Learning-based inference of longitudinal image changes: Applications in embryo development, wound healing, and aging brain

作者：Heejong Kim, Batuhan K. Karaman, Qingyu Zhao, Alan Q. Wang, Mert R. Sabuncu, for the Alzheimer’s Disease Neuroimaging Initiative, Michael D. Weiner, Paul Aisen, Ronald Petersen, Clifford R. Jack, William Jagust, Susan Landau, Monica Rivera-Mindt, Ozioma C. Okonkwo, Leslie M. Shaw, Edward B. Lee, Arthur W. Toga, Laurel Beckett, Danielle Harvey, Robert C. Green, Andrew J. Saykin, Kwangsik Nho, Richard J. Perrin, Duygu Tosun, Pallavi Sachdev, Robert C. Green, Erin Drake, Tom Montine, Cat Conti, Michael D. Weiner, Rachel L. Nosheny, Diana Truran Sacrey, Juliet Fockler, Melanie J. Miller, Winnie Kwang, Chengshi Jin, Adam Diaz, Miriam T. Ashford, Derek Flenniken, Adrienne Kormos, Ronald Petersen, Paul Aisen, Michael S. Rafii, Rema Raman, Gustavo Jimenez‐Maggiora, Michael Donohue, Jennifer Salazar, Andrea Fidell, Virginia Boatwright, Justin Robison, Caileigh Zimmerman, Yuliana Cabrera, Sarah Walter, Taylor Clanton, Elizabeth Shaffer, Caitlin Webb, Lindsey Hergesheimer, Stephanie Smith, Sheila Ogwang, Olusegun Adegoke, Payam Mahboubi, Jeremy Pizzola, Cecily Jenkins, Laurel Beckett, Danielle Harvey, Michael Donohue, Naomi Saito, Adam Diaz, Kedir Adem Hussen, Ozioma C. Okonkwo, Monica Rivera-Mindt, Hannatu Amaza, Mai Seng Thao, Shaniya Parkins, Omobolanle Ayo, Matt Glittenberg, Isabella Hoang, Kaori Kubo Germano, Joe Strong, Trinity Weisensel, Fabiola Magana, Lisa Thomas, Vanessa Guzmán, Adeyinka Ajayi, Joseph Di Benedetto, Sandra Talavera, Clifford R. Jack, Joel P. Felmlee, Nick C. Fox, Paul Thompson, Charles DeCarli, Arvin Forghanian-Arani, Bret Borowski, Calvin Reyes, Caitie Hedberg, Chad Ward, Christopher G. Schwarz, Denise Reyes, Jeff Gunter, John Moore-Weiss, Kejal Kantarci, Leonard Matoush, Matthew L. Senjem, Prashanthi Vemuri, Robert W. Reid, Ian G. Malone, Sophia I. Thomopoulos, Talia M. Nir, Neda Jahanshad, Alexander Knaack, Evan Fletcher, Danielle Harvey, Duygu Tosun, Stephanie Rossi Chen, Mark Choe, Karen Crawford, Paul A. Yushkevich, Sandhitsu R. Das, William Jagust, Susan Landau, Robert A. Koeppe, Gil D. Rabinovici, Victor L. Villemagne, Brian J. Lopresti, Richard J. Perrin, John R. Morris, Erin Franklin, Haley Bernhardt, N. J. Cairns, Lisa Taylor‐Reinwald, Leslie Shaw, Edward B. Lee, Virginia M.‐Y. Lee, Magdalena Korecka, Magdalena Brylska, Y. Wan, John Q. Trojanowki, Arthur W. Toga, Karen Crawford, Scott Neu, Andrew J. Saykin, Kwangsik Nho, Tatiana Foroud, Taeho Jo, Shannon L. Risacher, Hannah Craft, Liana G. Apostolova, Kelly Nudelman, Kelley Faber, Zoë Potter, Kaci Lacy, Rima Kaddurah-Daouk, Li Shen, Jason Karlawish, Claire M. Erickson, Joshua D. Grill, Emily A. Largent, Kristin Harkins, Michael W. Weiner, Leon J. Thal, Zaven Kachaturian, Richard Frank, Peter J. Snyder, Neil Buckholtz, John K. Hsiao, Laurie Ryan, Susan Molchan, Zaven S. Khachaturian, Marı́a C. Carrillo, William Z. Potter, Lisa L. Barnes, Marie Bernard, Héctor Alfredo Baptista González, Carole Ho, John K. Hsiao, Jonathan Jackson, Eliezer Masliah, Donna Masterman, Ozioma C. Okonkwo, Richard J. Perrin, Laurie Ryan, Nina Silverberg, Lisa C. Silbert, Jeffrey Kaye, Sylvia S. White, Aimee Pierce, Amy Thomas, Tera Clay, Daniel L. Schwartz, G. Devereux, Janet Taylor, Jennifer Ryan, Mike Nguyen, Madison DeCapo, Yanan Shang, Lon S. Schneider, Cynthia Muñoz, Diana Ferman, Carlota Conant, Katherin Martin, Kristin Oleary, Sonia Pawluczyk, Elizabeth Trejo, Karen Dagerman, Liberty Teodoro, Mauricio Becerra, Madiha Fairooz, Sonia Garrison, Julia Boudreau, Yair Avila, James B. Brewer, Aaron Jacobson, Antonio Gama, Chi Kim, Emily Little, Jennifer C. Frascino, Nichol Ferng, Socorro Trujillo, Judith L. Heidebrink, Robert Koeppe, Steven MacDonald, Dariya Malyarenko, Jaimie Ziolkowski, James O’Connor, Nicole Robert, Suzan Lowe, Virginia Rogers, Ronald Petersen, Barbara Hackenmiller, Bradley F. Boeve, Colleen S. Albers, Connie Kreuger, David Jones, David S. Knopman, Hugo Botha, Jessica Magnuson, Jonathan Graff-Radford, Kerry Crawley, Michaël Schumacher, Sanna McKinzie, Steven M. Smith, Tascha Helland, Val J. Lowe, Vijay K. Ramanan, Valory Pavlik, Jacob Faircloth, Jeffrey Bishop, Jessica Nath, Maria Chaudhary, Maria Kataki, Mang Yu, Nathiel Pacini, Randall Barker, Regan Brooks, Ruchi Aggarwal, Lawrence S. Honig, Yaakov Stern, Akiva Mintz, Jonathan Cordona, Michelle L. Hernandez, Justin M. Long, Abbey Arnold, Alex Groves, Anna Middleton, Blake Vogler, Cierra McCurry, Connie Mayo, Cyrus A. Raji, Fatima Amtashar, Heather Klemp, James Ruszkiewicz, Jasmina Kusuran, Jasmine Stewart, Jennifer Horenkamp, Julia Greeson, Kara Wever, Katie D. Vo, Kelly Larkin, Lesley Rao, Lisa Schoolcraft, Lora Gallagher, Madeline Paczynski, M. G. McMillan, Michael Holt, Nicole Gagliano, Rachel L. Henson, Renee LaBarge, Robert A. Swarm, Sarah Munie, Serena Cepeda, Stacey Winterton, Stephen Hegedus, TaNisha Wilson, Tanya Harte, Zach Bonacorsi, David Geldmacher, Amber Watkins, Brandi Barger, Bryan Smelser, Charna Bates, Cynthia Stover, Emily McKinley, Gregory Ikner, Haley Hendrix, Harold Matthew Cooper, J. A. Mahaffey, Lindsey Booth Robbins, Loren Brown Ashley, Marissa Natelson-Love, Princess Carter, Veronika Solomon, Hillel Grossman, Alexandra Groome, Allison Ardolino, Anthony Kaplan, Faye Sheppard, Genesis Burgos-Rivera, Gina Garcia-Camilo, Joanne Lim, Judith Neugroschl, Kimberly Jackson, Kirsten Evans, Laili Soleimani, Mary Sano, Nasrin Ghesani, Sarah Binder, Xiomara Mendoza Apuango, A. K. Sood, Amelia Troutman, Kimberly S. Blanchard, Arlene Richards, Grace Nelson, Kirsten Hendrickson, Erin Yurko, J. Plenge, Victoria Rufo, Raj C. Shah, Ranjan Duara, Brendan Lynch, Cesar Chirinos, Christine Dittrich, Debbie Campbell, Diego Mejia, Gilberto Perez, Helena Colvee, Joanna Gonzalez, Josalen Gondrez, J Knaack, Mara Acevedo, Maria Cereijo, Maria T. Greig‐Custo, Michelle Villar, Morris Wishnia, Sheryl Detling, Warren Barker, Marilyn Albert, Abhay Moghekar, Barbara Rodzon, Corey Demsky, Gregory M. Pontone, Jim Pekar, Leonie Farrington, Martin G. Pomper, Nicole L. Johnson, Tolulope Alo, Martin Sadowski, Anaztasia Ulysse, Arjun V. Masurkar, B Marti, David Mossa, Emilie Geesey, Emily Petrocca, Evan T. Schulze, Jennifer Wong, Joseph Boonsiri, Sunnie Kenowsky, Tatianne Martinez, Veronica Briglall, P. Murali Doraiswamy, Adaora Nwosu, Alisa Adhikari, Cammie Hellegers, Jeffrey R. Petrella, Olga James, Terence Z. Wong, Thomas C. Hawk, Sanjeev Vaishnavi, Hannah McCoubrey, Ilya M. Nasrallah, Rachel Rovere, Jeffrey Maneval, Elizabeth J. Robinson, Francisco Rivera, Jade Uffelman, Martha A. Combs, Patricia O’Donnell, Sara L. Manning, Richard King, Alayne Nieto, Amanda C. Glueck, Anjana Mandal, Audrie Swain, Bethanie Gamble, Beverly Meacham, Denece Forenback, Dorothy Ross, Elizabeth Cheatham, Ellen Hartman, Gary Cornell, Jordan P. Harp, Laura Ashe, Laura Goins, Linda Watts, Morgan Yazell, Prabin Mandal, Regan Buckler, S.R. Vincent, Triana Rudd, Óscar López, Ann Arlene Malia, Caitlin Chiado, Cary Zik, James Ruszkiewicz, K. E. Savage, Linda Fenice, MaryAnn Oakley, Paige C Tacey, Sarah Berman, Sarah Bowser, Stephen Hegedus, Xanthia Saganis, Anton P. Porsteinsson, Abigail Mathewson, Asa Widman, Bridget Holvey, Emily Clark, Esmeralda Morales, I.D. Young, James Ruszkiewicz, Kevin Hopkins, Kimberly Martin, Nancy Kowalski, Rebecca Hunt, Roberta Calzavara, Russell Kurvach, Stephen D’Ambrosio, Gaby Thai, Beatriz Vides, Brigit Lieb, Catherine Mc-Adams-Ortiz, Cyndy Toso, Ivan Mares, Kathryn Moorlach, Luter Liu, Maria Corona, Mary Nguyen, Melanie Tallakson, Michelle N. McDonnell, Milagros Rangel, Neetha Basheer, Patricia Place, Romina A. Romero, Steven Tam, Trung Dung Nguyen, Abey Thomas, Alexander O. Frolov, Alka Khera, Amy Browning, Brendan Kelley, Courtney Dawson, Dana Mathews, Elaine Most, Elizeva Phillips, Lynn Nguyen, Maribel Nunez, Matalin Miller, Matthew R. Jones, Natalie Martinez, Rebecca Logan, Roderick McColl, Sari Pham, Tiffani Fox, Tracey Moore, Allan I. Levey, Abby Brown, Andrea Kippels, Ashton Ellison, Casie Lyons, Chadwick M. Hales, Cindy Parry, Courtney Williams, Elizabeth McCorkle, Guy H. Harris, Heather Rose, Inara Jooma, Jahmila Al-Amin, James J. Lah, James Webster, Jessica Swiniarski, Latasha Chapman, Laura Donnelly, Lauren Mariotti, Mary Locke, Phyllis Vaughn, Rachael Penn, Sallie Carpentier, Samira Yeboah, Sarah Basadre, Sarah Malakauskas, Stefka Lyron, Tara Villinger, Terra Burney, Jeffrey P. 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Nolan, Kirsten Glennon, Mariana Palou, Michael Erkkinen, Nicole DaSilva, Pamela Friedman, Regina M. Silver, Ricardo Salazar, Roxxanne Polleys, Scott McGinnis, Seth A. Gale, Tia Hall, Tuan Luu, Steven Chao, Emmeline Lin, Jaila Coleman, Kevin Epperson, Minal Vasanawala, Alireza Atri, Amy Rangel, Brittani Evans, Candy Monarrez, Carol Cline, Carolyn Liebsack, Daniel Bandy, Danielle Goldfarb, Debbie Intorcia, Jennifer Olgin, Kelly Clark, Kelsey King, Kylee York, Marina Reade, Michael Callan, Michael Glass, Michaela Johnson, Michele Gutierrez, Molly Goddard, Nadira Trncic, Parichita Choudhury, P. V. Reyes, Serena Lowery, Shaundra Hall, Sonia Olgin, Stephanie Santiago, Michael L. Alosco, Alyssa Ton, Amanda Jiménez, Andrew Ellison, Anh Tran, Brandon Anderson, Della Carter, Donna Veronelli, Steven Lenio, Eric Steinberg, Jesse Mez, Jason Weller, Jennifer Johns, Jesse Mez, Jessica Harkins, Alexa Puleio, Ina Hoti, Jane Mwicigi, Alexa Puleio, Michael L. Alosco, Olivia Schultz, Mona Lauture, Eric Steinberg, Ridiane Denis, Ronald Killiany, Sarab Singh, Steven Lenio, Wendy Qiu, Ycar Devis, Thomas O. Obisesan, Andrew Stone, Debra Ordor, Ifreke Udodong, Immaculata Okonkwo, Javed Ali Khan, Jillian Turner, Kyliah Hughes, Oshoze Kadiri, Charles J. Duffy, Ariana Moss, Katherine Stapleton, Mária Tóth, Marianne Sanders, Martin Ayres, Melissa Hamski, Parianne Fatica, Paula Ogrocki, Sarah Ash, Stacy Pot, Doris Chen, Andrés Soto, Costin Tanase, David Bissig, Hafsanoor Vanya, Heather Russell, Hitesh Patel, Hongzheng Zhang, Kelly Wallace, Kristi Ayers, Maria Gallegos, Martha R. Forloines, M. Sinn, Queennie Majorie S Kahulugan, Richard Isip, Sandra Calderon, Talia Hamm, Michael Borrie, T-Y Lee, Robert Bartha, Sterling C. Johnson, Sanjay Asthana, Cynthia M. Carlsson, Allison Perrin, Pierre N. Tariot, Adam J. Fleisher, Stephanie Reeder, Horacio Capote, Allison Emborsky, Anna G. Mattle, Bela Ajtai, Ben Wagner, Bennett Myers, Daryn Slazyk, Delaney Fragale, Erin Fransen, Heather Macnamara, J M Falletta, Joseph Hirtreiter, Laszlo Mechtler, Megan C. King, Michael Asbach, Michelle Rainka, R Zawislak, Scott Wisniewski, Stephanie S. O’Malley, Tatiana Jimenez-Knight, Todd Peehler, Traci Aladeen, Vernice Bates, Violet Wenner, Wisam Elmalik, Douglas W. Scharre, Arun Ramamurthy, Soumya Bouchachi, Maria Kataki, Rawan Tarawneh, Brendan Kelley, Dzintra Celmins, Alicia Leader, Chris Figueroa, Heather Bauerle, Katlynn Patterson, Michael Reposa, Steven Presto, Tuba Ahmed, Wendy A. Stewart, Hartford Hosp, Godfrey D. Pearlson, Karen Blank, Karen Anderson, Robert B. Santulli, Eben S. Schwartz, Jeff D. Williamson, Alicia Jessup, A. Williams, Crystal Duncan, Abigail O’Connell, Karen Gagnon, Ezequiel Zamora, James Bateman, Freda Crawford, Deb Thompson, E. R. C. Walker, Jennifer Rowell, Mikell White, Phillip Hunter Ledford, Sarah Bohlman, Susan Henkle, Joseph Bottoms, Lena Moretz, Bevan Hoover, Michael Shannon, Samantha Rogers, Wendy Baker, William Harrison, Chuang-Kuo Wu, Alexis DeMarco, Ava Stipanovich, Daniel Arcuri, Jan Clark, Jennifer Davis, Kerstin Doyon, Marie Amoyaw, Mauro Veras Acosta, Ronald Bailey, S. Warren, Terry Fogerty, Victoria Sanborn, Meghan Riddle, Stephen Salloway, Paul Malloy, Stephen Correia, Charles Windon, Morgan Blackburn, Howard J. Rosen, Bruce L. Miller, Amanda Smith, Ijeoma Mba, Jenny Echevarria, Juris Janavs, Emily Roglaski, Meagan Yong, Rebecca Devine, Hamid Okhravi, Edgardo Rivera, Teresa Kalowsky, Caroline Smith, Christina Rosario, Joseph C. Masdeu, Richard H. Le, Maushami Gurung, Marwan N. Sabbagh, Angelica Garcia, Micah Ellis Slaughter, Nadeen Elayan, Skieff Acothley, Nunzio Pomara, Raymundo Hernando, Vita Pomara, Chelsea Reichert, Olga Brawman‐Mintzer, Allison Acree, Arthur Williams, Campbell Long, Rebecca Long, Paul Newhouse, Sydni Jenee Hill, Amy Boegel, Sudha Seshadri, Amy R. Saklad, Floyd Jones, William T. Hu, Victor Sotelo, Yaneicy Gonazalez Rojas, Jacobo Mintzer, Crystal Flynn Longmire, Kenneth Spicer · 发表于：Proceedings of the National Academy of Sciences · 年份：2025 · DOI：10.1073/pnas.2411492122 · 被引用次数：6 · 研究领域：Machine Learning in Healthcare、Single-cell and spatial transcriptomics、AI in cancer detection

Longitudinal imaging data are routinely acquired for health studies and patient monitoring. A central goal in longitudinal studies is tracking relevant change over time. Traditional methods remove nuisance variation with custom pipelines to focus on significant changes. In this work, we present a machine learning–based method that automatically ignores irrelevant changes and extracts the time-varying signal of interest. Our method, called Learning-based Inference of Longitudinal imAge Changes (LILAC), performs a pairwise comparison of longitudinal images in order to make a temporal difference prediction. LILAC employs a convolutional Siamese architecture to extract feature pairs, followed by subtraction and a bias-free fully connected layer to learn meaningful temporal image differences. We first showcase LILAC’s ability to capture key longitudinal changes by simply training it to predict the temporal ordering of images. In our experiments, temporal ordering accuracy exceeded 0.98, and predicted time differences were strongly correlated with actual changes in relevant variables (Pearson Correlation Coefficient r = 0.911 with embryo phase change, and r = 0.875 with time interval in wound healing). Next, we trained LILAC to explicitly predict specific targets, such as the change in clinical scores in patients with mild cognitive impairment. LILAC models achieved over a 40% reduction in root mean square error compared to baseline methods. Our empirical results demonstrate that L...