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11. Prospective Case-control Study of Contact Tracing Speed for Emergency Department-based Contact Tracers

Author

Weaver, Sean C., Byrne, Samuel S., Bruce, Hollianne, Vargas, Olivia L., and Robey, Thomas E.

Subjects
Contact Tracing, COVID-19
Abstract

Introduction: In Snohomish County, WA, the time from obtaining a positive severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) test and initiating contact tracing is 4-6 days. We tested whether emergency department (ED)-based contact tracing reduces time to initiation and completion of contact tracing investigations.  Methods: All eligible coronavirus disease 2019 (COVID-19)-positive patients were offered enrollment in this prospective case-control study. Contact tracers were present in the ED from 7 AM to 2 AM for 60 consecutive days. Tracers conducted interviews using the Washington State Department of Health’s extended COVID-19 reporting form, which is also used by the Snohomish Health District (SHD).  Results: Eighty-one eligible SARS-CoV-2 positive patients were identified and 71 (88%) consented for the study. The mean time between positive COVID-19 test result and initiation of contact tracing investigation was 111 minutes with a median of 32 minutes (range: 1-1,203 minutes). The mean time from positive test result and completion of ED-based contact tracing investigation was 244 minutes with a median of 132 minutes (range: 23-1,233 minutes). In 100% of the enrolled cases, contact tracing was completed within 24 hours of a positive COVID-19 test result. For comparison, during this same period, SHD was able to complete contact tracing in 64% of positive cases within 24 hours of notification of a positive test result (P < 0.001). In the ED, each case identified a mean of 2.8 contacts as compared to 1.4 contacts identified by SHD-interviewed cases. There was no statistically significant difference between the percentage of contacts reached through ED contact tracing (82%) when compared to the usual practice (78%) (P = 0.16).  Conclusion: When contact tracing investigations occur at the point of diagnoses, the time to initiation and completion are reduced, there is higher enrollment, and more contacts are identified.

Published
2022

12. Mechanisms and management of loss of response to anti-TNF therapy for patients with Crohn's disease: 3-year data from the prospective, multicentre PANTS cohort study

Author

Patel, Vinod, Mazhar, Zia, Saich, Rebecca, Colleypriest, Ben, Tham, Tony C, Iqbal, Tariq, Kaushik, Vishal, Murugesan, Senthil, Singh, Salil, Weaver, Sean, Preston, Cathryn, Butt, Assad, Smith, Melissa, Basude, Dharamveer, Beale, Amanda, Langlands, Sarah, Direkze, Natalie, Parkes, Miles, Torrente, Franco, De La Revella Negro, Juan, MacDonald, Chris Ewen, Evans, Stephen M, Gunasekera, Anton VJ, Thakur, Alka, Elphick, David, Shenoy, Achuth, Nwokolo, Chuka U, Dhar, Anjan, Cole, Andrew T, Agrawal, Anurag, Bridger, Stephen, Doherty, Julie, Cooper, Sheldon C, de Silva, Shanika, Mowat, Craig, Mayhead, Phillip, Lees, Charlie, Jones, Gareth, Ahmad, Tariq, Hart, James W, Kennedy, Nicholas A, Goodhand, James R, Lin, Simeng, Chanchlani, Neil, Nice, Rachel, McDonald, Timothy J, Bewshea, Claire, Al-Nuaimi, Yusur, Richards, Ellen, Haigh, Richard, Greenish, Huw, Heath, Harry, Gaya, Daniel R, Russell, Richard K, Gervais, Lisa, Dunckley, Paul, Mahmood, Tariq, Banim, Paul JR, Sonwalkar, Sunil, Ghosh, Deb, Phillips, Rosemary H, Azaz, Amer, Sebastian, Shaji, Shenderey, Richard, Armstrong, Lawrence, Bell, Claire, Hariraj, Radhakrishnan, Matthews, Helen, Jafferbhoy, Hasnain, Selinger, Christian P, Zamvar, Veena, De Caestecker, John S, Willmott, Anne, Miller, Richard, Babu, Palani Sathish, Tzivinikos, Christos, Bloom, Stuart L, Chung-Faye, Guy, Croft, Nicholas M, Fell, John ME, Harbord, Marcus, Hart, Ailsa, Hope, Ben, Irving, Peter M, Lindsay, James O, Mawdsley, Joel E, McNair, Alistair, Monahan, Kevin J, Murray, Charles D, Orchard, Timothy, Paul, Thankam, Pollok, Richard, Shah, Neil, Bouri, Sonia, Johnson, Matt W, Modi, Anita, Kabiru, Kasamu Dawa, Baburajan, B K, Bhaduri, Bim, Fagbemi, Andrew Adebayo, Levison, Scott, Limdi, Jimmy K, Watts, Gill, Foley, Stephen, Ramadas, Arvind, MacFaul, George, Mansfield, John, Grellier, Leonie, Morris, Mary-Anne, Tremelling, Mark, Hawkey, Chris, Kirkham, Sian, Charlton, Charles PJ, Rodrigues, Astor, Simmons, Alison, Lewis, Stephen J, Snook, Jonathon, Tighe, Mark, Goggin, Patrick M, De Silva, Aminda N, Lal, Simon, Smith, Mark S, Panter, Simon, Cummings, JR Fraser, Dharmisari, Suranga, Carter, Martyn, Watts, David, Mahmood, Zahid, McLain, Bruce, Sen, Sandip, Pigott, Anna J, Hobday, David, Wesley, Emma, Johnston, Richard, Edwards, Cathryn, Beckly, John, Vani, Deven, Ramakrishnan, Subramaniam, Chaudhary, Rakesh, Trudgill, Nigel J, Cooney, Rachel, Bell, Andy, Prasad, Neeraj, Gordon, John N, Brookes, Matthew J, Li, Andy, Gore, Stephen, Hamilton, Benjamin, Thomas, Amanda, Smith, Rebecca, Roberts, Christopher, Bishara, Maria, and Lees, Charlie W

Published
2024
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13. A biomarker-stratified comparison of top-down versus accelerated step-up treatment strategies for patients with newly diagnosed Crohn's disease (PROFILE): a multicentre, open-label randomised controlled trial

Author

Noor, Nurulamin, Lee, James, Bond, Simon, Dowling, Francis, Brezina, Biljana, Patel, Kamal, Ahmad, Tariq, Banim, Paul, Berrill, James, Cooney, Rachel, De La Revilla Negro, Juan, de Silva, Shanika, Din, Shahida, Durai, Dharmaraj, Gordon, John, Irving, Peter, Johnson, Matthew, Kent, Alexandra, Kok, Klaartje Bel, Moran, Gordon, Mowat, Craig, Patel, Pritash, Probert, Chris, Raine, Tim, Saich, Rebecca, Seward, Abigail, Sharpstone, Dan, Smith, Melissa, Subramanian, Sreedhar, Upponi, Sara, Wiles, Alan, Williams, Horace, van Den Brink, Gijs, Vermeire, Severine, Jairath, Vipul, D'Haens, Geert, McKinney, Eoin, Lyons, Paul, Lindsay, James, Kennedy, Nicholas, Smith, Kenneth, Parkes, Miles, Allcock, Clare, Bhatti, Suhaylah, Blackwell, Jonathan, Boulton-Jones, Robert, Brookes, Matthew, Butcher, Rhys, Butterworth, Jeffrey, Champion, Karlena, Chaudhary, Rakesh, Cole, Andy, Derikx, Lauranne, Dhar, Anjan, Flowerdew, Mary, Goel, Rishi, Hart, Ailsa, Hughes, Rory, Javaid, Babur, Knight, Paul, Lee, Jacinta, Lees, Charlie, Levell, Emma, Li, Andy, Murray, Charles, O'Brien, Leisha, Parkes, Gareth, Pollok, Richard, Powles, Sam, Ramdas, Arvind, Smith, Philip, Speight, Richard Ally, Travis, Simon, Weaver, Sean, Wesley, Emma, Noor, Nurulamin M, Lee, James C, Patel, Kamal V, Banim, Paul J, Berrill, James W, Gordon, John N, Irving, Peter M, Kent, Alexandra J, Kok, Klaartje B, Moran, Gordon W, Probert, Chris S, Smith, Melissa A, Upponi, Sara S, Williams, Horace R T, van den Brink, Gijs R, Vermeire, Séverine, D'Haens, Geert R, McKinney, Eoin F, Lyons, Paul A, Lindsay, James O, Kennedy, Nicholas A, and Smith, Kenneth G C

Published
2024
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23. Constructing Minimal Perfect Hash Functions Using SAT Technology

Author

Weaver, Sean and Heule, Marijn

Subjects
Computer Science - Logic in Computer Science, Computer Science - Data Structures and Algorithms
Abstract

Minimal perfect hash functions (MPHFs) are used to provide efficient access to values of large dictionaries (sets of key-value pairs). Discovering new algorithms for building MPHFs is an area of active research, especially from the perspective of storage efficiency. The information-theoretic limit for MPHFs is 1/(ln 2) or roughly 1.44 bits per key. The current best practical algorithms range between 2 and 4 bits per key. In this article, we propose two SAT-based constructions of MPHFs. Our first construction yields MPHFs near the information-theoretic limit. For this construction, current state-of-the-art SAT solvers can handle instances where the dictionaries contain up to 40 elements, thereby outperforming the existing (brute-force) methods. Our second construction uses XOR-SAT filters to realize a practical approach with long-term storage of approximately 1.83 bits per key., Comment: Accepted for AAAI 2020

Published
2019

43. Touch wood

Author

Lees, Annette and Weaver, Sean

Published
1990

45. Mechanisms and management of loss of response to anti-TNF therapy for patients with Crohn's disease: 3-year data from the prospective, multicentre PANTS cohort study

Author

Chanchlani, Neil, primary, Lin, Simeng, additional, Bewshea, Claire, additional, Hamilton, Benjamin, additional, Thomas, Amanda, additional, Smith, Rebecca, additional, Roberts, Christopher, additional, Bishara, Maria, additional, Nice, Rachel, additional, Lees, Charlie W, additional, Sebastian, Shaji, additional, Irving, Peter M, additional, Russell, Richard K, additional, McDonald, Timothy J, additional, Goodhand, James R, additional, Ahmad, Tariq, additional, Kennedy, Nicholas A, additional, Patel, Vinod, additional, Mazhar, Zia, additional, Saich, Rebecca, additional, Colleypriest, Ben, additional, Tham, Tony C, additional, Iqbal, Tariq, additional, Kaushik, Vishal, additional, Murugesan, Senthil, additional, Singh, Salil, additional, Weaver, Sean, additional, Preston, Cathryn, additional, Butt, Assad, additional, Smith, Melissa, additional, Basude, Dharamveer, additional, Beale, Amanda, additional, Langlands, Sarah, additional, Direkze, Natalie, additional, Parkes, Miles, additional, Torrente, Franco, additional, De La Revella Negro, Juan, additional, MacDonald, Chris Ewen, additional, Evans, Stephen M, additional, Gunasekera, Anton VJ, additional, Thakur, Alka, additional, Elphick, David, additional, Shenoy, Achuth, additional, Nwokolo, Chuka U, additional, Dhar, Anjan, additional, Cole, Andrew T, additional, Agrawal, Anurag, additional, Bridger, Stephen, additional, Doherty, Julie, additional, Cooper, Sheldon C, additional, de Silva, Shanika, additional, Mowat, Craig, additional, Mayhead, Phillip, additional, Lees, Charlie, additional, Jones, Gareth, additional, Hart, James W, additional, Chanchlani, Neil, additional, Al-Nuaimi, Yusur, additional, Richards, Ellen, additional, Haigh, Richard, additional, Greenish, Huw, additional, Heath, Harry, additional, Gaya, Daniel R, additional, Gervais, Lisa, additional, Dunckley, Paul, additional, Mahmood, Tariq, additional, Banim, Paul JR, additional, Sonwalkar, Sunil, additional, Ghosh, Deb, additional, Phillips, Rosemary H, additional, Azaz, Amer, additional, Shenderey, Richard, additional, Armstrong, Lawrence, additional, Bell, Claire, additional, Hariraj, Radhakrishnan, additional, Matthews, Helen, additional, Jafferbhoy, Hasnain, additional, Selinger, Christian P, additional, Zamvar, Veena, additional, De Caestecker, John S, additional, Willmott, Anne, additional, Miller, Richard, additional, Babu, Palani Sathish, additional, Tzivinikos, Christos, additional, Bloom, Stuart L, additional, Chung-Faye, Guy, additional, Croft, Nicholas M, additional, Fell, John ME, additional, Harbord, Marcus, additional, Hart, Ailsa, additional, Hope, Ben, additional, Lindsay, James O, additional, Mawdsley, Joel E, additional, McNair, Alistair, additional, Monahan, Kevin J, additional, Murray, Charles D, additional, Orchard, Timothy, additional, Paul, Thankam, additional, Pollok, Richard, additional, Shah, Neil, additional, Bouri, Sonia, additional, Johnson, Matt W, additional, Modi, Anita, additional, Kabiru, Kasamu Dawa, additional, Baburajan, B K, additional, Bhaduri, Bim, additional, Fagbemi, Andrew Adebayo, additional, Levison, Scott, additional, Limdi, Jimmy K, additional, Watts, Gill, additional, Foley, Stephen, additional, Ramadas, Arvind, additional, MacFaul, George, additional, Mansfield, John, additional, Grellier, Leonie, additional, Morris, Mary-Anne, additional, Tremelling, Mark, additional, Hawkey, Chris, additional, Kirkham, Sian, additional, Charlton, Charles PJ, additional, Rodrigues, Astor, additional, Simmons, Alison, additional, Lewis, Stephen J, additional, Snook, Jonathon, additional, Tighe, Mark, additional, Goggin, Patrick M, additional, De Silva, Aminda N, additional, Lal, Simon, additional, Smith, Mark S, additional, Panter, Simon, additional, Cummings, JR Fraser, additional, Dharmisari, Suranga, additional, Carter, Martyn, additional, Watts, David, additional, Mahmood, Zahid, additional, McLain, Bruce, additional, Sen, Sandip, additional, Pigott, Anna J, additional, Hobday, David, additional, Wesley, Emma, additional, Johnston, Richard, additional, Edwards, Cathryn, additional, Beckly, John, additional, Vani, Deven, additional, Ramakrishnan, Subramaniam, additional, Chaudhary, Rakesh, additional, Trudgill, Nigel J, additional, Cooney, Rachel, additional, Bell, Andy, additional, Prasad, Neeraj, additional, Gordon, John N, additional, Brookes, Matthew J, additional, Li, Andy, additional, and Gore, Stephen, additional

Published
2024
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46. Code Multiplexed Nanocapacitor Arrays for Scalable Neural Recordings

Author

Weaver, Sean, primary, Chen, Yiyang, additional, Renz, Aline, additional, Choi, Woojun, additional, Vyza, Yashwanth, additional, Schlotter, Tilman, additional, Vulić, Katarina, additional, Kim, Donghwan, additional, Atzeni, Gabriele, additional, Momotenko, Dmitry, additional, Nakatsuka, Nako, additional, Jang, Taekwang, additional, and Vörös, János, additional

Published
2024
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48. Aptamer-functionalized capacitive biosensors

Author

Weaver, Sean, Mohammadi, Melika, Nakatsuka, Nako, Weaver, Sean, Mohammadi, Melika, and Nakatsuka, Nako

Abstract

The growing use of aptamers as target recognition elements in label-free biosensing necessitates corresponding transducers that can be used in relevant environments. While popular in many fields, capacitive sensors have seen relatively little, but growing use in conjunction with aptamers for sensing diverse targets. Few reports have shown physiologically relevant sensitivity in laboratory conditions and a cohesive picture on how target capture modifies the measured capacitance has been lacking. In this review, we assess the current state of the field in three areas: small molecule, protein, and cell sensing. We critically analyze the proposed hypotheses on how aptamer-target capture modifies the capacitance, as many mechanistic postulations appear to conflict between published works. As the field matures, we encourage future works to investigate individual aptamer-target interactions and to interrogate the physical mechanisms leading to measured changes in capacitance. To this point, we provide recommendations on best practices for developing aptasensors with a particular focus on considerations for biosensing in clinical settings.

Published
2024
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50. XOR-Satisfiability Set Membership Filters

Author

Weaver, Sean A., Roberts, Hannah J., Smith, Michael J., Hutchison, David, Series Editor, Kanade, Takeo, Series Editor, Kittler, Josef, Series Editor, Kleinberg, Jon M., Series Editor, Mattern, Friedemann, Series Editor, Mitchell, John C., Series Editor, Naor, Moni, Series Editor, Pandu Rangan, C., Series Editor, Steffen, Bernhard, Series Editor, Terzopoulos, Demetri, Series Editor, Tygar, Doug, Series Editor, Weikum, Gerhard, Series Editor, Beyersdorff, Olaf, editor, and Wintersteiger, Christoph M., editor

Published
2018
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