22 research outputs found
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Integration of multiple epigenomic marks improves prediction of variant impact in saturation mutagenesis reporter assay
- Author
- Adato Orit
- Adhikari Aashish N.
- Ahituv Nadav
- Beer Michael A.
- Boyle Alan P.
- Dong Shengcheng
- Hawkinsâhooker Alex
- Inoue Fumitaka
- Juvenâgershon Tamar
- Kenlay Henry
- Kircher Martin
- Kreimer Anat
- Kulakovskiy Ivan V.
- Martin Beth
- Patra Ayoti
- Penzar Dmitry D.
- Reid John
- Schubach Max
- Shendure Jay
- Shigaki Dustin
- Unger Ron
- Xiong Chenling
- Yan Zhongxia
- Yosef Nir
- Publication venue
- 'Wiley'
- Publication date
- 01/09/2019
- Field of study
The integrative analysis of highĂą throughput reporter assays, machine learning, and profiles of epigenomic chromatin state in a broad array of cells and tissues has the potential to significantly improve our understanding of noncoding regulatory element function and its contribution to human disease. Here, we report results from the CAGI 5 regulation saturation challenge where participants were asked to predict the impact of nucleotide substitution at every base pair within five diseaseĂą associated human enhancers and nine diseaseĂą associated promoters. A library of mutations covering all bases was generated by saturation mutagenesis and altered activity was assessed in a massively parallel reporter assay (MPRA) in relevant cell lines. Reporter expression was measured relative to plasmid DNA to determine the impact of variants. The challenge was to predict the functional effects of variants on reporter expression. Comparative analysis of the full range of submitted prediction results identifies the most successful models of transcription factor binding sites, machine learning algorithms, and ways to choose among or incorporate diverse datatypes and cellĂą types for training computational models. These results have the potential to improve the design of future studies on more diverse sets of regulatory elements and aid the interpretation of diseaseĂą associated genetic variation.Peer Reviewedhttps://deepblue.lib.umich.edu/bitstream/2027.42/151884/1/humu23797_am.pdfhttps://deepblue.lib.umich.edu/bitstream/2027.42/151884/2/humu23797.pd
The landscape of tolerated genetic variation in humans and primates
- Author
- Abee Christian
- Adhikari Aashish
- Agueda Lidia
- Aguet Francois
- Amaral JoĂŁo Valsecchi do
- Andriaholinirina Nicole
- Balick Daniel
- Bataillon Thomas
- Batzoglou Serafim
- Beck Robin M. D.
- Bergman Juraj
- Bertuol FabrĂcio
- Blanc Julie
- Boubli Jean P.
- Byrne Hazel
- Chen Chen
- Chuma Idriss S.
- Dietrich Anastasia S. D.
- Ede Jeffrey
- Farh Kyle Kai-How
- Farias Izeni
- Fernandez-Duque Eduardo
- Field Yair
- Fiziev Petko P.
- Frandsen Peter
- Gao Hong
- Goodhead Ian
- Guschanski Katerina
- Gut Ivo
- Gut Marta
- Hamp Tobias
- Harris R. Alan
- Horvath Julie E.
- Hrbek Tomas
- Hvilsom Christina
- Janiak Mareike C.
- Jensen Axel
- Jolly Clifford J.
- Juan David
- Kanthaswamy Sree
- Keyyu Julius D.
- Khor Chiea Chuen
- Kitchener Andrew C.
- Knauf Sascha
- Kuderna Lukas F. K.
- Kuhlwilm Martin
- Le Minh D.
- Lee Jessica
- Lek Monkol
- Lemire Gabrielle
- Lim Weng Khong
- Lizano Esther
- Manu Shivakumara
- Marques-Bonet Tomas
- McRae Jeremy
- Melin Amanda
- Melo Fabiano R. de
- Merker Stefan
- Messias Mariluce
- Nadler Tilo
- Navarro Arcadi
- Orkin Joseph D.
- OâDonnell-Luria Anne
- Phillips-Conroy Jane
- Rabarivola Clément J.
- Raveendran Muthuswamy
- Rehm Heidi L.
- Reimers Rebecca
- Rogers Jeffrey
- Roos Christian
- Rossi Rogerio
- Rousselle Marjolaine
- Sampaio Iracilda
- Schierup Mikkel Heide
- Schraiber Joshua G.
- Shao Yong
- Shiferaw Fekadu
- Silva Felipe Ennes
- Silva Maria N. F. da
- Simmons Joe H.
- Singer-Berk Moriel
- Sundaram Laksshman
- Sunyaev Shamil
- Tan Patrick
- Trivedi Mihir
- Umapathy Govindhaswamy
- Valenzuela Alejandro
- Vries Dorien de
- Wilkerson Gregory
- Wu Dongdong
- Wu Yibing
- Xu Jinbo
- Yang Yanshen
- Zaramody Alphonse
- Zhang Guojie
- Zhou Long
- Zinner Dietmar
- Publication venue
- Publication date
- 02/06/2023
- Field of study
Global, regional, and national burden of colorectal cancer and its risk factors, 1990â2019: a systematic analysis for the Global Burden of Disease Study 2019
- Author
- Abbasi-kangevari  Mohsen
- Abd-rabu  Rami
- Abidi  Hassan
- Abu-gharbieh  Eman
- Acuna  Juan Manuel
- Adhikari  Sangeet
- Advani  Shailesh M
- Afzal  Muhammad Sohail
- Aghaie Meybodi  Mohamad
- Ahinkorah  Bright Opoku
- Ahmad  Sajjad
- Ahmadi  Ali
- Ahmadi  Sepideh
- Ahmed  Haroon
- Ahmed  Luai A
- Ahmed  Muktar Beshir
- Al Hamad  Hanadi
- Al-raddadi  Rajaa M
- Alahdab  Fares
- Alanezi  Fahad Mashhour
- Alanzi  Turki M
- Alhalaiqa  Fadwa Alhalaiqa Naji
- Alimohamadi  Yousef
- Alipour  Vahid
- Aljunid  Syed Mohamed
- Alkhayyat  Motasem
- Almustanyir  Sami
- Alvand  Saba
- Alvis-guzman  Nelson
- Amini  Saeed
- Ancuceanu  Robert
- Anoushiravani  Amir
- Anoushirvani  Ali Arash
- Ansari-moghaddam  Alireza
- Arabloo  Jalal
- Aryannejad  Armin
- Asghari Jafarabadi  Mohammad
- Athari  Seyyed Shamsadin
- Ausloos  Floriane
- Ausloos  Marcel
- Awedew  Atalel Fentahun
- Awoke  Mamaru Ayenew
- Ayana  Tegegn Mulatu
- Azadnajafabad  Sina
- Azami  Hiva
- Azangou-khyavy  Mohammadreza
- Azari Jafari  Amirhossein
- Badiye  Ashish D
- Bagherieh  Sara
- Bahadory  Saeed
- Baig  Atif Amin
- Baker  Jennifer L
- Banach  Maciej
- Barrow  Amadou
- Berhie  Alemshet Yirga
- Besharat  Sima
- Bhagat  Devidas S
- Bhagavathula  Akshaya Srikanth
- Bhala  Neeraj
- Bhattacharyya  Krittika
- Bhojaraja  Vijayalakshmi S
- Bibi  Sadia
- Bijani  Ali
- Biondi  Antonio
- BjÞrge  Tone
- Bodicha  Belay Boda Abule
- Braithwaite  Dejana
- Brenner  Hermann
- Calina  Daniela
- Cao  Chao
- Cao  Yin
- Carreras  Giulia
- Carvalho  Felix
- Cerin  Ester
- Chakinala  Raja Chandra
- Cho  William C S
- Chu  Dinh-toi
- Conde  Joao
- Costa  Vera Marisa
- Cruz-martins  Natålia
- Dadras  Omid
- Dai  Xiaochen
- Dandona  Lalit
- Dandona  Rakhi
- Danielewicz  Anna
- Demeke  Feleke Mekonnen
- Demissie  Getu Debalkie
- Desai  Rupak
- Dhamnetiya  Deepak
- Dianatinasab  Mostafa
- Diaz  Daniel
- Didehdar  Mojtaba
- Doaei  Saeid
- Doan  Linh Phuong
- Dodangeh  Milad
- Eghbalian  Fatemeh
- Ejeta  Debela Debela
- Ekholuenetale  Michael
- Ekundayo  Temitope Cyrus
- El Sayed  Iman
- Elhadi  Muhammed
- Enyew  Daniel Berhanie
- Eyayu  Tahir
- Ezzeddini  Rana
- Fakhradiyev  Ildar Ravisovich
- Farooque  Umar
- Farrokhpour  Hossein
- Farzadfar  Farshad
- Fatehizadeh  Ali
- Fattahi  Hamed
- Fattahi  Nima
- Fereidoonnezhad  Masood
- Fernandes  Eduarda
- Fetensa  Getahun
- Filip  Irina
- Fischer  Florian
- Foroutan  Masoud
- Gaal  Peter Andras
- Gad  Mohamed M
- Gallus  Silvano
- Garg  Tushar
- Getachew  Tamiru
- Ghamari  Seyyed-hadi
- Ghashghaee  Ahmad
- Ghith  Nermin
- Gholamalizadeh  Maryam
- Gholizadeh Navashenaq  Jamshid
- Gizaw  Abraham Tamirat
- Glasbey  James C
- Golechha  Mahaveer
- Goleij  Pouya
- Gonfa  Kebebe Bekele
- Gorini  Giuseppe
- Guha  Avirup
- Gupta  Sapna
- Gupta  Veer Bala
- Gupta  Vivek Kumar
- Haddadi  Rasool
- Hafezi-nejad  Nima
- Haj-mirzaian  Arvin
- Halwani  Rabih
- Haque  Shafiul
- Hariri  Sanam
- Hasaballah  Ahmed I
- Hassanipour  Soheil
- Hay  Simon I
- Herteliu  Claudiu
- Holla  Ramesh
- Hosseini  Mohammad-salar
- Hosseinzadeh  Mehdi
- Hostiuc  Mihaela
- Househ  Mowafa
- Huang  Junjie
- Humayun  Ayesha
- Iavicoli  Ivo
- Ilesanmi  Olayinka Stephen
- Ilic  Irena M
- Ilic  Milena D
- Islami  Farhad
- Iwagami  Masao
- Jahani  Mohammad Ali
- Jakovljevic  Mihajlo
- Javaheri  Tahereh
- Jayawardena  Ranil
- Jebai  Rime
- Jha  Ravi Prakash
- Joo  Tamas
- Joseph  Nitin
- Joukar  Farahnaz
- Jozwiak  Jacek Jerzy
- Kabir  Ali
- Kalhor  Rohollah
- Kamath  Ashwin
- Kapoor  Neeti
- Karaye  Ibraheem M
- Karimi  Amirali
- Kauppila  Joonas H
- Kazemi  Asma
- Keykhaei  Mohammad
- Khader  Yousef Saleh
- Khajuria  Himanshu
- Khalilov  Rovshan
- Khanali  Javad
- Khayamzadeh  Maryam
- Khodadost  Mahmoud
- Kim  Hanna
- Kim  Min Seo
- Kisa  Adnan
- Kisa  Sezer
- Kolahi  Ali-asghar
- Koohestani  Hamid Reza
- Kopec  Jacek A
- Koteeswaran  Rajasekaran
- Koyanagi  Ai
- Krishnamoorthy  Yuvaraj
- Kumar  G Anil
- Kumar  Manoj
- Kumar  Vivek
- La Vecchia  Carlo
- Lami  Faris Hasan
- Landires  Ivån
- Ledda  Caterina
- Lee  Sang-woong
- Lee  Wei-chen
- Lee  Yeong Yeh
- Leong  Elvynna
- Li  Bingyu
- Lim  Stephen S
- Lobo  Stany W
- Loureiro  Joana A
- Lunevicius  Raimundas
- Madadizadeh  Farzan
- Mahmoodpoor  Ata
- Majeed  Azeem
- Malekpour  Mohammad-reza
- Malekzadeh  Reza
- Malik  Ahmad Azam
- Mansour-ghanaei  Fariborz
- Mantovani  Lorenzo Giovanni
- Martorell  Miquel
- Masoudi  Sahar
- Mathur  Prashant
- Meena  Jitendra Kumar
- Mehrabi Nasab  Entezar
- Mendoza  Walter
- Mentis  Alexios-fotios A
- Mestrovic  Tomislav
- Miao Jonasson  Junmei
- Miazgowski  Bartosz
- Miazgowski  Tomasz
- Mijena  Gelana Fekadu Worku
- Mirmoeeni  Seyyedmohammadsadeq
- Mirza-aghazadeh-attari  Mohammad
- Mirzaei  Hamed
- Misra  Sanjeev
- Mohammad  Karzan Abdulmuhsin
- Mohammadi  Esmaeil
- Mohammadi  Saeed
- Mohammadi  Seyyede Momeneh
- Mohammadian-hafshejani  Abdollah
- Mohammed  Shafiu
- Mohammed  Teroj Abdulrahman
- Moka  Nagabhishek
- Mokdad  Ali H
- Mokhtari  Zeinab
- Molokhia  Mariam
- Momtazmanesh  Sara
- Monasta  Lorenzo
- Moradi  Ghobad
- Moradzadeh  Rahmatollah
- Moraga  Paula
- Morgado-da-costa  Joana
- Mubarik  Sumaira
- Mulita  Francesk
- Naghavi  Mohsen
- Naimzada  Mukhammad David
- Nam  Hae Sung
- Natto  Zuhair S
- Nayak  Biswa Prakash
- Nazari  Javad
- Nazemalhosseini-mojarad  Ehsan
- Negoi  Ionut
- Nguyen  Cuong Tat
- Nguyen  Son Hoang
- Noor  Nurulamin M
- Noori  Maryam
- Noori  Seyyed Mohammad Ali
- Nuñez-samudio  Virginia
- Nzoputam  Chimezie Igwegbe
- Oancea  Bogdan
- Odukoya  Oluwakemi Ololade
- Oguntade  Ayodipupo Sikiru
- Okati-aliabad  Hassan
- Olagunju  Andrew T
- Olagunju  Tinuke O
- Ong  Sokking
- Ostroff  Samuel M
- Padron-monedero  Alicia
- Pakzad  Reza
- Pana  Adrian
- Pandey  Anamika
- Pashazadeh Kan  Fatemeh
- Patel  Urvish K
- Paudel  Uttam
- Pereira  Renato B
- Perumalsamy  Navaraj
- Pestell  Richard G
- Piracha  Zahra Zahid
- Pollok  Richard Charles G
- Pourshams  Akram
- Pourtaheri  Naeimeh
- Prashant  Akila
- Rabiee  Mohammad
- Rabiee  Navid
- Radfar  Amir
- Rafiei  Sima
- Rahman  Mosiur
- Rahmani  Amir Masoud
- Rahmanian  Vahid
- Rajai  Nazanin
- Rajesh  Aashish
- Ramezani-doroh  Vajiheh
- Ramezanzadeh  Kiana
- Ranabhat  Kamal
- Rashedi  Sina
- Rashidi  Amirfarzan
- Rashidi  Mahsa
- Rashidi  Mohammad-mahdi
- Rastegar  Mandana
- Rawaf  David Laith
- Rawaf  Salman
- Rawassizadeh  Reza
- Razeghinia  Mohammad Sadegh
- Renzaho  Andre M N
- Rezaei  Negar
- Rezaei  Nima
- Rezaei  Saeid
- Rezaeian  Mohsen
- Rezazadeh-khadem  Sahba
- Roshandel  Gholamreza
- Saber-ayad  Maha Mohamed
- Saberzadeh-ardestani  Bahar
- Saddik  Basema
- Sadeghi  Hossein
- Saeed  Umar
- Sahebazzamani  Maryam
- Sahebkar  Amirhossein
- Salek Farrokhi  Amir
- Salimi  Amir
- Salimzadeh  Hamideh
- Samadi  Pouria
- Samaei  Mehrnoosh
- Samy  Abdallah M
- Sanabria  Juan
- Santric-milicevic  Milena M
- Saqib  Muhammad Arif Nadeem
- Sarveazad  Arash
- Sathian  Brijesh
- Satpathy  Maheswar
- Schneider  Ione Jayce Ceola
- Sepanlou  Sadaf G
- Seylani  Allen
- Sha  Feng
- Shafiee  Sayed Mohammad
- Shaghaghi  Zahra
- Shahabi  Saeed
- Shaker  Elaheh
- Sharifi-rad  Javad
- Sharifian  Maedeh
- Sharma  Rajesh
- Sheikhbahaei  Sara
- Shetty  Jeevan K
- Shirkoohi  Reza
- Shobeiri  Parnian
- Siddappa Malleshappa  Sudeep K
- Silva Julian  Guilherme
- Silva  Diego Augusto Santos
- Singh  Achintya Dinesh
- Singh  Jasvinder A
- Siraj  Md Shahjahan
- Sivandzadeh  Gholam Reza
- Skryabin  Valentin Yurievich
- Skryabina  Anna Aleksandrovna
- Socea  Bogdan
- Solmi  Marco
- Soltani-zangbar  Mohammad Sadegh
- Song  Suhang
- Szerencsés  Viktória
- Szócska  Miklós
- Tabarés-seisdedos  Rafael
- Tabibian  Elnaz
- Taheri  Majid
- Taheriabkenar  Yasaman
- Taherkhani  Amir
- Talaat  Iman M
- Tan  Ker-kan
- Tbakhi  Abdelghani
- Tesfaye  Bekele
- Tiyuri  Amir
- Tollosa  Daniel Nigusse
- Touvier  Mathilde
- Tran  Bach Xuan
- Tusa  Biruk Shalmeno
- Ullah  Irfan
- Ullah  Saif
- Vacante  Marco
- Valadan Tahbaz  Sahel
- Veroux  Massimiliano
- Vo  Bay
- Vos  Theo
- Wang  Cong
- Westerman  Ronny
- Woldemariam  Melat
- Yahyazadeh Jabbari  Seyed Hossein
- Yang  Lin
- Yazdanpanah  Fereshteh
- Yu  Chuanhua
- Yuce  Deniz
- Yunusa  Ismaeel
- Zadnik  Vesna
- Zahir  Mazyar
- Zare  Iman
- Zhang  Zhi-jiang
- Zoladl  Mohammad
- Ć ekerija  Mario
- Publication venue
- 'Elsevier BV'
- Publication date
- 01/01/2022
- Field of study
Funding: F Carvalho and E Fernandes acknowledge support from Fundação para a CiĂȘncia e a Tecnologia, I.P. (FCT), in the scope of the project UIDP/04378/2020 and UIDB/04378/2020 of the Research Unit on Applied Molecular Biosciences UCIBIO and the project LA/P/0140/2020 of the Associate Laboratory Institute for Health and Bioeconomy i4HB; FCT/MCTES through the project UIDB/50006/2020. J Conde acknowledges the European Research Council Starting Grant (ERC-StG-2019-848325). V M Costa acknowledges the grant SFRH/BHD/110001/2015, received by Portuguese national funds through Fundação para a CiĂȘncia e Tecnologia (FCT), IP, under the Norma TransitĂłria DL57/2016/CP1334/CT0006.proofepub_ahead_of_prin
The landscape of tolerated genetic variation in humans and primates.
- Author
- Abee Christian
- Adhikari Aashish
- Agueda Lidia
- Aguet Francois
- Andriaholinirina Nicole
- Balick Daniel
- Bataillon Thomas
- Batzoglou Serafim
- Beck Robin M D
- Bergman Juraj
- Bertuol FabrĂcio
- Blanc Julie
- Boubli Jean P
- Byrne Hazel
- Chen Chen
- Chuma Idriss S
- da Silva Maria N F
- de Melo Fabiano R
- de Vries Dorien
- Dietrich Anastasia S D
- do Amaral JoĂŁo Valsecchi
- Ede Jeffrey
- Farh Kyle Kai-How
- Farias Izeni
- Fernandez-Duque Eduardo
- Field Yair
- Fiziev Petko P
- Frandsen Peter
- Gao Hong
- Goodhead Ian
- Guschanski Katerina
- Gut Ivo
- Gut Marta
- Hamp Tobias
- Harris R Alan
- Horvath Julie E
- Hrbek Tomas
- Hvilsom Christina
- Janiak Mareike C
- Jensen Axel
- Jolly Clifford J
- Jolly Clifford J.
- Juan David
- Kanthaswamy Sree
- Keyyu Julius D
- Khor Chiea Chuen
- Kitchener Andrew C
- Knauf Sascha
- Kuderna Lukas F K
- Kuhlwilm Martin
- Le Minh D
- Lee Jessica
- Lek Monkol
- Lemire Gabrielle
- Lim Weng Khong
- Lizano Esther
- Manu Shivakumara
- Marques-Bonet Tomas
- McRae Jeremy
- Melin Amanda
- Merker Stefan
- Messias Mariluce
- Nadler Tilo
- Navarro Arcadi
- O'Donnell-Luria Anne
- Orkin Joseph D
- Phillips-Conroy Jane
- Rabarivola Clément J
- Rabarivola Clément J.
- Raveendran Muthuswamy
- Rehm Heidi L
- Reimers Rebecca
- Rogers Jeffrey
- Roos Christian
- Rossi Rogerio
- Rousselle Marjolaine
- Sampaio Iracilda
- Schierup Mikkel Heide
- Schraiber Joshua G
- Schraiber Joshua G.
- Shao Yong
- Shiferaw Fekadu
- Silva Felipe Ennes
- Simmons Joe H
- Singer-Berk Moriel
- Sundaram Laksshman
- Sunyaev Shamil
- Tan Patrick
- Trivedi Mihir
- Umapathy Govindhaswamy
- Valenzuela Alejandro
- Wilkerson Gregory
- Wu Dongdong
- Wu Yibing
- Xu Jinbo
- Yang Yanshen
- Zaramody Alphonse
- Zhang Guojie
- Zhou Long
- Zinner Dietmar
- Publication venue
- American Association for the Advancement of Science
- Publication date
- 02/06/2023
- Field of study
Personalized genome sequencing has revealed millions of genetic differences between individuals, but our understanding of their clinical relevance remains largely incomplete. To systematically decipher the effects of human genetic variants, we obtained whole-genome sequencing data for 809 individuals from 233 primate species and identified 4.3 million common protein-altering variants with orthologs in humans. We show that these variants can be inferred to have nondeleterious effects in humans based on their presence at high allele frequencies in other primate populations. We use this resource to classify 6% of all possible human protein-altering variants as likely benign and impute the pathogenicity of the remaining 94% of variants with deep learning, achieving state-of-the-art accuracy for diagnosing pathogenic variants in patients with genetic diseases
Observation of gravitational waves from the coalescence of a 2.5â4.5 Mâ compact object and a neutron star
- Author
- Abac Adrian
- Abbott R.
- Abouelfettouh I.
- Acernese F.
- Ackley Kendall
- Adhicary S.
- Adhikari Naresh
- Adhikari Rana X.
- Adkins V. K.
- Afif Ismail M.
- Agarwal Deepali
- Agathos Michalis
- Aghaei Abchouyeh Maryam
- Aguiar Odylio D.
- Aguilar I.
- Aiello Lorenzo
- Ain Anirban
- Ajith Parameswaran
- Akcay Sarp
- Akseli Hannuksela Otto
- Akutsu Tomotada
- Al-Jodah Ammar
- Al-Shammari S.
- Albanesi Simone
- Alex iandolo Guido
- Alfaidi Reem Atallah E
- Allocca Annalisa
- Alléné C.
- Altin Paul
- Alvarez-Lopez Sofia
- Amato Alex
- Amez-Droz L.
- Amorosi A.
- Amra C.
- Ananyeva A.
- Anderson Stuart
- Anderson Warren G.
- Andia Manuel
- Ando M.
- Andrade T.
- Andrea Prodi Giovanni
- Andres Nicolas
- Andric Tomislav
- Andrés Vallejo Peña Sergio
- Andrés-Carcasona Marc
- Anglin J.
- Anne Bizouard Marie
- Ansoldi Stefano
- 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.
- Arif Shaikh Md
- Aritomi N.
- Armato Federico
- Arnaud Nicolas
- Arogeti Megan
- Aronson Scott
- Arun K. G.
- Ashton Gregory
- Aso Yoichi
- Assiduo M.
- Aston S. M.
- Astone Pia
- Attadio Francesca
- Aubin Florian
- AVALLONE Guerino
- Azrad D.
- Babak Stanislav
- Badaracco Francesca
- Badger C.
- Bae Sangwook
- Bagnasco Stefano
- Bagui E.
- Baier Jeremy
- Baiotti Luca
- 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
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- Zweizig John
- ĂrpĂĄd Gergely LĂĄszlĂł
- ć ćæŹœ
- éœäžž éèĄ
- Publication venue
- Publication date
- 23/04/2024
- Field of study
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.
- ArĂšne 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 DĂĄniel
- Bartlett J.
- Barton Mark Andrew
- Bartos I.
- Basak S.
- Bassiri Riccardo
- Basti A.
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- Beatrice Cummings Rebecca
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- Beirnaert Freija
- Bejger MichaĆ
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- Cella Giancarlo
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- Chalathadka Subrahmanya Shreevathsa
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- Chapman-Bird Christian
- Charlton Philip
- CHASSANDE-MOTTIN Eric
- Chatterjee Chayan
- Chatterjee Debarati
- Chatterjee Deep
- Chaturvedi M.
- Chaty Sylvain
- Chatziioannou Katerina
- Chen ChianShu
- Chen Dan
- Chen Hsin-Yu
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- Cheng H.
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- Creighton Jolien
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- Dabadie P.
- Dal Canton Tito
- DALL'OSSO Simone
- Dana A.
- Danilishin Stefan
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- Zhao Yuhang
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- Zhu Xingjiang
- Zhu Zong-Hong
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- ĂrpĂĄd Gergely LĂĄszlĂł
- ć ćæŹœ
- æčćšéź
- çè°š
- éœäžž éèĄ
- 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.
- Andia Manuel
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- Andrea Prodi Giovanni
- Andres Nicolas
- Andric Tomislav
- Andrés-Carcasona Marc
- Anne Bizouard Marie
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- Antier Sarah
- Antonio Font Roda Jose
- Aoumi M.
- Apostolatos T.
- Appavuravther E. Z.
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- Aronson Scott
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- Karki Sudarshan
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- Lin Chun-Yu
- Lin En-Tzu
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- Warner J.
- Was Michal
- Washimi Tatsuki
- Washington N. Y.
- Watada K.
- Watarai D.
- Wayt K. E.
- Weaver B.
- Weaving C. R.
- Webster S. A.
- Weinert M.
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- Won Lee Hyung
- Won Seo Jin
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- Wu Hsun-Chung
- Wysocki Daniel
- Xiao Liting
- Xu Victoria
- Yaala M. Ben
- Yadav Nikesh
- Yakovlev Alexey
- Yamamoto Hiroaki
- Yamamoto Kazuhiro
- Yamamoto M.
- Yamamoto Takahiro
- Yamamoto Takahiro S.
- Yamamura S.
- Yamazaki Ryo
- Yan S.
- Yang Fengwei
- Yang Kate Z.
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- Yang Y. -C.
- Yang Yang
- Yang Yi
- Yap M. J.
- Yarbrough Zach
- Yeh S. -W.
- Yelikar A. B.
- Yeung S. M. C.
- Yeung T. Y.
- Yokoyama Jun'ichi
- Yokozawa T.
- Yoo Jooheon
- Yu Hang
- Yuzurihara Hirotaka
- ZadroĆŒny A.
- Zahoor Jan Aasim
- Zannelli A. J.
- Zanolin M.
- Zeeshan M.
- Zelenova T.
- Zendri J. -P.
- Zevin Michael
- Zhang Jue
- Zhang L.
- Zhang Rui
- Zhang T.
- Zhang Ya
- Zhang Yanqi
- Zhao C.
- Zhao Yue
- Zhao Yuhang
- Zheng Yanyan
- Zhong Haowen
- Zhou R.
- Zhu Zong-Hong
- Zimmerman Aaron
- Zucker M. E.
- Zweizig John
- Ălvarez-LĂłpez S.
- ĂrpĂĄd Gergely LĂĄszlĂł
- ć ćæŹœ
- æčćšéź
- éœäžž éèĄ
- 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 Mâ) 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<eâ€0.3 at 0.33 Gpcâ3 yrâ1 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
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- Zheng Yanyan
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- Zweizig John
- ĂrpĂĄd Gergely LĂĄszlĂł
- ć ćæŹœ
- æčćšéź
- éœäžž éèĄ
- 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)BâL 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)BâL 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
Genomic Analysis of Historical Cases with Positive Newborn Screens for Short-Chain Acyl-CoA Dehydrogenase Deficiency Shows That a Validated Second-Tier Biochemical Test Can Replace Future Sequencing
- Author
- Publication venue
- Publication date
- 26/05/2020
- Field of study
Short-chain acyl-CoA dehydrogenase deficiency (SCADD) is a rare autosomal recessive disorder of β-oxidation caused by pathogenic variants in the ACADS gene. Analyte testing for SCADD in blood and urine, including newborn screening (NBS) using tandem mass spectrometry (MS/MS) on dried blood spots (DBSs), is complicated by the presence of two relatively common ACADS variants (c.625G>A and c.511C>T). Individuals homozygous for these variants or compound heterozygous do not have clinical disease but do have reduced short-chain acyl-CoA dehydrogenase (SCAD) activity, resulting in elevated blood and urine metabolites. As part of a larger study of the potential role of exome sequencing in NBS in California, we reviewed ACADS sequence and MS/MS data from DBSs from a cohort of 74 patients identified to have SCADD. Of this cohort, approximately 60% had one or more of the common variants and did not have the two rare variants, and thus would need no further testing. Retrospective analysis of ethylmalonic acid, glutaric acid, 2-hydroxyglutaric acid, 3-hydroxyglutaric acid, and methylsuccinic acid demonstrated that second-tier testing applied before the release of the newborn screening result could reduce referrals by over 50% and improve the positive predictive value for SCADD to above 75%
The Use of Whole Genome and Exome Sequencing for Newborn Screening: Challenges and Opportunities for Population Health.
- Publication venue
- eScholarship, University of California
- Publication date
- 01/01/2021
- Field of study
Newborn screening (NBS) is a population-based program with a goal of reducing the burden of disease for conditions with significant clinical impact on neonates. Screening tests were originally developed and implemented one at a time, but newer methods have allowed the use of multiplex technologies to expand additions more rapidly to standard panels. Recent improvements in next-generation sequencing are also evolving rapidly from first focusing on individual genes, then panels, and finally all genes as encompassed by whole exome and genome sequencing. The intersection of these two technologies brings the revolutionary possibility of identifying all genetic disorders in newborns, allowing implementation of therapies at the optimum time regardless of symptoms. This article reviews the history of newborn screening and early studies examining the use of whole genome and exome sequencing as a screening tool. Lessons learned from these studies are discussed, along with technical, ethical, and societal challenges to broad implementation