Popular Computational Methods to Assess Multiprotein Complexes Derived From Label-Free Affinity Purification and Mass Spectrometry (AP-MS) Experiments

Por Armean, Irina M., Lilley, Kathryn S., Trotter, Matthew W. B.
Publicado em 2013

Co-complex protein membership evaluation using Maximum Entropy on GO ontology and InterPro annotation

Por Armean, Irina M, Lilley, Kathryn S, Trotter, Matthew W B, Pilkington, Nicholas C V, Holden, Sean B
Publicado no Bioinformatics (2018)

In Vivo Analysis of Proteomes and Interactomes Using Parallel Affinity Capture (iPAC) Coupled to Mass Spectrometry

Por Rees, Johanna S., Lowe, Nick, Armean, Irina M., Roote, John, Johnson, Glynnis, Drummond, Emma, Spriggs, Helen, Ryder, Edward, Russell, Steven, Johnston, Daniel St, Lilley, Kathryn S.
Publicado em 2011

Ensembl variation resources

Por Hunt, Sarah E, McLaren, William, Gil, Laurent, Thormann, Anja, Schuilenburg, Helen, Sheppard, Dan, Parton, Andrew, Armean, Irina M, Trevanion, Stephen J, Flicek, Paul, Cunningham, Fiona
Publicado no Database (Oxford) (2018)

A plugin for the Ensembl Variant Effect Predictor that uses MaxEntScan to predict variant spliceogenicity

Por Shamsani, Jannah, Kazakoff, Stephen H, Armean, Irina M, McLaren, Will, Parsons, Michael T, Thompson, Bryony A, O’Mara, Tracy A, Hunt, Sarah E, Waddell, Nicola, Spurdle, Amanda B
Publicado no Bioinformatics (2019)

The genome of the biting midge Culicoides sonorensis and gene expression analyses of vector competence for bluetongue virus

Por Morales-Hojas, Ramiro, Hinsley, Malcolm, Armean, Irina M., Silk, Rhiannon, Harrup, Lara E., Gonzalez-Uriarte, Asier, Veronesi, Eva, Campbell, Lahcen, Nayduch, Dana, Saski, Christopher, Tabachnick, Walter J., Kersey, Paul, Carpenter, Simon, Fife, Mark
Publicado no BMC Genomics (2018)

Annotating and prioritizing genomic variants using the Ensembl Variant Effect Predictor—A tutorial

Por Hunt, Sarah E., Moore, Benjamin, Amode, Ridwan M., Armean, Irina M., Lemos, Diana, Mushtaq, Aleena, Parton, Andrew, Schuilenburg, Helen, Szpak, Michał, Thormann, Anja, Perry, Emily, Trevanion, Stephen J., Flicek, Paul, Yates, Andrew D., Cunningham, Fiona
Publicado no Hum Mutat (2022)

Analysis of the expression patterns, subcellular localisations and interaction partners of Drosophila proteins using a pigP protein trap library

Por Lowe, Nick, Rees, Johanna S., Roote, John, Ryder, Ed, Armean, Irina M., Johnson, Glynnis, Drummond, Emma, Spriggs, Helen, Drummond, Jenny, Magbanua, Jose P., Naylor, Huw, Sanson, Bénédicte, Bastock, Rebecca, Huelsmann, Sven, Trovisco, Vitor, Landgraf, Matthias, Knowles-Barley, Seymour, Armstrong, J. Douglas, White-Cooper, Helen, Hansen, Celia, Phillips, Roger G., Lilley, Kathryn S., Russell, Steven, St Johnston, Daniel
Publicado em 2014

The effect of LRRK2 loss-of-function variants in humans

Por Whiffin, Nicola, Armean, Irina M., Kleinman, Aaron, Marshall, Jamie L., Minikel, Eric V., Goodrich, Julia K., Quaife, Nicholas M., Cole, Joanne B., Wang, Qingbo, Karczewski, Konrad J., Cummings, Beryl B., Francioli, Laurent, Laricchia, Kristen, Guan, Anna, Alipanahi, Babak, Morrison, Peter, Baptista, Marco A. S., Merchant, Kalpana M., Ware, James S., Havulinna, Aki S., Iliadou, Bozenna, Lee, Jung-Jin, Nadkarni, Girish N., Whiteman, Cole, Daly, Mark, Esko, Tõnu, Hultman, Christina, Loos, Ruth J. F., Milani, Lili, Palotie, Aarno, Pato, Carlos, Pato, Michele, Saleheen, Danish, Sullivan, Patrick F., Alföldi, Jessica, Cannon, Paul, MacArthur, Daniel G.
Publicado no Nat Med (2020)

Human knockouts and phenotypic analysis in a cohort with a high rate of consanguinity

Por Saleheen, Danish, Natarajan, Pradeep, Armean, Irina M., Zhao, Wei, Rasheed, Asif, Khetarpal, Sumeet, Won, Hong-Hee, Karczewski, Konrad J., O’Donnell-Luria, Anne H., Samocha, Kaitlin E., Weisburd, Benjamin, Gupta, Namrata, Zaidi, Mozzam, Samuel, Maria, Imran, Atif, Abbas, Shahid, Majeed, Faisal, Ishaq, Madiha, Akhtar, Saba, Trindade, Kevin, Mucksavage, Megan, Qamar, Nadeem, Zaman, Khan Shah, Yaqoob, Zia, Saghir, Tahir, Rizvi, Syed Nadeem Hasan, Memon, Anis, Mallick, Nadeem Hayyat, Ishaq, Mohammad, Rasheed, Syed Zahed, Memon, Fazal-ur-Rehman, Mahmood, Khalid, Ahmed, Naveeduddin, Do, Ron, Krauss, Ronald M., MacArthur, Daniel G., Gabriel, Stacey, Lander, Eric S., Daly, Mark J., Frossard, Philippe, Danesh, John, Rader, Daniel J., Kathiresan, Sekar
Publicado no Nature (2017)

Ensembl 2019

Por Cunningham, Fiona, Achuthan, Premanand, Akanni, Wasiu, Allen, James, Amode, M Ridwan, Armean, Irina M, Bennett, Ruth, Bhai, Jyothish, Billis, Konstantinos, Boddu, Sanjay, Cummins, Carla, Davidson, Claire, Dodiya, Kamalkumar Jayantilal, Gall, Astrid, Girón, Carlos García, Gil, Laurent, Grego, Tiago, Haggerty, Leanne, Haskell, Erin, Hourlier, Thibaut, Izuogu, Osagie G, Janacek, Sophie H, Juettemann, Thomas, Kay, Mike, Laird, Matthew R, Lavidas, Ilias, Liu, Zhicheng, Loveland, Jane E, Marugán, José C, Maurel, Thomas, McMahon, Aoife C, Moore, Benjamin, Morales, Joannella, Mudge, Jonathan M, Nuhn, Michael, Ogeh, Denye, Parker, Anne, Parton, Andrew, Patricio, Mateus, Abdul Salam, Ahamed Imran, Schmitt, Bianca M, Schuilenburg, Helen, Sheppard, Dan, Sparrow, Helen, Stapleton, Eloise, Szuba, Marek, Taylor, Kieron, Threadgold, Glen, Thormann, Anja, Vullo, Alessandro, Walts, Brandon, Winterbottom, Andrea, Zadissa, Amonida, Chakiachvili, Marc, Frankish, Adam, Hunt, Sarah E, Kostadima, Myrto, Langridge, Nick, Martin, Fergal J, Muffato, Matthieu, Perry, Emily, Ruffier, Magali, Staines, Daniel M, Trevanion, Stephen J, Aken, Bronwen L, Yates, Andrew D, Zerbino, Daniel R, Flicek, Paul
Publicado no Nucleic Acids Res (2019)

The mutational constraint spectrum quantified from variation in 141,456 humans

Por Karczewski, Konrad J., Francioli, Laurent C., Tiao, Grace, Cummings, Beryl B., Alföldi, Jessica, Wang, Qingbo, Collins, Ryan L., Laricchia, Kristen M., Ganna, Andrea, Birnbaum, Daniel P., Gauthier, Laura D., Brand, Harrison, Solomonson, Matthew, Watts, Nicholas A., Rhodes, Daniel, Singer-Berk, Moriel, England, Eleina M., Seaby, Eleanor G., Kosmicki, Jack A., Walters, Raymond K., Tashman, Katherine, Farjoun, Yossi, Banks, Eric, Poterba, Timothy, Wang, Arcturus, Seed, Cotton, Whiffin, Nicola, Chong, Jessica X., Samocha, Kaitlin E., Pierce-Hoffman, Emma, Zappala, Zachary, O’Donnell-Luria, Anne H., Minikel, Eric Vallabh, Weisburd, Ben, Lek, Monkol, Ware, James S., Vittal, Christopher, Armean, Irina M., Bergelson, Louis, Cibulskis, Kristian, Connolly, Kristen M., Covarrubias, Miguel, Donnelly, Stacey, Ferriera, Steven, Gabriel, Stacey, Gentry, Jeff, Gupta, Namrata, Jeandet, Thibault, Kaplan, Diane, Llanwarne, Christopher, Munshi, Ruchi, Novod, Sam, Petrillo, Nikelle, Roazen, David, Ruano-Rubio, Valentin, Saltzman, Andrea, Schleicher, Molly, Soto, Jose, Tibbetts, Kathleen, Tolonen, Charlotte, Wade, Gordon, Talkowski, Michael E., Neale, Benjamin M., Daly, Mark J., MacArthur, Daniel G.
Publicado no Nature (2020)

Ensembl 2020

Por Yates, Andrew D, Achuthan, Premanand, Akanni, Wasiu, Allen, James, Allen, Jamie, Alvarez-Jarreta, Jorge, Amode, M Ridwan, Armean, Irina M, Azov, Andrey G, Bennett, Ruth, Bhai, Jyothish, Billis, Konstantinos, Boddu, Sanjay, Marugán, José Carlos, Cummins, Carla, Davidson, Claire, Dodiya, Kamalkumar, Fatima, Reham, Gall, Astrid, Giron, Carlos Garcia, Gil, Laurent, Grego, Tiago, Haggerty, Leanne, Haskell, Erin, Hourlier, Thibaut, Izuogu, Osagie G, Janacek, Sophie H, Juettemann, Thomas, Kay, Mike, Lavidas, Ilias, Le, Tuan, Lemos, Diana, Martinez, Jose Gonzalez, Maurel, Thomas, McDowall, Mark, McMahon, Aoife, Mohanan, Shamika, Moore, Benjamin, Nuhn, Michael, Oheh, Denye N, Parker, Anne, Parton, Andrew, Patricio, Mateus, Sakthivel, Manoj Pandian, Abdul Salam, Ahamed Imran, Schmitt, Bianca M, Schuilenburg, Helen, Sheppard, Dan, Sycheva, Mira, Szuba, Marek, Taylor, Kieron, Thormann, Anja, Threadgold, Glen, Vullo, Alessandro, Walts, Brandon, Winterbottom, Andrea, Zadissa, Amonida, Chakiachvili, Marc, Flint, Bethany, Frankish, Adam, Hunt, Sarah E, IIsley, Garth, Kostadima, Myrto, Langridge, Nick, Loveland, Jane E, Martin, Fergal J, Morales, Joannella, Mudge, Jonathan M, Muffato, Matthieu, Perry, Emily, Ruffier, Magali, Trevanion, Stephen J, Cunningham, Fiona, Howe, Kevin L, Zerbino, Daniel R, Flicek, Paul
Publicado no Nucleic Acids Res (2020)

Ensembl 2021

Por Howe, Kevin L, Achuthan, Premanand, Allen, James, Allen, Jamie, Alvarez-Jarreta, Jorge, Amode, M Ridwan, Armean, Irina M, Azov, Andrey G, Bennett, Ruth, Bhai, Jyothish, Billis, Konstantinos, Boddu, Sanjay, Charkhchi, Mehrnaz, Cummins, Carla, Da Rin Fioretto, Luca, Davidson, Claire, Dodiya, Kamalkumar, El Houdaigui, Bilal, Fatima, Reham, Gall, Astrid, Garcia Giron, Carlos, Grego, Tiago, Guijarro-Clarke, Cristina, Haggerty, Leanne, Hemrom, Anmol, Hourlier, Thibaut, Izuogu, Osagie G, Juettemann, Thomas, Kaikala, Vinay, Kay, Mike, Lavidas, Ilias, Le, Tuan, Lemos, Diana, Gonzalez Martinez, Jose, Marugán, José Carlos, Maurel, Thomas, McMahon, Aoife C, Mohanan, Shamika, Moore, Benjamin, Muffato, Matthieu, Oheh, Denye N, Paraschas, Dimitrios, Parker, Anne, Parton, Andrew, Prosovetskaia, Irina, Sakthivel, Manoj P, Salam, Ahamed I Abdul, Schmitt, Bianca M, Schuilenburg, Helen, Sheppard, Dan, Steed, Emily, Szpak, Michal, Szuba, Marek, Taylor, Kieron, Thormann, Anja, Threadgold, Glen, Walts, Brandon, Winterbottom, Andrea, Chakiachvili, Marc, Chaubal, Ameya, De Silva, Nishadi, Flint, Bethany, Frankish, Adam, Hunt, Sarah E, IIsley, Garth R, Langridge, Nick, Loveland, Jane E, Martin, Fergal J, Mudge, Jonathan M, Morales, Joanella, Perry, Emily, Ruffier, Magali, Tate, John, Thybert, David, Trevanion, Stephen J, Cunningham, Fiona, Yates, Andrew D, Zerbino, Daniel R, Flicek, Paul
Publicado no Nucleic Acids Res (2020)