39 research outputs found
Detection, Analysis and Clinical Validation of Chromosomal Aberrations by Multiplex Ligation-Dependent Probe Amplification in Chronic Leukemia
- Publication venue
- Public Library of Science
- Publication date
- 25/10/2010
- Field of study
Current diagnostic screening strategies based on karyotyping or fluorescent in situ hybridization (FISH) for detection of chromosomal abnormalities in chronic lymphocytic leukemia (CLL) are laborious, time-consuming, costly, and have limitations in resolution. Multiplex ligation-dependent probe amplification (MLPA) can simultaneously detect copy number changes of multiple loci in one simple PCR reaction, making it an attractive alternative to FISH. To enhance the clinical robustness and further harness MLPA technology for routine laboratory operations, we have developed and validated a protocol for comprehensive, automatic data analysis and interpretation. A training set of 50 normal samples was used to establish reference ranges for each individual probe, for the calling of statistically significant copy number changes. The maximum normal ranges of 2 and 3 standard deviations (SD) are distributed between 0.82 and 1.18 (Mean ± 2SD, 95% CI, P = 0.05), and between 0.73 and 1.27 (Mean ± 3SD, 99% CI, P = 0.01), respectively. We found an excellent correlation between MLPA and FISH with 93.6% concordance (P<0.0001) from a testing cohort of 100 clinically suspected CLL cases. MLPA analyses done on 94/100 patients showed sensitivity and specificity of 94.2% and 92.9%, respectively. MLPA detected additional copy number gains on 18q21.1 and chromosome 19, and novel micro-deletions at 19q13.43 and 19p13.2 loci in six samples. Three FISH-failed samples were tested positive by MLPA, while three 13q- cases with a low percentage of leukemia cells (7%, 12% and 19%) were not detected by MLPA. The improved CLL MLPA represents a high-throughput, accurate, cost-effective and user-friendly platform that can be used as a first-line screening test in a clinical laboratory
Significant association between polymorphism of the erythropoietin gene promoter and myelodysplastic syndrome
- Author
- A Descatha
- Amber C Donahue
- Chen-Hsiung Yeh
- Clifford Chen
- D Metcalf
- Guillermo Garcia-Manero
- Hagop Kantarjian
- K Broberg
- Ke Zhang
- LA Godley
- M Jädersten
- M Wadhwa
- Maher Albitar
- MP Powers
- MT Kasner
- Neil Caporaso
- Ola Landgren
- P Valent
- PL Greenberg
- RS Negrin
- RS Negrin
- RS Stein
- S Park
- Susan O'Brien
- TD Richmond
- W Fried
- Wanlong Ma
- Xi Zhang
- Xiuqiang Wang
- Z Gyulai
- Z Tong
- Zhong Zhang
- Publication venue
- BioMed Central
- Publication date
- 01/11/2010
- Field of study
<p>Abstract</p> <p>Background</p> <p>Myelodysplastic syndrome (MDS) may be induced by certain mutagenic environmental or chemotherapeutic toxins; however, the role of susceptibility genes remains unclear. The G/G genotype of the single-nucleotide polymorphism (SNP) rs1617640 in the erythropoietin (<it>EPO</it>) promoter has been shown to be associated with decreased EPO expression. We examined the association of rs1617640 genotype with MDS.</p> <p>Methods</p> <p>We genotyped the EPO rS1617640 SNP in 189 patients with MDS, 257 with acute myeloid leukemia (AML), 106 with acute lymphoblastic leukemia, 97 with chronic lymphocytic leukemia, 353 with chronic myeloid leukemia, and 95 healthy controls.</p> <p>Results</p> <p>The G/G genotype was significantly more common in MDS patients (47/187; 25.1%) than in controls (6/95; 6.3%) or in patients with other leukemias (101/813; 12.4%) (all <it>P </it>< 0.001). Individuals with the G/G genotype were more likely than those with other genotypes to have MDS (odd ratio = 4.98; 95% CI = 2.04-12.13). Clinical and follow up data were available for 112 MDS patients and 186 AML patients. There was no correlation between EPO promoter genotype and response to therapy or overall survival in MDS or AML. In the MDS group, the GG genotype was significantly associated with shorter complete remission duration, as compared with the TT genotype (<it>P </it>= 0.03). Time to neutrophils recovery after therapy was significantly longer in MDS patients with the G/G genotype (<it>P </it>= 0.02).</p> <p>Conclusions</p> <p>These findings suggest a strong association between the rs1617640 G/G genotype and MDS. Further studies are warranted to investigate the utility of screening for this marker in individuals exposed to environmental toxins or chemotherapy.</p
Targeting DNA Damage Response and Replication Stress in Pancreatic Cancer
- Author
- Allison Sarah
- Anderson Matthew
- Asghari Ray
- Ashworth Alan
- Bailey Peter
- Bailey Peter J.
- Bailey Peter J.
- Bailey Ulla-maja
- Bailey Ulla-maja
- Bajrami Ilirjana
- Balkwill Frances
- Ballal Mo
- Barbour Andrew P.
- Barry Simon T.
- Bassi Claudio
- Beer Phillip
- Beghelli Stefania
- Beilin Maria
- Beraldi Dario
- Biankin Andrew V.
- Biankin Andrew V.
- Biankin Andrew V.
- Biankin Andrew V.
- Biankin Andrew V.
- Biobank Victorian Cancer
- Brancato Mary-anne L.
- Brooke-smith Mark E.
- Brough Rachel
- Brunton Holly
- Brunton Holly
- Bruxner Tim
- Caligiuri Giuseppina
- Caligiuri Giuseppina
- Cameron Euan
- Candido Juliana
- Chai Ming
- Chang David K.
- Chang David K.
- Chang David K.
- Chang David K.
- Chang David K.
- Chantrill Lorraine A.
- Chen John
- Chiang Amy
- Chin Venessa T.
- Chou Angela
- Christ Angelika
- Christophi Christopher
- Cloonan Nicole
- Clouston Andrew D.
- Cooke Susanna L.
- Cooke Susanna L.
- Cooper Caroline L.
- Corbo Vincenzo
- Cosman Peter H.
- Cowley Mark J.
- Crawford Howard C.
- Crawford Michael
- Cunningham Richard
- Cunningham Richard
- Daly Roger J.
- Das Amitabha
- Deboer Bastiaan
- Debrencini Tamara
- Dipietro Renee
- Dray Eloise
- Dreyer Stephan
- Dreyer Stephan B.
- Duthie Fraser
- Duthie Fraser
- Dziubinski Michele L.
- Epari Krishna P.
- Eshleman James R.
- Evers Lisa
- Evers Lisa
- Fawcett Jonathan W.
- Feeney Kynan
- Fink J. Lynn
- Fletcher David R.
- Forest Cindy
- Frame Margaret C.
- Froeling Fieke E.m.
- Gallagher James
- Galluzzo Zachary
- Gill Anthony J.
- Giry-laterriere Marc
- Gongora Milena
- Graham Janet S.
- Graham Janet S.
- Grimmond Sean M.
- Grimmond Sean M.
- Grimwood Paul
- Grützmann Robert
- Gulati Aditi
- Guminski Alex
- Hair Jane
- Harliwong Ivon
- Hatzifotis Michael
- Hodgin Mary
- Hodgkinson Peter
- Holmes Oliver
- Hruban Ralph H.
- Humphris Jeremy L.
- Iacobuzio-donahue Christine A.
- Idrisoglu Senel
- Ismail Kasim
- James Virginia
- Jamieson Nigel B.
- Jamieson Nigel B.
- Jamieson Nigel B.
- Jamieson Nigel B.
- Johns Amber
- Johns Amber L.
- Jones Marc
- Jones Marc D.
- Jones Marc D.
- Jones Marc D.
- Joseph David
- Kassahn Karin S.
- Kazakoff Stephen
- Kelly Shane
- Kench James G.
- Krisnan Keerthana
- Lam Vincent W.
- Lampraki Eirini-maria
- Lampraki Eirini-maria
- Lawlor Rita T.
- Laycock Andrew
- Lee Hong Ching
- Leonard Conrad
- Lord Chris
- Maitra Anirban
- Manning Suzanne
- Marshall John
- Martin Patrick
- Martin Sancha
- Martyn-smith Mona
- Mawson Amanda
- Mcdade Brian
- Mcelroy Daniel
- Mcgregor Grant A.
- Mckay Colin J.
- Mckay Colin J.
- Mcleod Duncan
- Mead R. Scott
- Merrett Neil D.
- Miller David K.
- Moran-jones Kim
- Morgan Richard A.
- Morton Jennifer P.
- Mountain Angela
- Mukhedkar Sanjay
- Mukhopadhyay Debabrata
- Musgrove Elizabeth A.
- Musgrove Elizabeth A.
- Musgrove Elizabeth A.
- Musgrove Elizabeth A.
- Nagaraj Shivashankar
- Nagrial Adnan M.
- Newell Felicity
- Nguyen Nan Q.
- Nikfarjam Mehrdad
- Nones Katia
- Nourbakhsh Ehsan
- Nourse Craig
- Nourse Craig
- Nourse Craig
- Nourse Craig
- Oien Karin
- O’connnor Chelsie
- O’rourke Thomas J.
- Pajic Marina
- Pajic Marina
- Papangelis Virginia
- Paris Clara
- Patch Ann-marie
- Paulus-hock Viola
- Paulus-hock Viola
- Pavey Darren
- Pavlakis Nick
- Pearson John V.
- Petersen Gloria M.
- Pettit Jessica
- Pettitt Stephan
- Pilarsky Christian
- Pinese Mark
- Pinho Andreia V.
- Pleass Henry C.
- Plenker Dennis
- Quek Kelly
- Quinn Michael
- Rahib Lola
- Rahib Lola
- Ramsay Donna
- Rebus Selma
- Rebus Selma
- Richardson Arthur
- Rooman Ilse
- Rowe Sarah J.
- Ruszkiewicz Andrew R.
- Samra Jaswinder S.
- Sandroussi Charbel
- Sansom Owen J.
- Scardoni Maria
- Scarlett Christopher J.
- Scarpa Aldo
- Schulick Richard D.
- Serrels Bryan
- Serrels Bryan
- Simeone Diane M.
- Simpson Skye H.
- Slater Kellee
- Song Sarah
- Spry Nigel A.
- Steinmann Angela
- Sutherland Robert L.
- Tan Chuan P.
- Tang Henry
- Tao Jiang
- Taylor Darrin
- Tempero Margaret A.
- Tesson Mathias
- Texler Michael
- Thomas Michelle T.
- Toon Christopher
- Tuveson David A.
- Upstill-goddard Rosie
- Upstill-goddard Rosie
- Waddell Nick
- Waddell Nicola
- Wani Shivangi
- Watson Clare
- Westwood Paul
- Williams Nicola
- Wilson Peter J.
- Wolfgang Christopher L.
- Wong Rachel
- Wood David
- Wood Scott
- Worthley Chris
- Wright Derek W.
- Wright Derek W.
- Wu Jianmin
- Xu Christina
- Yeung Shinn
- Zeps Nikolajs
- Publication venue
- 'Elsevier BV'
- Publication date
- 08/10/2020
- Field of study
Background and aims:
Continuing recalcitrance to therapy cements pancreatic cancer (PC) as the most lethal malignancy, which is set to become the second leading cause of cancer death in our society. The study aim was to investigate the association between DNA damage response (DDR), replication stress and novel therapeutic response in PC to develop a biomarker driven therapeutic strategy targeting DDR and replication stress in PC.
Methods:
We interrogated the transcriptome, genome, proteome and functional characteristics of 61 novel PC patient-derived cell lines to define novel therapeutic strategies targeting DDR and replication stress. Validation was done in patient derived xenografts and human PC organoids.
Results:
Patient-derived cell lines faithfully recapitulate the epithelial component of pancreatic tumors including previously described molecular subtypes. Biomarkers of DDR deficiency, including a novel signature of homologous recombination deficiency, co-segregates with response to platinum (P < 0.001) and PARP inhibitor therapy (P < 0.001) in vitro and in vivo. We generated a novel signature of replication stress with which predicts response to ATR (P < 0.018) and WEE1 inhibitor (P < 0.029) treatment in both cell lines and human PC organoids. Replication stress was enriched in the squamous subtype of PC (P < 0.001) but not associated with DDR deficiency.
Conclusions:
Replication stress and DDR deficiency are independent of each other, creating opportunities for therapy in DDR proficient PC, and post-platinum therapy
Search for gravitational-lensing signatures in the full third observing run of the LIGO-Virgo network
- Author
- Abbott R.
- Abe H.
- Acernese F.
- Ackley Kendall
- Adhicary S.
- Adhikari Naresh
- Adhikari Rana X.
- Adkins V. K.
- Adya V. B.
- Affeldt C.
- Agarwal D.
- Agathos Michalis
- Aguiar Odylio D.
- Aiello Lorenzo
- Ain A.
- Ajith Parameswaran
- Akutsu Tomotada
- Albanesi S.
- Alfaidi R. A.
- Allocca Annalisa
- Alléné C.
- Altin Paul
- Amato Alex
- Anand S.
- Ananyeva A.
- Anderson Stuart
- Anderson Warren G.
- Ando M.
- Andrade T.
- Andrea Prodi Giovanni
- Andres Nicolas
- Andric Tomislav
- Andrés-Carcasona Marc
- Anne Bizouard Marie
- Ansoldi S.
- Antelis Javier M.
- Antier Sarah
- Antonio Font Roda Jose
- Apostolatos T.
- Appavuravther E. Z.
- Appert S.
- Apple S. K.
- Arai Koji
- Araya Akito
- Araya Melody
- Areeda Joseph
- Arif Shaikh Md
- Aritomi Naoki
- Arnaud Nicolas
- Arogeti M.
- Aronson S. M.
- Arène M.
- Asada Hideki
- Ashton Gregory
- Aso Yoichi
- Assiduo M.
- Aston S. M.
- Astone Pia
- Aubin Florian
- Babak Stanislav
- Badaracco Francesca
- Badger C.
- Bae S.
- Bae Y.
- Bagnasco Stefano
- Bai Y.
- Baier J. G.
- Baird J.
- Bajpai Rishabh
- Baka T.
- Ball M.
- Ballardin G.
- Ballmer S. W.
- Baltus Grégory
- Banagiri Sharan
- Banerjee Biswajit
- Bankar Deepak
- Barayoga J. C.
- Barish B. C.
- Barker D.
- Barneo Pablo
- Barone Fabrizio
- Barr Bryan
- Barsotti Lisa
- Barsuglia Matteo
- Barta Dániel
- Bartlett J.
- Barton Mark Andrew
- Bartos I.
- Basak S.
- Bassiri Riccardo
- Basti A.
- Bawaj Mateusz
- Bayley Joseph
- Bazzan M.
- Beatrice Cummings Rebecca
- Bedakihale V. M.
- Beirnaert Freija
- Bejger Michał
- Belahcene I.
- Bell Angus
- Benedetto V.
- Beniwal D.
- Benoit William
- Bentley Joe
- BenYaala M.
- Bera S.
- Berbel Marina
- Bergamin F.
- Berger Beverly
- Bernuzzi Sebastiano
- Beroiz Martin
- Berry Christopher P. L.
- Bersanetti Diego
- Bertolini A.
- Betzwieser Joseph
- Beveridge Damon
- Bhandare R.
- Bhandari A. V.
- Bhardwaj Uddipta
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- Bhattacharjee Dripta
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- Bianchi A.
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- Billingsley GariLynn
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- Birnholtz Ofek
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- Bischi M.
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- Brau James E.
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- Chalathadka Subrahmanya Shreevathsa
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- Charlton Philip
- CHASSANDE-MOTTIN Eric
- Chatterjee Chayan
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- Chaturvedi M.
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- Chatziioannou Katerina
- Chen ChianShu
- Chen Dan
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- Williamson Andrew R.
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- Willke Benno
- Wipf C. C.
- Woan Graham
- Woehler J.
- Wofford Jared
- Wojtowicz I. A.
- Wong D.
- Wright M.
- Wu Chien-Ming
- Wu David S.
- Wu H.
- Wysocki Daniel
- Xiao Liting
- Yadav N.
- Yamada T.
- Yamamoto Hiroaki
- Yamamoto Kazuhiro
- Yamamoto Takahiro
- Yamashita K.
- Yamazaki R.
- Yang Fengwei
- Yang Kate Z.
- Yang Le
- Yang Y. -C.
- Yang Yang
- Yang Yi
- Yap M. J.
- Yeeles D. W.
- Yeh S. -W.
- Yelikar A. B.
- Yokoyama Jun'ichi
- Yokozawa T.
- Yoo Jooheon
- Yoshioka T.
- Yu Hang
- Yu Haocun
- Yuzurihara H.
- Zadrożny A.
- Zahoor Jan Aasim
- Zanolin M.
- Zeidler Simon
- Zelenova T.
- Zendri J. -P.
- Zevin Michael
- Zhan M.
- Zhang H.
- Zhang Jue
- Zhang L.
- Zhang Rui
- Zhang T.
- Zhang Y.
- Zhao C.
- Zhao G.
- Zhao Yue
- Zhao Yuhang
- Zheng Yanyan
- Zhou R.
- Zhu Xingjiang
- Zhu Zong-Hong
- Zimmerman Aaron
- Zucker M. E.
- Árpád Gergely László
- 劉 國欽
- 曹周键
- 王谨
- 都丸 隆行
- Publication venue
- Publication date
- 01/04/2023
- Field of study
Gravitational lensing by massive objects along the line of sight to the source causes distortions of gravitational wave-signals; such distortions may reveal information about fundamental physics, cosmology and astrophysics. In this work, we have extended the search for lensing signatures to all binary black hole events from the third observing run of the LIGO--Virgo network. We search for repeated signals from strong lensing by 1) performing targeted searches for subthreshold signals, 2) calculating the degree of overlap amongst the intrinsic parameters and sky location of pairs of signals, 3) comparing the similarities of the spectrograms amongst pairs of signals, and 4) performing dual-signal Bayesian analysis that takes into account selection effects and astrophysical knowledge. We also search for distortions to the gravitational waveform caused by 1) frequency-independent phase shifts in strongly lensed images, and 2) frequency-dependent modulation of the amplitude and phase due to point masses. None of these searches yields significant evidence for lensing. Finally, we use the non-detection of gravitational-wave lensing to constrain the lensing rate based on the latest merger-rate estimates and the fraction of dark matter composed of compact objects
Search for eccentric black hole coalescences during the third observing run of LIGO and Virgo
- Author
- Abac A. G.
- Abbott R.
- Abe H.
- Acernese F.
- Ackley Kendall
- Adamcewicz C.
- Adhicary S.
- Adhikari Naresh
- Adhikari Rana X.
- Adkins V. K.
- Adya V. B.
- Affeldt C.
- Afif Ismail M.
- Agarwal D.
- Agathos Michalis
- Aguiar Odylio D.
- Aguilar I.
- Aiello Lorenzo
- Ain Anirban
- Ajith Parameswaran
- Akseli Hannuksela Otto
- Akutsu Tomotada
- Al-Jodah Ammar
- Albanesi S.
- Alberto Trani Alessandro
- Alfaidi Reem Atallah E
- Allocca Annalisa
- Alléné C.
- Almualla M.
- Altin Paul
- Amato Alex
- Amez-Droz L.
- Amorosi A.
- Anand S.
- Ananyeva A.
- Andersen R.
- Anderson Stuart
- Anderson Warren G.
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- Andrea Prodi Giovanni
- Andres Nicolas
- Andric Tomislav
- Andrés-Carcasona Marc
- Anne Bizouard Marie
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- Antonio Font Roda Jose
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- Yeung T. Y.
- Yokoyama Jun'ichi
- Yokozawa T.
- Yoo Jooheon
- Yu Hang
- Yuzurihara Hirotaka
- Zadrożny A.
- Zahoor Jan Aasim
- Zannelli A. J.
- Zanolin M.
- Zeeshan M.
- Zelenova T.
- Zendri J. -P.
- Zevin Michael
- Zhang Jue
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- Zhang T.
- Zhang Ya
- Zhang Yanqi
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- Zhao Yue
- Zhao Yuhang
- Zheng Yanyan
- Zhong Haowen
- Zhou R.
- Zhu Zong-Hong
- Zimmerman Aaron
- Zucker M. E.
- Zweizig John
- Álvarez-López S.
- Árpád Gergely László
- 劉 國欽
- 曹周键
- 都丸 隆行
- Publication venue
- Publication date
- 01/08/2023
- Field of study
Despite the growing number of confident binary black hole coalescences observed through gravitational waves so far, the astrophysical origin of these binaries remains uncertain. Orbital eccentricity is one of the clearest tracers of binary formation channels. Identifying binary eccentricity, however, remains challenging due to the limited availability of gravitational waveforms that include effects of eccentricity. Here, we present observational results for a waveform-independent search sensitive to eccentric black hole coalescences, covering the third observing run (O3) of the LIGO and Virgo detectors. We identified no new high-significance candidates beyond those that were already identified with searches focusing on quasi-circular binaries. We determine the sensitivity of our search to high-mass (total mass M>70 M⊙) binaries covering eccentricities up to 0.3 at 15 Hz orbital frequency, and use this to compare model predictions to search results. Assuming all detections are indeed quasi-circular, for our fiducial population model, we place an upper limit for the merger rate density of high-mass binaries with eccentricities 0<e≤0.3 at 0.33 Gpc−3 yr−1 at 90\% confidence level
Ultralight vector dark matter search using data from the KAGRA O3GK run
- Author
- Abac A. G.
- Abbott R.
- Abe H.
- Abouelfettouh I.
- Acernese F.
- Ackley Kendall
- Adamcewicz Christian
- Adhicary S.
- Adhikari Naresh
- Adhikari Rana X.
- Adkins V. K.
- Adya V. B.
- Affeldt C.
- Afif Ismail M.
- Agarwal Deepali
- Agathos Michalis
- Aguiar Odylio D.
- Aguilar I.
- Aiello Lorenzo
- Ain Anirban
- Ajith Parameswaran
- Akseli Hannuksela Otto
- Akutsu Tomotada
- Al-Jodah Ammar
- Al-Shammari S.
- Albanesi S.
- Alberto Trani Alessandro
- Alfaidi Reem Atallah E
- Allocca Annalisa
- Alléné C.
- Altin Paul
- Alvarez-Lopez Sofia
- Amato Alex
- Amez-Droz L.
- Amorosi A.
- Amra C.
- Anand S.
- Ananyeva A.
- Anderson Stuart
- Anderson Warren G.
- Andia Manuel
- Ando M.
- Andrade T.
- Andrea Prodi Giovanni
- Andres Nicolas
- Andric Tomislav
- Andrés-Carcasona Marc
- Anglin J.
- Anne Bizouard Marie
- Ansoldi S.
- Antelis Javier M.
- Antier Sarah
- Antoni Ramis Vidal Felip
- Antonietta Palaia Maria
- Antonio Font Roda Jose
- Aoumi M.
- Appavuravther E. Z.
- Appert S.
- Apple S. K.
- Arai Koji
- Araya Akito
- Araya Melody
- Areeda Joseph
- Argianas L. Granda
- Arif Shaikh Md
- Aritomi Naoki
- Armato F.
- Arnaud Nicolas
- Arogeti Megan
- Aronson Scott
- Arun K. G.
- Ashton Gregory
- Aso Yoichi
- Assiduo M.
- Aston S. M.
- Astone Pia
- Aubin Florian
- AVALLONE Guerino
- Babak Stanislav
- Badaracco Francesca
- Badger C.
- Bae Sangwook
- Bagnasco Stefano
- Bagui E.
- Bai Y.
- Baier Jeremy
- Bajpai Rishabh
- Baka T.
- Ball M.
- Ballardin G.
- Ballmer S. W.
- Banagiri Sharan
- Banerjee Biswajit
- Bankar Deepak
- Baral Pratyusava
- Barayoga J. C.
- Barish B. C.
- Barker D.
- Barneo Pablo
- Barone Fabrizio
- Barr Bryan
- Barsotti Lisa
- Barsuglia Matteo
- Barta Dániel
- Barthelmy S. D.
- Barton Mark Andrew
- Bartos I.
- Basak Soummyadip
- Basalaev Artem
- Bassiri Riccardo
- Basti Andrea
- Bawaj Mateusz
- Baxi P.
- Bayley Joseph
- Baylor Amanda
- Bazzan M.
- Bedakihale V. M.
- Beirnaert Freija
- Bejger Michał
- Belardinelli Daniele
- Bell Angus
- Benedetto V.
- Beniwal D.
- Benoit William
- Bentley Joe
- Bera Sayantani
- Berbel Marina
- Bergamin Fabio
- Berger Beverly
- Bernuzzi Sebastiano
- Beroiz Martin
- Bersanetti Diego
- Bertolini A.
- Betzwieser Joseph
- Beveridge Damon
- Bevins Nathaniel
- Bhandare R.
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- Wu David S.
- Wu Hsun-Chung
- Wysocki Daniel
- Xiao Liting
- Xu Victoria
- Xu Yumeng
- Yaala M. Ben
- Yadav Nikesh
- Yakovlev Alexey
- Yamamoto Hiroaki
- Yamamoto Kazuhiro
- Yamamoto M.
- Yamamoto Takahiro
- Yamamoto Takahiro S.
- Yamamura S.
- Yamazaki Ryo
- Yan S.
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- Yang Kate Z.
- Yang L. -C.
- Yang Yi
- Yarbrough Zach
- Yeh S. -W.
- Yelikar A. B.
- Yeung S. M. C.
- Yin X.
- Yokoyama Jun'ichi
- Yokozawa T.
- Yoo Jooheon
- Yu Hang
- Yuzurihara Hirotaka
- Zadrożny A.
- Zahoor Jan Aasim
- Zannelli A. J.
- Zanolin M.
- Zeeshan M.
- Zelenova T.
- Zendri J. -P.
- Zeoli M.
- Zerrad M.
- Zevin Michael
- Zhang A. C.
- Zhang Jue
- Zhang L.
- Zhang Rui
- Zhang T.
- Zhang Ya
- Zhao C.
- Zhao Yue
- Zhao Yuhang
- Zheng Yanyan
- Zhong Haowen
- Zhong S.
- Zhou R.
- Zhu Zong-Hong
- Zucker M. E.
- Zweizig John
- Árpád Gergely László
- 劉 國欽
- 曹周键
- 都丸 隆行
- Publication venue
- Publication date
- 01/03/2024
- Field of study
Among the various candidates for dark matter (DM), ultralight vector DM can be probed by laser interferometric gravitational wave detectors through the measurement of oscillating length changes in the arm cavities. In this context, KAGRA has a unique feature due to differing compositions of its mirrors, enhancing the signal of vector DM in the length change in the auxiliary channels. Here we present the result of a search for U(1)B−L gauge boson DM using the KAGRA data from auxiliary length channels during the first joint observation run together with GEO600. By applying our search pipeline, which takes into account the stochastic nature of ultralight DM, upper bounds on the coupling strength between the U(1)B−L gauge boson and ordinary matter are obtained for a range of DM masses. While our constraints are less stringent than those derived from previous experiments, this study demonstrates the applicability of our method to the lower-mass vector DM search, which is made difficult in this measurement by the short observation time compared to the auto-correlation time scale of DM
Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples
- Author
- A Gordon Robertson
- Abdullah Kahraman
- Abel Gonzalez-Perez
- Adam A Margolin
- Adam Abeshouse
- Adam Grundhoff
- Adam J Struck
- Adam J Struck
- Adam J Wright
- Adam Lambert
- Adam P Butler
- Adam P Butler
- Adel El-Naggar
- Adnan M Nagrial
- Adrian Ally
- Adrian Baez-Ortega
- Adrian Thorogood
- Adriana Salcedo
- Adrienne M Flanagan
- Ake Borg
- Akihiro Fujimoto
- Akihiro Suzuki
- Akinyemi I Ojesina
- Alain Viari
- Alan J Robertson
- Alan P Hoyle
- Alan Thompson
- Alasdair Stenhouse
- Alastair M Thompson
- Aldo Scarpa
- Alessandro Pastore
- Alex Buchanan
- Alex Buchanan
- Alexander Claviez
- Alexander J Lazar
- Alexander Martinez-Fundichely
- Alfonso Muñoz
- Alfonso Valencia
- Aliaksei Z Holik
- Alice Meng
- Alicia L Bruzos
- Allison Creason
- Allison P Heath
- Alvin Wei Tian Ng
- Alvis Brazma
- Amaro Taylor-Weiner
- Amber L Johns
- Amie Radenbaugh
- Amit G Deshwar
- Ana Dueso-Barroso
- Ana Mijalkovic Mijalkovic-Lazic
- Ana Milovanovic
- Ana Milovanovic
- Andre Kahles
- Andrea Haake
- Andrea Holbrook
- Andrea L Richardson
- Andrea Mafficini
- Andrea Ruzzenente
- Andreas Behren
- Andreas Rosenwald
- Andreia V Pinho
- Andrew Berchuck
- Andrew D Cherniack
- Andrew J Dunford
- Andrew J Mungall
- Andrew J Spillane
- Andrew Menzies
- Andrew Menzies
- Andrew P Barbour
- Andrew Tutt
- Andrew V Biankin
- Andrey Korshunov
- Andrés Lanzós
- Andy Cafferkey
- Andy G Lynch
- Angela Chou
- Angela N Brooks
- Angela Tam
- Angelica Ochoa
- Angelika N Christ
- Angelo P Dei Tos
- Anieta M Sieuwerts
- Anil K Sood
- Anita Langerød
- Anja Füllgrabe
- Anke K Bergmann
- Ann-Marie Patch
- Anna deFazio
- Anna Ehinger
- Anna Fitzgerald
- Anne Hamilton
- Anne Vincent-Salomon
- Anne Y Warren
- Anne-Lise Børresen-Dale
- Annegien Broeks
- Anthony DiBiase
- Anthony J Gill
- Anthony Ng
- Anthony R Green
- Antonia L Pritchard
- Antonio Pea
- Antonios Koures
- Aparna Prasad
- Apurva M Hegde
- Aquila Fatima
- Arcadi Navarro
- Arie B Brinkman
- Arif O Harmanci
- Arindam Maitra
- Armando Lopez-Guillermo
- Arndt Borkhardt
- Arnoud Boot
- Asger Hobolth
- Ashley Williams
- Ashton A Connor
- Atul J Butte
- Aurélien Chateigner
- Austin J Hepperla
- Axel Aretz
- Aya Sasaki-Oku
- Ayellet V Segre
- B F Francis Ouellette
- Bailey Matthew H
- Barbara Hutter
- Barbara Hutter
- Barbara Kremeyer
- Bartha M Knoppers
- Beifang Niu
- Beifang Niu
- Beifang Niu
- Benedikt Brors
- Benita Kiat Tee Tan
- Benjamin J Raphael
- Benjamin P Berman
- Benjamin Raeder
- Bernardo Rodriguez-Martin
- Bernhard Radlwimmer
- Bernice H Wong
- Beth Karlan
- Bin Tean Teh
- Bin Zhu
- Birgit Burkhardt
- Bishoy M Faltas
- Bodil Bjerkehagen
- Bogdan Czerniak
- Boris Winterhoff
- Borislav C Rusev
- Bradly G Wouters
- Brandi N Davis-Dusenbery
- Brian Craft
- Brian D O'Connor
- Brian Patrick O'Neill
- Brice Aminou
- Calvin Wing Yiu Chan
- Cameron M Soulette
- Carl Herrmann
- Carl Morrison
- Carlo Gambacorti-Passerini
- Carlos Caldas
- Carlos D Bustamante
- Carlos López-Otín
- Carlota Rubio-Perez
- Carmen Gomez
- Carolien H M van Deurzen
- Carolyn M Hutter
- Carolyn M Hutter
- Carrie Cibulskis
- Caterina Vicentini
- Catherine A Shang
- Catherine D Moser
- Catherine J Kennedy
- Catrina C Fronick
- Chad J Creighton
- Chandra Sekhar Pedamallu
- Chang Li
- Charles David Imbusch
- Charles M Perou
- Charles Saller
- Charles Short
- Charlie E Massie
- Chawalit Pairojkul
- Chen Hong
- Chen Ye
- Cheng-Zhong Zhang
- Chin-Lee Wu
- Chip Stewart
- Chip Stewart
- Chip Stewart
- Choon Kiat Ong
- Chris Lawerenz
- Chris Mitchell
- Chris Sander
- Christian von Mering
- Christiane Buchholz
- Christina K Yung
- Christina K Yung
- Christina Yau
- Christine A Iacobuzio-Donahue
- Christine Chomienne
- Christine Desmedt
- Christine P'ng
- Christof von Kalle
- Christoph Borst
- Christoph Plass
- Christopher A Miller
- Christopher Benz
- Christopher J Scarlett
- Christopher J Yoon
- Christopher K Wong
- Christopher M Lalansingh
- Christopher M Lalansingh
- Christopher Ogden
- Christopher S Foster
- Christopher Umbricht
- Christopher W Toon
- Christos Sotiriou
- Cindy Bell
- Cinzia Cantù
- Ciyue Shen
- Claes Wadelius
- Clare Verrill
- Clarissa Gerhauser
- Claudia Calabrese
- Claudio Bassi
- Claudio Luchini
- Claudiu Farcas
- Clemency Jolly
- Colin A Purdie
- Colin A Semple
- Colin C Collins
- Colin S Cooper
- Conrad R Leonard
- Constance H Li
- Corbin D Jones
- Craig Shriver
- Cristina López
- Cyriac Kandoth
- Cyril Fisher
- D Neil Hayes
- Dai-Ying Wu
- Daiming Fan
- Daisuke Komura
- Dale W Garsed
- Daniel A Leongamornlert
- Daniel Baumhoer
- Daniel Hübschmann
- Daniel J Turner
- Daniel J Weisenberger
- Daniel M Berney
- Daniel Rosebrock
- Daniel S Brewer
- Daniela S Gerhard
- Danielle Pasternack
- Darell Bigner
- Dariush Etemadmoghadam
- Darlene Lee
- Darrin F Taylor
- Dave Larson
- David A Wheeler
- David A Wheeler
- David C Wedge
- David Craft
- David D L Bowtell
- David E Neal
- David Haan
- David Haussler
- David Haussler
- David Hedley
- David Huntsman
- David I Heiman
- David J Adams
- David J Van Den Berg
- David K Chang
- David K Miller
- David Khoo
- David Mutch
- David N Louis
- David Nicol
- David Ocana
- David R Jones
- David R Jones
- David Scott
- David T Bowen
- David T W Jones
- David Tamborero
- David Torrents
- David Torrents
- David Townend
- David Vicente
- Davide Antonello
- Declan Cahill
- Denis Larsimont
- Denis Yuen
- Denise Brooks
- Deniz Demircioğlu
- Dennis C Sgroi
- Dennis Karsch
- Dennis T Maglinte
- Dennis Wigle
- Derek W Wright
- Dianne E Chadwick
- Dido Lenze
- Dieter Kube
- Dieter Weichenhan
- Dilip D Giri
- Dimitri Livitz
- Dimitri Livitz
- Dimple Chakravarty
- Ding
- Dirk Schadendorf
- Dmitry A Gordenin
- Dominik Glodzik
- Don Chalmers
- Dong Guanlan
- Dongbing Liu
- Donghoon Lee
- Donghui Tan
- Donna M Muzny
- Dorthe Grabau
- Douglas A Levine
- Douglas F Easton
- Douglas Voet
- Duncan Beardsmore
- Dursi Lewis Jonathan
- Edward W Rowe
- Eigo Shimizu
- Ekta Khurana
- Elaine R Mardis
- Electron Kebebew
- Elena Piñeiro-Yáñez
- Elena Provenzano
- Elias Campo
- Elisabet Barrera
- Elisabetta Sereni
- Elizabeth A Musgrove
- Elizabeth L Appelbaum
- Elizabeth L Christie
- Elli Papaemmanuil
- Ellrott Kyle
- Emilie Lalonde
- Eoghan Harrington
- Eric Chuah
- Eric Green
- Eric Lander
- Eric Minwei Liu
- Eric Z Ma
- Eric Z Ma
- Erik Garrison
- Erik Larsson
- Erik Mayer
- Erik N Bergstrom
- Erin Curley
- Ermin Hodzic
- Erwin G Van Meir
- Esa Pitkänen
- Esther Rheinbay
- Esther Rheinbay
- Eun Pyo Hong
- Eunjung Alice Lee
- Eva G Alvarez
- Eva Hellstrom-Lindberg
- Ewan Birney
- F Germán Rodríguez-González
- Fabien C Lamaze
- Fabien Calvo
- Fabio C P Navarro
- Faiyaz Notta
- Fan Yang
- Fan Zhang
- Faraz Hach
- Faraz Hach
- Faridah Mbabaali
- Fatima Al-Shahrour
- Federico Abascal
- Fei-Fei Liu
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- Zhenggang Wu
- Zhining Wang
- Zhongming Zhao
- Ziao Lin
- Zsofia Kote-Jarai
- Ólafur Andri Stefánsson
- Øystein Garred
- Publication venue
- Nature Communications
- Publication date
- 01/01/2020
- Field of study
Funder: NCI U24CA211006Abstract: The Cancer Genome Atlas (TCGA) and International Cancer Genome Consortium (ICGC) curated consensus somatic mutation calls using whole exome sequencing (WES) and whole genome sequencing (WGS), respectively. Here, as part of the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium, which aggregated whole genome sequencing data from 2,658 cancers across 38 tumour types, we compare WES and WGS side-by-side from 746 TCGA samples, finding that ~80% of mutations overlap in covered exonic regions. We estimate that low variant allele fraction (VAF < 15%) and clonal heterogeneity contribute up to 68% of private WGS mutations and 71% of private WES mutations. We observe that ~30% of private WGS mutations trace to mutations identified by a single variant caller in WES consensus efforts. WGS captures both ~50% more variation in exonic regions and un-observed mutations in loci with variable GC-content. Together, our analysis highlights technological divergences between two reproducible somatic variant detection efforts
Proliferation and Survival of Activated B Cells Requires Sustained Antigen Receptor Engagement and Phosphoinositide 3-Kinase Activation
- Publication venue
- 'The American Association of Immunologists'
- Publication date
- Field of study
Detection, Comprehensive Analysis and Clinical Validation of Chromosomal Aberrations by Multiplex Ligation-Dependent Probe Amplification In Chronic Lymphocytic Leukemia
- Publication venue
- 'American Society of Hematology'
- Publication date
- Field of study