10 research outputs found
Identification of the genetic determinants of Salmonella enterica serotype Typhimurium that may regulate the expression of the type 1 fimbriae in response to solid agar and static broth culture conditions
- Author
- Publication venue
- BioMed Central
- Publication date
- 01/01/2008
- Field of study
<p>Abstract</p> <p>Background</p> <p>Type 1 fimbriae are the most commonly found fimbrial appendages on the outer membrane of <it>Salmonella enterica </it>serotype Typhimurium. Previous investigations indicate that static broth culture favours <it>S</it>. Typhimurium to produce type 1 fimbriae, while non-fimbriate bacteria are obtained by growth on solid agar media. The phenotypic expression of type 1 fimbriae in <it>S</it>. Typhimurium is the result of the interaction and cooperation of several genes in the <it>fim </it>gene cluster. Other gene products that may also participate in the regulation of type 1 fimbrial expression remain uncharacterized.</p> <p>Results</p> <p>In the present study, transposon insertion mutagenesis was performed on <it>S</it>. Typhimurium to generate a library to screen for those mutants that would exhibit different type 1 fimbrial phenotypes than the parental strain. Eight-two mutants were obtained from 7,239 clones screened using the yeast agglutination test. Forty-four mutants produced type 1 fimbriae on both solid agar and static broth media, while none of the other 38 mutants formed type 1 fimbriae in either culture condition. The flanking sequences of the transposons from 54 mutants were cloned and sequenced. These mutants can be classified according to the functions or putative functions of the open reading frames disrupted by the transposon. Our current results indicate that the genetic determinants such as those involved in the fimbrial biogenesis and regulation, global regulators, transporter proteins, prophage-derived proteins, and enzymes of different functions, to name a few, may play a role in the regulation of type 1 fimbrial expression in response to solid agar and static broth culture conditions. A complementation test revealed that transforming a recombinant plasmid possessing the coding sequence of a NAD(P)H-flavin reductase gene <it>ubiB </it>restored an <it>ubiB </it>mutant to exhibit the type 1 fimbrial phenotype as its parental strain.</p> <p>Conclusion</p> <p>Genetic determinants other than the <it>fim </it>genes may involve in the regulation of type 1 fimbrial expression in <it>S</it>. Typhimurium. How each gene product may influence type 1 fimbrial expression is an interesting research topic which warrants further investigation.</p
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-OtÃn
- 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
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- Danielle Pasternack
- Darell Bigner
- Dariush Etemadmoghadam
- Darlene Lee
- Darrin F Taylor
- Dave Larson
- David A Wheeler
- David A Wheeler
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- David Craft
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- Ding
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- Electron Kebebew
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- Hidenori Ojima
- Hidewaki Nakagawa
- Hikmat Al-Ahmadie
- Hilda A Pickett
- Hirofumi Rokutan
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- Hiroto Katoh
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- Kyle Covington
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- Li Ding
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- Li Shantao
- Liang Wen-Wei
- Liangtao Zheng
- Lieven P C Verbeke
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- Liu Xi
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- Meyerson William U
- Mi Ni Huang
- Mia Nastic
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- Milena Kovacevic
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- Miranda D Stobbe
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- Miruna Balasundaram
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- Montserrat Puiggròs
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- Morten Muhlig Nielsen
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- Myron Peto
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- Nagarajan Paramasivam
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- Narong Khuntikeo
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- Natalie Jäger
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- Neesha C Dhani
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- Nimish C Shah
- Nina Habermann
- Nina Thiessen
- Nischalan Pillay
- Nishant Agrawal
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- 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
Identification of the genetic determinants of serotype Typhimurium that may regulate the expression of the type 1 fimbriae in response to solid agar and static broth culture conditions-2
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Densitometry and expressed (Arabic numbers) relative to the value for transcription obtained from the static LB broth culture condition. The intensities of 16S rRNA shown indicates that equivalent amounts of total RNA were used in the experiment.<p><b>Copyright information:</b></p><p>Taken from "Identification of the genetic determinants of serotype Typhimurium that may regulate the expression of the type 1 fimbriae in response to solid agar and static broth culture conditions"</p><p>http://www.biomedcentral.com/1471-2180/8/126</p><p>BMC Microbiology 2008;8():126-126.</p><p>Published online 25 Jul 2008</p><p>PMCID:PMC2527010.</p><p></p
Identification of the genetic determinants of serotype Typhimurium that may regulate the expression of the type 1 fimbriae in response to solid agar and static broth culture conditions-1
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<p><b>Copyright information:</b></p><p>Taken from "Identification of the genetic determinants of serotype Typhimurium that may regulate the expression of the type 1 fimbriae in response to solid agar and static broth culture conditions"</p><p>http://www.biomedcentral.com/1471-2180/8/126</p><p>BMC Microbiology 2008;8():126-126.</p><p>Published online 25 Jul 2008</p><p>PMCID:PMC2527010.</p><p></p
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- Xi Liu
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- Xiao Xiao
- Xing Rui
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- Xu Qinying
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- Xue Hong
- Yachida Shinichi
- Yakneen Sergei
- Yamaguchi Rui
- Yamaguchi Takafumi N.
- Yamamoto Masakazu
- Yamamoto Shogo
- Yamaue Hiroki
- Yang Fan
- Yang Huanming
- Yang Jean Y.
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- Yang Shanlin
- Yang Tsun-Po
- Yang Yang
- Yao Xiaotong
- Yaspo Marie-Laure
- Yates Lucy
- Yau Christina
- Ye Chen
- Ye Kai
- Yellapantula Venkata D.
- Yoon Christopher J.
- Yoon Sung-Soo
- Yousif Fouad
- Yu Jun
- Yu Kaixian
- Yu Willie
- Yu Yingyan
- Yuan Ke
- Yuan Yuan
- Yuen Denis
- Yugawa Takashi
- Yung Christina K.
- Zaikova Olga
- Zamora Jorge
- Zapatka Marc
- Zenklusen Jean C.
- Zenz Thorsten
- Zeps Nikolajs
- Zhang Cheng-Zhong
- Zhang Fan
- Zhang Hailei
- Zhang Hongwei
- Zhang Hongxin
- Zhang Jiashan
- Zhang Jing
- Zhang Junjun
- Zhang Xiuqing
- Zhang Xuanping
- Zhang Yan
- Zhang Zemin
- Zhao Zhongming
- Zheng Liangtao
- Zheng Xiuqing
- Zhou Wanding
- Zhou Yong
- Zhu Hongtu
- Zhu Jingchun
- Zhu Shida
- Zou Lihua
- Zou Xueqing
- Publication venue
- Nature Communications
- Publication date
- 21/09/2020
- 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
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-OtÃn
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- Stefan M Pfister
- Stefan Schreiber
- Stefania Tommasi
- Stefano Barbi
- Stefano Serra
- Stephan H Bernhart
- Stephan Ossowski
- Stephan Ossowski
- Stephan Stilgenbauer
- Stephan Wolf
- Stephanie Sungalee
- Stephen B Baylin
- Stephen H Kazakoff
- Stephen J Chanock
- Stephen J Hayes
- Stephen M Cordner
- Stephenie D Prokopec
- Steve Hawkins
- Steve Hoffmann
- Steven A Roberts
- Steven E Schumacher
- Steven Foltz
- Steven G Rozen
- Steven Gallinger
- Steven Hazell
- Steven J M Jones
- Steven J Newhouse
- Steven Van Laere
- Stian Knappskog
- Stuart Edmonds
- Stuart R Jefferys
- Su Pin Choo
- Subhajit Sengupta
- Sue Merson
- Suet-Feung Chin
- Sultan T Al-Sedairy
- Sung-Min Ahn
- Sung-Soo Yoon
- Sunghoon Cho
- Sunil R Lakhani
- Suresh Ramalingam
- Susan Bullman
- Susanna L Cooke
- Sushant Kumar
- Sushant Kumar
- Suyash S Shringarpure
- Syed Haider
- Sylvia Asa
- Søren Brunak
- Takafumi N Yamaguchi
- Takafumi N Yamaguchi
- Takanori Hasegawa
- Takashi Yugawa
- Takashi Yugawa
- Takuji Okusaka
- Tal Shmaya
- Tannistha Nandi
- Taobo Hu
- Taobo Hu
- Tapio Visakorpi
- Tara J Skelly
- Tari A King
- Tatsuhiko Tsunoda
- Tatsuhiro Shibata
- Ted R Hupp
- Tetsuo Ushiku
- Theodorus Van der Kwast
- Thomas E Carey
- Thomas J Hudson
- Thomas J Matthew
- Thomas J Mitchell
- Thorsten Schlomm
- Thorsten Zenz
- Tian Xia
- Tim Dudderidge
- Tim Ley
- Timothy A Beck
- Timothy Defreitas
- Timothy J C Bruxner
- Timothy J Underwood
- Tina Wong
- Tirso Pons
- Tobias Madsen
- Tobias Rausch
- Todd A Johnson
- Todd D Pihl
- Tom Bodenheimer
- Tom Mikkelsen
- Tom Roques
- Tomas J Tanskanen
- Tomas Marques-Bonet
- Tomoko Urushidate
- Torill Sauer
- Toru Nakamura
- Treasa A McPherson
- Troy Shelton
- Tsun-Po Yang
- Ultan McDermott
- Umadevi Veluvolu
- Umut H Toprak
- Valerie Jakrot
- Varsha Tembe
- Vasilisa A Rudneva
- Venkata D Yellapantula
- Venkata D Yellapantula
- Vera B Kaiser
- Veronica Y Sabelnykova
- Victor Reuter
- Vikram Deshpande
- Viktoriya Korchina
- Ville Mustonen
- Vinayak Bhandari
- Vincent Ferretti
- Vincent Huang
- Vincent Huang
- Vincent J Gnanapragasam
- Vincent Khoo
- Vincenzo Corbo
- Vishal S Chandan
- Volker Hovestadt
- W Kimryn Rathmell
- W M Linehan
- Walker Hale
- Wan Choi
- Wanding Zhou
- Wang Liang-Bo
- Weerasinghe Amila
- Wei Jiao
- Wendl Michael C
- Wenyi Wang
- Wenyi Wang
- Wenyi Wang
- Wheeler David A
- William B Isaacs
- William C Faquin
- William Friedman
- William Howat
- William U Meyerson
- Willie Yu
- Winghing Wong
- Wojciech Bazant
- Wolfgang Huber
- Wolfram Klapper
- Xavier Estivill
- Xavier Pivot
- Xiao Xiao
- Xiaobo Li
- Xiaoping Su
- Xiaotong Li
- Xiaotong Yao
- Xing Hua
- Xingmin Liu
- Xinyue Li
- Xiuqing Zhang
- Xiuqing Zheng
- Xose S Puente
- Xuan Le
- Xuanping Zhang
- Xuemei Luo
- Xueqing Zou
- Yan Shi
- Yan Zhang
- Yang Wu
- Yang Yang
- Yann Joly
- Yanxun Xu
- Yao He
- Yasin Senbabaoglu
- Yassen Assenov
- Yasser Riazalhosseini
- Yasuhito Arai
- Yasushi Rino
- Yasushi Totoki
- Yeng Ang
- Yi Huang
- Yi Huang
- Yifei Men
- Yiling Lu
- Yilong Li
- Yingyan Yu
- Yiwen Chen
- Yogesh Kumar
- Yogesh Kumar
- Yoke-Eng Chiew
- Yong Hou
- Yong Zhou
- Yong-Jie Lu
- Yongzhan Nie
- Yosef E Maruvka
- Yosef E Maruvka
- Yoshiiku Kawakami
- Young Seok Ju
- Youngchoon Woo
- Youngil Koh
- Youngwook Kim
- Youyong Lu
- Yu Fan
- Yu Fan
- Yu Fan
- Yu-Jia Shiah
- Yuan Ji
- Yuan Yuan
- Yuichi Shiraishi
- Yulia Newton
- Yulia Rubanova
- Yumeng Wang
- Yupeng Cun
- Yussanne Ma
- Zachary Heins
- Zechen Chong
- Zechen Chong
- Zemin Zhang
- Zhaohong Chen
- Zhenggang Wu
- Zhenggang Wu
- Zhining Wang
- Zhongming Zhao
- Ziao Lin
- Zsofia Kote-Jarai
- Ólafur Andri Stefánsson
- Øystein Garred
- Publication venue
- Publication date
- 01/01/2020
- Field of study
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.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 (VAFPeer reviewe
Luminescent perovskites: recent advances in theory and experiments
- Author
- Aamir
- Abdi-Jalebi
- Adachi
- Adhikari
- Adireddy
- Aguilar
- Ahmed
- Ahn
- Akkerman
- Akkerman
- Akkerman
- Almutlaq
- Arend
- Baccaro
- Bala
- Barkaoui
- Bartolomé
- Becker
- Benin
- Bi
- Birowosuto
- Bischak
- Biswas
- Biswas
- Blasse
- Blasse
- Blasse
- Blasse
- Blasse
- Blasse
- Blasse
- Bode
- Bodnarchuk
- Bohn
- Borriello
- Borriello
- Bouma
- Boutinaud
- Braam
- Braly
- Brenes
- Brenes
- Breternitz
- Brik
- Brochard-Garnier
- Cai
- Calabrese
- Cao
- Cao
- Chabot
- Chen
- Chen
- Chen
- Chen
- Chen
- Chen
- Chen
- Chen
- Chen
- Chen
- Cheng
- Cheng
- Chin
- Chirvony
- Choi
- Chondroudis
- Cortecchia
- Cortecchia
- Cortecchia
- D'Innocenzo
- Dai
- Dai
- Dammak
- Dammak
- Danielson
- Danielson
- Danielson
- Dar
- Das Adhikari
- Day
- De
- De Bastiani
- de Hair
- De Hair
- Deschler
- Diab
- Diallo
- Diallo
- Dieke
- Ding
- Dirin
- Dohner
- Dohner
- Doi
- Dong
- Dorenbos
- Dorenbos
- Dotsenko
- Duan
- Dujardin
- Eglitis
- Eglitis
- Elliott
- Era
- Era
- Evans
- Fan
- Ferguson
- Filippetti
- Frenkel
- Galasso
- Gangishetty
- Gauthron
- Gautier
- Gektin
- Gerhard
- Ghosh
- Ghosh
- Giustino
- Glais
- Gong
- Gong
- Gong
- Grabner
- Guan
- Gupta
- Han
- Hanusch
- Haque
- Hasegawa
- Hattori
- Hayashi
- He
- He
- He
- He
- He
- Hernandez-Rodriguez
- Hoefdraad
- Hoefdraad
- Hoefler
- Hong
- Hong
- Honma
- Hu
- Hu
- Hu
- Huang
- Huang
- Huang
- Huang
- Huang
- Ida
- Ida
- Ishihara
- Ishihara
- Ishihara
- Itoh
- Jang
- Jellicoe
- Jiang
- Jodlowski
- Johnson
- Johnsson
- Kamimura
- Kan
- Kan
- Kang
- Katayama
- Kato
- Kawano
- Keldysh
- Khan
- Kim
- Kim
- Knochenmuss
- Knop
- Kobayashi
- Kojima
- Kondo
- Kong
- Koscher
- Kovalenko
- Krieg
- Kroupa
- Kudo
- Kudo
- Kudo
- Kyômen
- Lai
- Lambe
- Lao
- Lao
- Lee
- Lee
- Lehner
- Lei
- Lempicki
- Leonelli
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Lian
- Liang
- Lin
- Lin
- Lin
- Lin
- Liu
- Liu
- Liu
- Liu
- Liu
- Liu
- Liu
- Liu
- Liu
- Liu
- Lizzo
- Lou
- Lova
- Lozhkina
- Lu
- Lu
- Lu
- Luo
- Ma
- Ma
- Ma
- Ma
- Machida
- Macke
- Maeda
- Mahata
- Mao
- Mao
- Mao
- Mao
- Mao
- Mastroianni
- Masumoto
- Mathlouthi
- Maughan
- Men
- Merdasa
- Meyer
- Meyns
- Miller
- Milstein
- Mir
- Mir
- Mitzi
- Mitzi
- Mitzi
- Mitzi
- Mitzi
- Mitzi
- Mitzi
- Mitzi
- Mizoguchi
- Mizoguchi
- Moreira
- Moreira
- Motti
- Muralidharan
- Møller
- Nandha
- Nazarenko
- Nedelcu
- Nenon
- Nikl
- Nikl
- Nikl
- Nikl
- Niu
- Noh
- Ozawa
- Pa
- Pan
- Pan
- Papavassiliou
- Papavassiliou
- Park
- Parobek
- Parobek
- Pazos-Outon
- Pazos-Outon
- Peng
- Peña
- Pizani
- Pontes
- Pontes
- Popov
- Pradhan
- Protesescu
- Protesescu
- Qiao
- Qiu
- Qu
- Quan
- Quan
- Rajagopal
- Ramade
- Reisfeld
- Riesen
- Rodnyi
- Rodriguez
- Sakai
- Salje
- Samet
- Saparov
- Savenije
- Scaife
- Schade
- Sebastian
- Seth
- Shang
- Shi
- Shi
- Shi
- Shinada
- Sivakumar
- Smet
- Smith
- Smith
- Smith
- Soe
- Sommerdijk
- Song
- Song
- Song
- Song
- Srivastava
- Srivastava
- Srivastava
- Stoumpos
- Stoumpos
- Sturge
- Su
- Sugano
- Sun
- Sun
- Sun
- Sun
- Sun
- Sutter-Fella
- Swarnkar
- Tabuchi
- Tachikawa
- Takagahara
- Tamarat
- Tanaka
- Tanaka
- Tang
- Thirumal
- Tian
- Tian
- Tian
- Tiguntseva
- Toda
- Toda
- Tress
- Tress
- Tyagi
- van der Stam
- Van Oosterhout
- van Pieterson
- Van Steensel
- Veldhuis
- Volonakis
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wannier
- Weber
- Weber
- Weber
- Wehrenfennig
- Wei
- Wei
- Wei
- Wei
- Wei
- Wells
- Wiegel
- Wiegel
- Witzmann
- Wu
- Wu
- Wu
- Wu
- Wu
- Wu
- Wu
- Wu
- Xiang
- Xie
- Xu
- Xu
- Xu
- Xue
- Yamada
- Yamamoto
- Yamamoto
- Yang
- Yang
- Yang
- Yang
- Yangui
- Yangui
- Yantara
- Yao
- Ye
- Ye
- Yin
- Yong
- Yu
- Yuan
- Yuan
- Yuan
- Yuan
- Yuan
- Yuan
- Zeng
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhao
- Zheng
- Zheng
- Zheng
- Zhong
- Zhong
- Zhou
- Zhou
- Zhou
- Zhou
- Zhou
- Zhou
- Zhou
- Zhou
- Zhou
- Zhu
- Zhu
- Zou
- Zou
- Zou
- Zuniga
- Öz
- Publication venue
- 'Royal Society of Chemistry (RSC)'
- Publication date
- 01/01/2019
- Field of study
Advanced Sorbents for Oil-Spill Cleanup: Recent Advances and Future Perspectives
- Author
- Akhavan
- Amin
- An
- An
- Annunciado
- Arbatan
- Atta
- Bai
- Balu
- Banerjee
- Bayat
- Bayat
- Bethune
- Bi
- Bi
- Calcagnile
- Cao
- Cao
- Cao
- Cardoso
- Carmody
- Cassie
- Chabot
- Chen
- Chen
- Chen
- Chen
- Chen
- Cheng
- Cheng
- Cheng
- Chi
- Chin
- Cho
- Choi
- Choi
- Chu
- Chun
- Cong
- Cortese
- Crick
- Dai
- Deng
- Deng
- Deschamps
- Dias
- Ding
- Dong
- Dutta
- Ebrahimzadeh
- Emamian
- Erbil
- Feng
- Feng
- Feng
- Feng
- Flores
- Fresnais
- Ganesh
- Gao
- Gao
- Gao
- Gao
- Gao
- Gao
- Ge
- Ge
- Geim
- Genzer
- Girifalco
- Golberg
- Gu
- Gu
- Gui
- Gui
- Guo
- Guo
- Guo
- Guo
- Guo
- Guo
- Gupta
- Ha
- Han
- Han
- Hashim
- Hayase
- Hayase
- He
- Hengchang
- Hikita
- Hoefnagels
- Hristea
- Hu
- Hu
- Hu
- Hu
- Huang
- Huang
- Huang
- Huang
- Huang
- Hwang
- Ivshina
- Jernelov
- Jiang
- Jiang
- Jin
- Jingduo
- Joye
- Kabiri
- Kanamori
- Karakasi
- Kavalenka
- Khan
- Kharissova
- Kim
- Kong
- Korhonen
- Kota
- Kulawardana
- Kumagai
- Kwoun
- Lafuma
- Larmour
- Lee
- Lee
- Lee
- Lee
- Lee
- Lee
- Lei
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Li
- Liang
- Liang
- Liao
- Lim
- Lin
- Lin
- Liu
- Liu
- Liu
- Liu
- Liu
- Liu
- Liu
- Liu
- Liu
- Liu
- Liu
- Liu
- Loh
- Lu
- Luo
- Lutfullin
- Lv
- Lçiu
- McNutt
- McNutt
- Men
- Meng
- Meng
- Ming
- Mishra
- Mizukoshi
- Moriwaki
- Mu
- Nagappan
- Nagappan
- Nakajima
- Nguyen
- Nguyen
- Niemietz
- Nishino
- Niu
- Niu
- Novio
- Novoselov
- Ohkubo
- Ohta
- Ono
- Ono
- Ono
- Ozden
- Palchoudhury
- Pan
- Parker
- Patowary
- PavÃa-Sanders
- Peng
- Peng
- Pham
- Pourjavadi
- Proctor
- Qiu
- Radetic
- Rafiee
- Ramasundaram
- Raza
- Richardson
- Ruan
- Ryerson
- Sai
- Sarkar
- Sasmal
- Schedin
- Schrope
- Schrope
- Schrope
- Shang
- Shi
- Shi
- Shin
- Shirtcliffe
- Shirtcliffe
- Si
- Si
- Singh
- Singh
- Singh
- Song
- Song
- Song
- Song
- Song
- Song
- Stojanovic
- Sun
- Sun
- Sun
- Sun
- Tai
- Tang
- Tang
- Tao
- Tao
- Tavana
- Teare
- Thickett
- Tian
- Tjandra
- Tran
- Tu
- Turco
- Tuteja
- Veeramasuneni
- Venkatanarasimhan
- Vince
- Wan
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wang
- Wei
- Wei
- Wen
- Wenzel
- Woodward
- Wu
- Wu
- Wu
- Wu
- Wu
- Wu
- Wu
- Wu
- Wu
- Wu
- Wu
- Xi
- Xiao
- Xu
- Xue
- Xue
- Xue
- Xue
- Xue
- Yang
- Yang
- Yang
- Yang
- Yang
- Yang
- Yang
- Yin
- Young
- Yu
- Yu
- Yu
- Yuan
- Yuan
- Yuan
- Yuan
- Zeng
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhang
- Zhao
- Zhao
- Zhi
- Zhou
- Zhou
- Zhou
- Zhou
- Zhu
- Zhu
- Zhu
- Zhu
- Zhu
- Zhu
- Zhu
- Zhu
- Zhu
- Zimmermann
- Zimmermann
- Zou
- Publication venue
- 'Wiley'
- Publication date
- Field of study
Recommended from our members
Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples
- Author
- Aaltonen Lauri A.
- Abascal Federico
- Abeshouse Adam
- Aburatani Hiroyuki
- Adams David J.
- Agrawal Nishant
- Ahn Keun Soo
- Ahn Sung-Min
- Aikata Hiroshi
- Akbani Rehan
- Akdemir Kadir C.
- Al-Ahmadie Hikmat
- Al-Sedairy Sultan T.
- Al-Shahrour Fatima
- Alawi Malik
- Albert Monique
- Aldape Kenneth
- Alexandrov Ludmil B.
- Ally Adrian
- Alsop Kathryn
- Alvarez Eva G.
- Amary Fernanda
- Amin Samirkumar B.
- Aminou Brice
- Ammerpohl Ole
- Anderson Matthew J.
- Ang Yeng
- Antonello Davide
- Anur Pavana
- Aparicio Samuel
- Appelbaum Elizabeth L.
- Arai Yasuhito
- Aretz Axel
- Arihiro Koji
- Ariizumi Shun-ichi
- Armenia Joshua
- Arnau Gisela Mir
- Arnould Laurent
- Asa Sylvia
- Assenov Yassen
- Atwal Gurnit
- Aukema Sietse
- Auman J. Todd
- Aure Miriam R.
- Awadalla Philip
- Aymerich Marta
- Bader Gary D.
- Baez-Ortega Adrian
- Bailey Matthew H.
- Bailey Peter J.
- Balasundaram Miruna
- Balu Saianand
- Bandopadhayay Pratiti
- Banks Rosamonde E.
- Barbi Stefano
- Barbour Andrew P.
- Barenboim Jonathan
- Barnholtz-Sloan Jill
- Barr Hugh
- Barrera Elisabet
- Bartlett John
- Bartolome Javier
- Bassi Claudio
- Bathe Oliver F.
- Baumhoer Daniel
- Bavi Prashant
- Baylin Stephen B.
- Bazant Wojciech
- Beardsmore Duncan
- Beck Timothy A.
- Behjati Sam
- Behren Andreas
- Bell Cindy
- Beltran Sergi
- Benz Christopher
- Berchuck Andrew
- Bergmann Anke K.
- Bergstrom Erik N.
- Berman Benjamin P.
- Berney Daniel M.
- Bernhart Stephan H.
- Beroukhim Rameen
- Berrios Mario
- Bersani Samantha
- Bertl Johanna
- Betancourt Miguel
- Bhandari Vinayak
- Bhosle Shriram G.
- Biankin Andrew V.
- Bieg Matthias
- Bigner Darell
- Bin Zhu
- Binder Hans
- Birney Ewan
- Birrer Michael
- Biswas Nidhan K.
- Bjerkehagen Bodil
- Bodenheimer Tom
- Boice Lori
- Bonizzato Giada
- Boot Arnoud
- Bootwalla Moiz S.
- Borg Ake
- Borkhardt Arndt
- Boroevich Keith A.
- Borozan Ivan
- Borst Christoph
- Bosenberg Marcus
- Bosio Mattia
- Boultwood Jacqueline
- Bourque Guillaume
- Boutros Paul C.
- Bova G. Steven
- Bowen David T.
- Bowlby Reanne
- Bowtell David D. L.
- Boyault Sandrine
- Boyce Rich
- Boyd Jeffrey
- Brazma Alvis
- Brennan Paul
- Brewer Daniel S.
- Brinkman Arie B.
- Bristow Robert G.
- Broaddus Russell R.
- Brock Jane E.
- Brock Malcolm
- Broeks Annegien
- Brooks Angela N.
- Brooks Denise
- Brors Benedikt
- Brunak Søren
- Bruxner Timothy J. C.
- Bruzos Alicia L.
- Buchanan Alex
- Buchhalter Ivo
- Buchholz Christiane
- Bullman Susan
- Burke Hazel
- Burkhardt Birgit
- Burns Kathleen H.
- Busanovich John
- Bustamante Carlos D.
- Butler Adam P.
- Butte Atul J.
- Byrne Niall J.
- Børresen-Dale Anne-Lise
- Caesar-Johnson Samantha J.
- Cafferkey Andy
- Cahill Declan
- Calabrese Claudia
- Caldas Carlos
- Calvo Fabien
- Camacho Niedzica
- Campbell Peter J.
- Campo Elias
- Cantù Cinzia
- Cao Shaolong
- Carey Thomas E.
- Carlevaro-Fita Joana
- Carlsen Rebecca
- Cataldo Ivana
- Cazzola Mario
- Cebon Jonathan
- Cerfolio Robert
- Chadwick Dianne E.
- Chakravarty Dimple
- Chalmers Don
- Chan Calvin Wing Yiu
- Chan Kin
- Chan-Seng-Yue Michelle
- Chandan Vishal S.
- Chang David K.
- Chanock Stephen J.
- Chantrill Lorraine A.
- Chateigner Aurélien
- Chatterjee Nilanjan
- Chayama Kazuaki
- Chen Hsiao-Wei
- Chen Jieming
- Chen Ken
- Chen Yiwen
- Chen Zhaohong
- Cherniack Andrew D.
- Chien Jeremy
- Chiew Yoke-Eng
- Chin Suet-Feung
- Chiotti Kami
- Cho Juok
- Cho Sunghoon
- Choi Jung Kyoon
- Choi Wan
- Chomienne Christine
- Chong Zechen
- Choo Su Pin
- Chou Angela
- Christ Angelika N.
- Christie Elizabeth L.
- Chuah Eric
- Cibulskis Carrie
- Cibulskis Kristian
- Cingarlini Sara
- Clapham Peter
- Claviez Alexander
- Cleary Sean
- Cloonan Nicole
- Cmero Marek
- Collins Colin C.
- Connor Ashton A.
- Cooke Susanna L.
- Cooper Colin S.
- Cope Leslie
- Corbo Vincenzo
- Cordes Matthew G.
- Cordner Stephen M.
- Cortés-Ciriano Isidro
- Covington Kyle
- Cowin Prue A.
- Craft Brian
- Craft David
- Creason Allison
- Creighton Chad J.
- Cun Yupeng
- Curley Erin
- Cutcutache Ioana
- Czajka Karolina
- Czerniak Bogdan
- Dagg Rebecca A.
- Danilova Ludmila
- Davi Maria Vittoria
- Davidson Natalie R.
- Davies Helen
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- Wong Winghing
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- Wood Scott
- Wouters Bradly G.
- Wright Adam J.
- Wright Derek W.
- Wright Mark H.
- Wu Chin-Lee
- Wu Dai-Ying
- Wu Guanming
- Wu Jianmin
- Wu Kui
- Wu Yang
- Wu Zhenggang
- Xi Liu
- Xia Tian
- Xiang Qian
- Xiao Xiao
- Xing Rui
- Xiong Heng
- Xu Qinying
- Xu Yanxun
- Xue Hong
- Yachida Shinichi
- Yakneen Sergei
- Yamaguchi Rui
- Yamaguchi Takafumi N.
- Yamamoto Masakazu
- Yamamoto Shogo
- Yamaue Hiroki
- Yang Fan
- Yang Huanming
- Yang Jean Y.
- Yang Liming
- Yang Lixing
- Yang Shanlin
- Yang Tsun-Po
- Yang Yang
- Yao Xiaotong
- Yaspo Marie-Laure
- Yates Lucy
- Yau Christina
- Ye Chen
- Ye Kai
- Yellapantula Venkata D.
- Yoon Christopher J.
- Yoon Sung-Soo
- Yousif Fouad
- Yu Jun
- Yu Kaixian
- Yu Willie
- Yu Yingyan
- Yuan Ke
- Yuan Yuan
- Yuen Denis
- Yugawa Takashi
- Yung Christina K.
- Zaikova Olga
- Zamora Jorge
- Zapatka Marc
- Zenklusen Jean C.
- Zenz Thorsten
- Zeps Nikolajs
- Zhang Cheng-Zhong
- Zhang Fan
- Zhang Hailei
- Zhang Hongwei
- Zhang Hongxin
- Zhang Jiashan
- Zhang Jing
- Zhang Junjun
- Zhang Xiuqing
- Zhang Xuanping
- Zhang Yan
- Zhang Zemin
- Zhao Zhongming
- Zheng Liangtao
- Zheng Xiuqing
- Zhou Wanding
- Zhou Yong
- Zhu Hongtu
- Zhu Jingchun
- Zhu Shida
- Zou Lihua
- Zou Xueqing
- Publication venue
- Nature Communications
- Publication date
- 01/12/2020
- 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
Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples
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- Publication venue
- 'Springer Science and Business Media LLC'
- Publication date
- 01/01/2020
- Field of study
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