered immune landscape by Mehta, Divya, Grewen, Karen, Pearson, Brenda, Wani, Shivangi, Wallace, Leanne, Henders, Anjali K., Binder, Elisabeth B., Frokjaer, Vibe G., Meltzer-Brody, Samantha, Wray, Naomi R., Stuebe, Alison M.

“…Maternal postpartum depression (PPD) is a significant public health concern due to the severe negative impact on maternal and child health and well-being. In…”
Get full text

Long Noncoding RNAs CUPID1 and CUPID2 Mediate Breast Cancer Risk at 11q13 by Modulating the Response to DNA Damage by Betts, Joshua A., Moradi Marjaneh, Mahdi, Al-Ejeh, Fares, Lim, Yi Chieh, Shi, Wei, Sivakumaran, Haran, Tropée, Romain, Patch, Ann-Marie, Clark, Michael B., Bartonicek, Nenad, Wiegmans, Adrian P., Hillman, Kristine M., Kaufmann, Susanne, Bain, Amanda L., Gloss, Brian S., Crawford, Joanna, Kazakoff, Stephen, Wani, Shivangi, Wen, Shu W., Day, Bryan, Möller, Andreas, Cloonan, Nicole, Pearson, John, Brown, Melissa A., Mercer, Timothy R., Waddell, Nicola, Khanna, Kum Kum, Dray, Eloise, Dinger, Marcel E., Edwards, Stacey L., French, Juliet D.

“…Breast cancer risk is strongly associated with an intergenic region on 11q13. We have previously shown that the strongest risk-associated SNPs fall within a…”
Get full text

Integrated genomic and transcriptomic analysis of human brain metastases identifies alterations of potential clinical significance by Saunus, Jodi M, Quinn, Michael CJ, Patch, Ann-Marie, Pearson, John V, Bailey, Peter J, Nones, Katia, McCart Reed, Amy E, Miller, David, Wilson, Peter J, Al-Ejeh, Fares, Mariasegaram, Mythily, Lau, Queenie, Withers, Teresa, Jeffree, Rosalind L, Reid, Lynne E, Da Silva, Leonard, Matsika, Admire, Niland, Colleen M, Cummings, Margaret C, Bruxner, Timothy JC, Christ, Angelika N, Harliwong, Ivon, Idrisoglu, Senel, Manning, Suzanne, Nourse, Craig, Nourbakhsh, Ehsan, Wani, Shivangi, Anderson, Matthew J, Fink, J Lynn, Holmes, Oliver, Kazakoff, Stephen, Leonard, Conrad, Newell, Felicity, Taylor, Darrin, Waddell, Nick, Wood, Scott, Xu, Qinying, Kassahn, Karin S, Narayanan, Vairavan, Taib, Nur Aishah, Teo, Soo-Hwang, Chow, Yock Ping, kConFab, Jat, Parmjit S, Brandner, Sebastian, Flanagan, Adrienne M, Khanna, Kum Kum, Chenevix-Trench, Georgia, Grimmond, Sean M, Simpson, Peter T, Waddell, Nicola, Lakhani, Sunil R

“…Treatment options for patients with brain metastases (BMs) have limited efficacy and the mortality rate is virtually 100%. Targeted therapy is critically…”
Get full text

MicroRNA-182-5p targets a network of genes involved in DNA repair by Krishnan, Keerthana, Steptoe, Anita L, Martin, Hilary C, Wani, Shivangi, Nones, Katia, Waddell, Nic, Mariasegaram, Mythily, Simpson, Peter T, Lakhani, Sunil R, Gabrielli, Brian, Vlassov, Alexander, Cloonan, Nicole, Grimmond, Sean M

“…MicroRNAs are noncoding regulators of gene expression, which act by repressing protein translation and/or degrading mRNA. Many have been shown to drive…”
Get full text

Somatic point mutation calling in low cellularity tumors by Kassahn, Karin S, Holmes, Oliver, Nones, Katia, Patch, Ann-Marie, Miller, David K, Christ, Angelika N, Harliwong, Ivon, Bruxner, Timothy J, Xu, Qinying, Anderson, Matthew, Wood, Scott, Leonard, Conrad, Taylor, Darrin, Newell, Felicity, Song, Sarah, Idrisoglu, Senel, Nourse, Craig, Nourbakhsh, Ehsan, Manning, Suzanne, Wani, Shivangi, Steptoe, Anita, Pajic, Marina, Cowley, Mark J, Pinese, Mark, Chang, David K, Gill, Anthony J, Johns, Amber L, Wu, Jianmin, Wilson, Peter J, Fink, Lynn, Biankin, Andrew V, Waddell, Nicola, Grimmond, Sean M, Pearson, John V

“…Somatic mutation calling from next-generation sequencing data remains a challenge due to the difficulties of distinguishing true somatic events from artifacts…”
Get full text

Caveolin‐1‐driven membrane remodelling regulates hnRNPK‐mediated exosomal microRNA sorting in cancer by Robinson, Harley, Ruelcke, Jayde E., Lewis, Amanda, Bond, Charles S., Fox, Archa H., Bharti, Vandhana, Wani, Shivangi, Cloonan, Nicole, Lai, Andrew, Margolin, David, Li, Li, Salomon, Carlos, Richards, Renée S., Farrell, Aine, Gardiner, Robert A., Parton, Robert G., Cristino, Alexandre S., Hill, Michelle M.

“…Background Caveolae proteins play diverse roles in cancer development and progression. In prostate cancer, non‐caveolar caveolin‐1 (CAV1) promotes metastasis,…”
Get full text

Imperfect centered miRNA binding sites are common and can mediate repression of target mRNAs by Martin, Hilary C, Wani, Shivangi, Steptoe, Anita L, Krishnan, Keerthana, Nones, Katia, Nourbakhsh, Ehsan, Vlassov, Alexander, Grimmond, Sean M, Cloonan, Nicole

“…MicroRNAs (miRNAs) bind to mRNAs and target them for translational inhibition or transcriptional degradation. It is thought that most miRNA-mRNA interactions…”
Get full text

Shutdown of HIV-1 Transcription in T Cells by Nullbasic, a Mutant Tat Protein by Jin, Hongping, Li, Dongsheng, Sivakumaran, Haran, Lor, Mary, Rustanti, Lina, Cloonan, Nicole, Wani, Shivangi, Harrich, David

“…Nullbasic is a derivative of the HIV-1 transactivator of transcription (Tat) protein that strongly inhibits HIV-1 replication in lymphocytes. Here we show that…”
Get full text

Refining transcriptional programs in kidney development by integration of deep RNA-sequencing and array-based spatial profiling by Thiagarajan, Rathi D, Cloonan, Nicole, Gardiner, Brooke B, Mercer, Tim R, Kolle, Gabriel, Nourbakhsh, Ehsan, Wani, Shivangi, Tang, Dave, Krishnan, Keerthana, Georgas, Kylie M, Rumballe, Bree A, Chiu, Han S, Steen, Jason A, Mattick, John S, Little, Melissa H, Grimmond, Sean M

“…The developing mouse kidney is currently the best-characterized model of organogenesis at a transcriptional level. Detailed spatial maps have been generated…”
Get full text

Deep-transcriptome and ribonome sequencing redefines the molecular networks of pluripotency and the extracellular space in human embryonic stem cells by Kolle, Gabriel, Shepherd, Jill L, Gardiner, Brooke, Kassahn, Karin S, Cloonan, Nicole, Wood, David L A, Nourbakhsh, Ehsan, Taylor, Darrin F, Wani, Shivangi, Chy, Hun S, Zhou, Qi, McKernan, Kevin, Kuersten, Scott, Laslett, Andrew L, Grimmond, Sean M

“…Recent RNA-sequencing studies have shown remarkable complexity in the mammalian transcriptome. The ultimate impact of this complexity on the predicted…”
Get full text

A workflow to increase verification rate of chromosomal structural rearrangements using high-throughput next-generation sequencing by Quek, Kelly, Nones, Katia, Patch, Ann-Marie, Fink, J Lynn, Newell, Felicity, Cloonan, Nicole, Miller, David, Fadlullah, Muhammad Z H, Kassahn, Karin, Christ, Angelika N, Bruxner, Timothy J C, Manning, Suzanne, Harliwong, Ivon, Idrisoglu, Senel, Nourse, Craig, Nourbakhsh, Ehsan, Wani, Shivangi, Steptoe, Anita, Anderson, Matthew, Holmes, Oliver, Leonard, Conrad, Taylor, Darrin, Wood, Scott, Xu, Qinying, Wilson, Peter, Biankin, Andrew V, Pearson, John V, Waddell, Nic, Grimmond, Sean M

“…Somatic rearrangements, which are commonly found in human cancer genomes, contribute to the progression and maintenance of cancers. Conventionally, the…”
Get full text

Genomic analyses identify molecular subtypes of pancreatic cancer by Bailey, Peter, Chang, David K., Nones, Katia, Johns, Amber L., Patch, Ann-Marie, Gingras, Marie-Claude, Miller, David K., Christ, Angelika N., Bruxner, Tim J. C., Quinn, Michael C., Nourse, Craig, Murtaugh, L. Charles, Harliwong, Ivon, Idrisoglu, Senel, Manning, Suzanne, Nourbakhsh, Ehsan, Wani, Shivangi, Fink, Lynn, Holmes, Oliver, Chin, Venessa, Anderson, Matthew J., Kazakoff, Stephen, Leonard, Conrad, Newell, Felicity, Waddell, Nick, Wood, Scott, Xu, Qinying, Wilson, Peter J., Cloonan, Nicole, Kassahn, Karin S., Taylor, Darrin, Quek, Kelly, Robertson, Alan, Pantano, Lorena, Mincarelli, Laura, Sanchez, Luis N., Evers, Lisa, Wu, Jianmin, Pinese, Mark, Cowley, Mark J., Jones, Marc D., Colvin, Emily K., Nagrial, Adnan M., Humphrey, Emily S., Chantrill, Lorraine A., Mawson, Amanda, Humphris, Jeremy, Chou, Angela, Pajic, Marina, Scarlett, Christopher J., Pinho, Andreia V., Giry-Laterriere, Marc, Rooman, Ilse, Samra, Jaswinder S., Kench, James G., Lovell, Jessica A., Merrett, Neil D., Toon, Christopher W., Epari, Krishna, Nguyen, Nam Q., Barbour, Andrew, Zeps, Nikolajs, Moran-Jones, Kim, Jamieson, Nigel B., Graham, Janet S., Duthie, Fraser, Oien, Karin, Hair, Jane, Grützmann, Robert, Maitra, Anirban, Iacobuzio-Donahue, Christine A., Wolfgang, Christopher L., Morgan, Richard A., Lawlor, Rita T., Corbo, Vincenzo, Bassi, Claudio, Rusev, Borislav, Capelli, Paola, Salvia, Roberto, Tortora, Giampaolo, Mukhopadhyay, Debabrata, Petersen, Gloria M., Munzy, Donna M., Fisher, William E., Karim, Saadia A., Eshleman, James R., Hruban, Ralph H., Pilarsky, Christian, Sansom, Owen J., Scarpa, Aldo, Bailey, Ulla-Maja Hagbo, Hofmann, Oliver, Sutherland, Robert L., Wheeler, David A., Gill, Anthony J., Gibbs, Richard A., Pearson, John V., Waddell, Nicola, Biankin, Andrew V., Grimmond, Sean M.

“…Integrated genomic analysis of 456 pancreatic ductal adenocarcinomas identified 32 recurrently mutated genes that aggregate into 10 pathways: KRAS, TGF-β, WNT,…”
Get full text

Whole genomes redefine the mutational landscape of pancreatic cancer by Waddell, Nicola, Pajic, Marina, Patch, Ann-Marie, Chang, David K., Kassahn, Karin S., Bailey, Peter, Johns, Amber L., Miller, David, Nones, Katia, Quek, Kelly, Quinn, Michael C. J., Robertson, Alan J., Fadlullah, Muhammad Z. H., Bruxner, Tim J. C., Christ, Angelika N., Harliwong, Ivon, Idrisoglu, Senel, Manning, Suzanne, Nourse, Craig, Nourbakhsh, Ehsan, Wani, Shivangi, Wilson, Peter J., Markham, Emma, Cloonan, Nicole, Anderson, Matthew J., Fink, J. Lynn, Holmes, Oliver, Kazakoff, Stephen H., Leonard, Conrad, Newell, Felicity, Poudel, Barsha, Song, Sarah, Taylor, Darrin, Waddell, Nick, Wood, Scott, Xu, Qinying, Wu, Jianmin, Pinese, Mark, Cowley, Mark J., Lee, Hong C., Jones, Marc D., Nagrial, Adnan M., Humphris, Jeremy, Chantrill, Lorraine A., Chin, Venessa, Steinmann, Angela M., Mawson, Amanda, Humphrey, Emily S., Colvin, Emily K., Chou, Angela, Scarlett, Christopher J., Pinho, Andreia V., Giry-Laterriere, Marc, Rooman, Ilse, Samra, Jaswinder S., Kench, James G., Pettitt, Jessica A., Merrett, Neil D., Toon, Christopher, Epari, Krishna, Nguyen, Nam Q., Barbour, Andrew, Zeps, Nikolajs, Jamieson, Nigel B., Graham, Janet S., Niclou, Simone P., Bjerkvig, Rolf, Grützmann, Robert, Aust, Daniela, Hruban, Ralph H., Maitra, Anirban, Iacobuzio-Donahue, Christine A., Wolfgang, Christopher L., Morgan, Richard A., Lawlor, Rita T., Corbo, Vincenzo, Bassi, Claudio, Falconi, Massimo, Zamboni, Giuseppe, Tortora, Giampaolo, Tempero, Margaret A., Gill, Anthony J., Eshleman, James R., Pilarsky, Christian, Scarpa, Aldo, Musgrove, Elizabeth A., Pearson, John V., Biankin, Andrew V., Grimmond, Sean M.

“…Pancreatic cancer remains one of the most lethal of malignancies and a major health burden. We performed whole-genome sequencing and copy number variation…”
Get full text

Targeting DNA Damage Response and Replication Stress in Pancreatic Cancer by Dreyer, Stephan B., Upstill-Goddard, Rosie, Paulus-Hock, Viola, Paris, Clara, Dray, Eloise, Serrels, Bryan, Caligiuri, Giuseppina, Caligiuri, Giuseppina, Rebus, Selma, Plenker, Dennis, Brunton, Holly, Wright, Derek W., McKay, Colin J., Gulati, Aditi, Pettitt, Stephan, Bailey, Peter J., Chang, David K., Cooke, Susanna L., Dreyer, Stephan, Kelly, Shane, Marshall, John, McDade, Brian, Nourse, Craig, Paulus-Hock, Viola, Westwood, Paul, Biankin, Andrew V., Brancato, Mary-Anne L., Chin, Venessa T., Cowley, Mark J., Mead, R. Scott, Nagrial, Adnan M., Pettit, Jessica, Pinese, Mark, Rooman, Ilse, Tao, Jiang, DiPietro, Renee, Watson, Clare, Wong, Rachel, Giry-Laterriere, Marc, Grimmond, Sean M., Waddell, Nicola, Kassahn, Karin S., Patch, Ann-Marie, Idrisoglu, Senel, Nourbakhsh, Ehsan, Wani, Shivangi, Taylor, Darrin, Wood, Scott, Fink, J. Lynn, Bruxner, Tim, Cloonan, Nicole, Newell, Felicity, Pearson, John V., Bailey, Peter, Kazakoff, Stephen, Samra, Jaswinder S., Gill, Anthony J., Pavlakis, Nick, Asghari, Ray, Merrett, Neil D., Cosman, Peter H., Ismail, Kasim, McLeod, Duncan, James, Virginia, Kench, James G., Cooper, Caroline L., Sandroussi, Charbel, Gallagher, James, Texler, Michael, Forest, Cindy, Ballal, Mo, DeBoer, Bastiaan, Chai, Ming, Worthley, Chris, Tan, Chuan P., Martin, Patrick, Chiang, Amy, Yeung, Shinn, Hatzifotis, Michael, Christophi, Christopher, Biobank, Victorian Cancer, Hruban, Ralph H., Iacobuzio-Donahue, Christine A., Schulick, Richard D., Morgan, Richard A., Hodgin, Mary, Scarpa, Aldo, Lawlor, Rita T., Biankin, Andrew V., Grimmond, Sean M., Nourse, Craig, Johns, Amber, Pajic, Marina, Frame, Margaret C., Crawford, Howard C., Pilarsky, Christian, Morton, Jennifer P., Sansom, Owen J., Bailey, Peter J., Chang, David K.

“…Continuing recalcitrance to therapy cements pancreatic cancer (PC) as the most lethal malignancy, which is set to become the second leading cause of cancer…”
Get full text

The NK cell granule protein NKG7 regulates cytotoxic granule exocytosis and inflammation by Ng, Susanna S., De Labastida Rivera, Fabian, Yan, Juming, Corvino, Dillon, Das, Indrajit, Zhang, Ping, Kuns, Rachel, Chauhan, Shashi Bhushan, Hou, Jiajie, Li, Xian-Yang, Frame, Teija C. M., McEnroe, Benjamin A., Moore, Eilish, Na, Jinrui, Engel, Jessica A., Soon, Megan S. F., Singh, Bhawana, Kueh, Andrew J., Herold, Marco J., Montes de Oca, Marcela, Singh, Siddharth Sankar, Bunn, Patrick T., Aguilera, Amy Roman, Casey, Mika, Braun, Matthias, Ghazanfari, Nazanin, Wani, Shivangi, Wang, Yulin, Amante, Fiona H., Edwards, Chelsea L., Haque, Ashraful, Dougall, William C., Singh, Om Prakash, Baxter, Alan G., Teng, Michele W. L., Loukas, Alex, Daly, Norelle L., Cloonan, Nicole, Degli-Esposti, Mariapia A., Uzonna, Jude, Heath, William R., Bald, Tobias, Tey, Siok-Keen, Nakamura, Kyohei, Hill, Geoffrey R., Kumar, Rajiv, Sundar, Shyam, Smyth, Mark J., Engwerda, Christian R.

“…Immune-modulating therapies have revolutionized the treatment of chronic diseases, particularly cancer. However, their success is restricted and there is a…”
Get full text

MicroRNAs and their isomiRs function cooperatively to target common biological pathways by Cloonan, Nicole, Wani, Shivangi, Xu, Qinying, Gu, Jian, Lea, Kristi, Heater, Sheila, Barbacioru, Catalin, Steptoe, Anita L, Martin, Hilary C, Nourbakhsh, Ehsan, Krishnan, Keerthana, Gardiner, Brooke, Wang, Xiaohui, Nones, Katia, Steen, Jason A, Matigian, Nicholas A, Wood, David L, Kassahn, Karin S, Waddell, Nic, Shepherd, Jill, Lee, Clarence, Ichikawa, Jeff, McKernan, Kevin, Bramlett, Kelli, Kuersten, Scott, Grimmond, Sean M

“…Variants of microRNAs (miRNAs), called isomiRs, are commonly reported in deep-sequencing studies; however, the functional significance of these variants…”
Get full text

The regulated retrotransposon transcriptome of mammalian cells by Orlando, Valerio, Grimmond, Sean M, Carninci, Piero, Faulkner, Geoffrey J, Kimura, Yasumasa, Daub, Carsten O, Wani, Shivangi, Plessy, Charles, Irvine, Katharine M, Schroder, Kate, Cloonan, Nicole, Steptoe, Anita L, Lassmann, Timo, Waki, Kazunori, Hornig, Nadine, Arakawa, Takahiro, Takahashi, Hazuki, Kawai, Jun, Forrest, Alistair R R, Suzuki, Harukazu, Hayashizaki, Yoshihide, Hume, David A

“…Piero Carninci and colleagues report that 6–30% of cap-selected mouse and human RNA transcripts initiate within repetitive elements. They conclude that…”
Get full text

HNF4A and GATA6 Loss Reveals Therapeutically Actionable Subtypes in Pancreatic Cancer by Brunton, Holly, Caligiuri, Giuseppina, Cunningham, Richard, Upstill-Goddard, Rosie, Garner, Ian M., Nourse, Craig, Wright, Derek W., Nixon, Colin, Jamieson, Nigel B., McGregor, Grant A., Evers, Lisa, McKay, Colin J., Gulati, Aditi, Brough, Rachel, Pettitt, Stephen J., Dziubinski, Michele L., Grützmann, Robert, Curry, Edward, Allison, Sarah, Biankin, Andrew V., Dreyer, Stephan, McDade, Brian, McElroy, Daniel, Ramsay, Donna, Upstill-Goddard, Rosie, Jamieson, Nigel B., Westwood, Paul, Mawson, Amanda, Scarlett, Christopher J., Brancato, Mary-Anne L., Simpson, Skye H., Thomas, Michelle T., Chin, Venessa T., Humphris, Jeremy L., Mead, R. Scott, Nagrial, Adnan M., Pettit, Jessica, Wu, Jianmin, DiPietro, Renee, Steinmann, Angela, Pinho, Andreia V., Giry-Laterriere, Marc, Musgrove, Elizabeth A., Miller, David K., Song, Sarah, Nourbakhsh, Ehsan, Wani, Shivangi, Gongora, Milena, Anderson, Matthew, Holmes, Oliver, Leonard, Conrad, Wood, Scott, Bruxner, Tim, Pearson, John V., Nagaraj, Shivashankar, Kazakoff, Stephen, Waddell, Nick, Quek, Kelly, Pavlakis, Nick, Asghari, Ray, Pavey, Darren, Das, Amitabha, Ismail, Kasim, Lam, Vincent W., Richardson, Arthur, James, Virginia, Kench, James G., Joseph, David, Laycock, Andrew, Epari, Krishna P., Fletcher, David R., Zeps, Nikolajs, Beilin, Maria, Feeney, Kynan, Worthley, Chris, Tan, Chuan P., Debrencini, Tamara, Chen, John, Brooke-Smith, Mark E., Tang, Henry, Clouston, Andrew D., Fawcett, Jonathan W., Slater, Kellee, Hatzifotis, Michael, Nikfarjam, Mehrdad, Eshleman, James R., Hruban, Ralph H., Schulick, Richard D., Scarpa, Aldo, Scardoni, Maria, Tempero, Margaret A., Pajic, Marina, Petersen, Gloria M., Shanks, Emma, Pilarsky, Christian, Grimmond, Sean E., Morton, Jennifer P., Chang, David K., Bailey, Peter J., Biankin, Andrew V.

“…Pancreatic ductal adenocarcinoma (PDAC) can be divided into transcriptomic subtypes with two broad lineages referred to as classical (pancreatic) and squamous…”
Get full text

Stem cell transcriptome profiling via massive-scale mRNA sequencing by Perkins, Andrew C, Taylor, Darrin F, Manning, Jonathan M, Lee, Clarence C, Wani, Shivangi, McKernan, Kevin J, Bethel, Graeme, Gardiner, Brooke B A, Peckham, Heather E, Robertson, Alan J, Bruce, Stephen J, Ranade, Swati S, Faulkner, Geoffrey J, Brown, Mellissa K, Forrest, Alistair R R, Grimmond, Sean M, Cloonan, Nicole, Steptoe, Anita L, Kolle, Gabriel

“…Application of next-generation sequencing using the ABI SOLiD technology to mammalian transcriptome analysis enabled a survey of the content, the complexity…”
Get full text

The deubiquitinase USP9X suppresses pancreatic ductal adenocarcinoma by Pérez-Mancera, Pedro A., Rust, Alistair G., van der Weyden, Louise, Kristiansen, Glen, Li, Allen, Sarver, Aaron L., Silverstein, Kevin A. T., Grützmann, Robert, Aust, Daniela, Rümmele, Petra, Knösel, Thomas, Herd, Colin, Stemple, Derek L., Kettleborough, Ross, Brosnan, Jacqueline A., Li, Ang, Morgan, Richard, Knight, Spencer, Yu, Jun, Stegeman, Shane, Collier, Lara S., ten Hoeve, Jelle J., de Ridder, Jeroen, Klein, Alison P., Goggins, Michael, Hruban, Ralph H., Chang, David K., Biankin, Andrew V., Grimmond, Sean M., Wessels, Lodewyk F. A., Wood, Stephen A., Iacobuzio-Donahue, Christine A., Pilarsky, Christian, Largaespada, David A., Adams, David J., Tuveson, David A.

“…An in vivo transposon screen in a pancreatic cancer model identifies frequent inactivation of Usp9x ; deletion of Usp9x cooperates with Kras G12D to accelerate…”
Get full text