Literature DB >> 34750582

Anatomical structures, cell types and biomarkers of the Human Reference Atlas.

Katy Börner1, Sarah A Teichmann2, Ellen M Quardokus3, James C Gee4, Kristen Browne5, David Osumi-Sutherland6, Bruce W Herr3, Andreas Bueckle3, Hrishikesh Paul3, Muzlifah Haniffa7, Laura Jardine7, Amy Bernard8, Song-Lin Ding9, Jeremy A Miller9, Shin Lin10, Marc K Halushka11, Avinash Boppana12, Teri A Longacre13, John Hickey13, Yiing Lin14, M Todd Valerius15, Yongqun He16, Gloria Pryhuber17, Xin Sun18, Marda Jorgensen19, Andrea J Radtke20, Clive Wasserfall19, Fiona Ginty21, Jonhan Ho22, Joel Sunshine23, Rebecca T Beuschel20, Maigan Brusko19, Sujin Lee24, Rajeev Malhotra15,24, Sanjay Jain25,26, Griffin Weber27.   

Abstract

The Human Reference Atlas (HRA) aims to map all of the cells of the human body to advance biomedical research and clinical practice. This Perspective presents collaborative work by members of 16 international consortia on two essential and interlinked parts of the HRA: (1) three-dimensional representations of anatomy that are linked to (2) tables that name and interlink major anatomical structures, cell types, plus biomarkers (ASCT+B). We discuss four examples that demonstrate the practical utility of the HRA.
© 2021. Springer Nature Limited.

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Year:  2021        PMID： 34750582     DOI： 10.1038/s41556-021-00788-6

Source DB:  PubMed          Journal:  Nat Cell Biol        ISSN： 1465-7392            Impact factor:   28.824


  123 in total

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Authors:  Sudhir Srivastava; Sharmistha Ghosh; Jacob Kagan; Richard Mazurchuk
Journal:  Trends Cancer       Date:  2018-07-21

2.  Cells of the human intestinal tract mapped across space and time.

Authors:  Rasa Elmentaite; Natsuhiko Kumasaka; Kenny Roberts; Aaron Fleming; Emma Dann; Hamish W King; Vitalii Kleshchevnikov; Monika Dabrowska; Sophie Pritchard; Liam Bolt; Sara F Vieira; Lira Mamanova; Ni Huang; Francesca Perrone; Issac Goh Kai'En; Steven N Lisgo; Matilda Katan; Steven Leonard; Thomas R W Oliver; C Elizabeth Hook; Komal Nayak; Lia S Campos; Cecilia Domínguez Conde; Emily Stephenson; Justin Engelbert; Rachel A Botting; Krzysztof Polanski; Stijn van Dongen; Minal Patel; Michael D Morgan; John C Marioni; Omer Ali Bayraktar; Kerstin B Meyer; Xiaoling He; Roger A Barker; Holm H Uhlig; Krishnaa T Mahbubani; Kourosh Saeb-Parsy; Matthias Zilbauer; Menna R Clatworthy; Muzlifah Haniffa; Kylie R James; Sarah A Teichmann
Journal:  Nature       Date:  2021-09-08       Impact factor: 69.504

3.  GUDMAP: the genitourinary developmental molecular anatomy project.

Authors:  Andrew P McMahon; Bruce J Aronow; Duncan R Davidson; Jamie A Davies; Kevin W Gaido; Sean Grimmond; James L Lessard; Melissa H Little; S Steven Potter; Elizabeth L Wilder; Pumin Zhang
Journal:  J Am Soc Nephrol       Date:  2008-02-20       Impact factor: 10.121

Review 4.  Cancer genome sequencing: the challenges ahead.

Authors:  Henry H Q Heng
Journal:  Bioessays       Date:  2007-08       Impact factor: 4.345

5.  The challenge of connecting the dots in the B.R.A.I.N.

Authors:  Anna Devor; Peter A Bandettini; David A Boas; James M Bower; Richard B Buxton; Lawrence B Cohen; Anders M Dale; Gaute T Einevoll; Peter T Fox; Maria Angela Franceschini; Karl J Friston; James G Fujimoto; Mark A Geyer; Joel H Greenberg; Eric Halgren; Matti S Hämäläinen; Fritjof Helmchen; Bradley T Hyman; Alan Jasanoff; Terry L Jernigan; Lewis L Judd; Seong-Gi Kim; David Kleinfeld; Nancy J Kopell; Marta Kutas; Kenneth K Kwong; Matthew E Larkum; Eng H Lo; Pierre J Magistretti; Joseph B Mandeville; Eliezer Masliah; Partha P Mitra; William C Mobley; Michael A Moskowitz; Axel Nimmerjahn; John H Reynolds; Bruce R Rosen; Brian M Salzberg; Chris B Schaffer; Gabriel A Silva; Peter T C So; Nicholas C Spitzer; Roger B Tootell; David C Van Essen; Wim Vanduffel; Sergei A Vinogradov; Lawrence L Wald; Lihong V Wang; Bruno Weber; Arjun G Yodh
Journal:  Neuron       Date:  2013-10-16       Impact factor: 17.173

6.  (Re)Building a Kidney.

Authors:  Leif Oxburgh; Thomas J Carroll; Ondine Cleaver; Daniel R Gossett; Deborah K Hoshizaki; Jeffrey A Hubbell; Benjamin D Humphreys; Sanjay Jain; Jan Jensen; David L Kaplan; Carl Kesselman; Christian J Ketchum; Melissa H Little; Andrew P McMahon; Stuart J Shankland; Jason R Spence; M Todd Valerius; Jason A Wertheim; Oliver Wessely; Ying Zheng; Iain A Drummond
Journal:  J Am Soc Nephrol       Date:  2017-01-17       Impact factor: 10.121

7.  Comprehensive cellular-resolution atlas of the adult human brain.

Authors:  Song-Lin Ding; Joshua J Royall; Susan M Sunkin; Lydia Ng; Benjamin A C Facer; Phil Lesnar; Angie Guillozet-Bongaarts; Bergen McMurray; Aaron Szafer; Tim A Dolbeare; Allison Stevens; Lee Tirrell; Thomas Benner; Shiella Caldejon; Rachel A Dalley; Nick Dee; Christopher Lau; Julie Nyhus; Melissa Reding; Zackery L Riley; David Sandman; Elaine Shen; Andre van der Kouwe; Ani Varjabedian; Michelle Wright; Lilla Zöllei; Chinh Dang; James A Knowles; Christof Koch; John W Phillips; Nenad Sestan; Paul Wohnoutka; H Ronald Zielke; John G Hohmann; Allan R Jones; Amy Bernard; Michael J Hawrylycz; Patrick R Hof; Bruce Fischl; Ed S Lein
Journal:  J Comp Neurol       Date:  2016-11-01       Impact factor: 3.215

8.  Systematic integration of biomedical knowledge prioritizes drugs for repurposing.

Authors:  Daniel Scott Himmelstein; Antoine Lizee; Christine Hessler; Leo Brueggeman; Sabrina L Chen; Dexter Hadley; Ari Green; Pouya Khankhanian; Sergio E Baranzini
Journal:  Elife       Date:  2017-09-22       Impact factor: 8.140

9.  A multimodal and integrated approach to interrogate human kidney biopsies with rigor and reproducibility: guidelines from the Kidney Precision Medicine Project.

Authors:  Tarek M El-Achkar; Michael T Eadon; Rajasree Menon; Blue B Lake; Tara K Sigdel; Theodore Alexandrov; Samir Parikh; Guanshi Zhang; Dejan Dobi; Kenneth W Dunn; Edgar A Otto; Christopher R Anderton; Jonas M Carson; Jinghui Luo; Chris Park; Habib Hamidi; Jian Zhou; Paul Hoover; Andrew Schroeder; Marianinha Joanes; Evren U Azeloglu; Rachel Sealfon; Seth Winfree; Becky Steck; Yongqun He; Vivette D'Agati; Ravi Iyengar; Olga G Troyanskaya; Laura Barisoni; Joseph Gaut; Kun Zhang; Zoltan Laszik; Brad H Rovin; Pierre C Dagher; Kumar Sharma; Minnie M Sarwal; Jeffrey B Hodgin; Charles E Alpers; Matthias Kretzler; Sanjay Jain
Journal:  Physiol Genomics       Date:  2020-11-16       Impact factor: 3.107

10.  The Human Cell Atlas.

Authors:  Aviv Regev; Sarah A Teichmann; Eric S Lander; Ido Amit; Christophe Benoist; Ewan Birney; Bernd Bodenmiller; Peter Campbell; Piero Carninci; Menna Clatworthy; Hans Clevers; Bart Deplancke; Ian Dunham; James Eberwine; Roland Eils; Wolfgang Enard; Andrew Farmer; Lars Fugger; Berthold Göttgens; Nir Hacohen; Muzlifah Haniffa; Martin Hemberg; Seung Kim; Paul Klenerman; Arnold Kriegstein; Ed Lein; Sten Linnarsson; Emma Lundberg; Joakim Lundeberg; Partha Majumder; John C Marioni; Miriam Merad; Musa Mhlanga; Martijn Nawijn; Mihai Netea; Garry Nolan; Dana Pe'er; Anthony Phillipakis; Chris P Ponting; Stephen Quake; Wolf Reik; Orit Rozenblatt-Rosen; Joshua Sanes; Rahul Satija; Ton N Schumacher; Alex Shalek; Ehud Shapiro; Padmanee Sharma; Jay W Shin; Oliver Stegle; Michael Stratton; Michael J T Stubbington; Fabian J Theis; Matthias Uhlen; Alexander van Oudenaarden; Allon Wagner; Fiona Watt; Jonathan Weissman; Barbara Wold; Ramnik Xavier; Nir Yosef
Journal:  Elife       Date:  2017-12-05       Impact factor: 8.140
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  6 in total

Review 1.  IBEX: an iterative immunolabeling and chemical bleaching method for high-content imaging of diverse tissues.

Authors:  Andrea J Radtke; Colin J Chu; Ziv Yaniv; Li Yao; James Marr; Rebecca T Beuschel; Hiroshi Ichise; Anita Gola; Juraj Kabat; Bradley Lowekamp; Emily Speranza; Joshua Croteau; Nishant Thakur; Danny Jonigk; Jeremy L Davis; Jonathan M Hernandez; Ronald N Germain
Journal:  Nat Protoc       Date:  2022-01-12       Impact factor: 13.491

Review 2.  Human pluripotent stem cell registry: Operations, role and current directions.

Authors:  Andreas Kurtz; Nancy Mah; Ying Chen; Antonie Fuhr; Sabine Kobold; Stefanie Seltmann; Sabine C Müller
Journal:  Cell Prolif       Date:  2022-05-06       Impact factor: 8.755

3.  hECA: The cell-centric assembly of a cell atlas.

Authors:  Sijie Chen; Yanting Luo; Haoxiang Gao; Fanhong Li; Yixin Chen; Jiaqi Li; Renke You; Minsheng Hao; Haiyang Bian; Xi Xi; Wenrui Li; Weiyu Li; Mingli Ye; Qiuchen Meng; Ziheng Zou; Chen Li; Haochen Li; Yangyuan Zhang; Yanfei Cui; Lei Wei; Fufeng Chen; Xiaowo Wang; Hairong Lv; Kui Hua; Rui Jiang; Xuegong Zhang
Journal:  iScience       Date:  2022-04-28

Review 4.  From COVID to fibrosis: lessons from single-cell analyses of the human lung.

Authors:  Aurelien Justet; Amy Y Zhao; Naftali Kaminski
Journal:  Hum Genomics       Date:  2022-06-13       Impact factor: 6.481

Review 5.  Cell types as species: Exploring a metaphor.

Authors:  Jeff J Doyle
Journal:  Front Plant Sci       Date:  2022-08-22       Impact factor: 6.627

6.  Highly multiplexed, label-free proteoform imaging of tissues by individual ion mass spectrometry.

Authors:  Pei Su; John P McGee; Kenneth R Durbin; Michael A R Hollas; Manxi Yang; Elizabeth K Neumann; Jamie L Allen; Bryon S Drown; Fatma Ayaloglu Butun; Joseph B Greer; Bryan P Early; Ryan T Fellers; Jeffrey M Spraggins; Julia Laskin; Jeannie M Camarillo; Jared O Kafader; Neil L Kelleher
Journal:  Sci Adv       Date:  2022-08-10       Impact factor: 14.957
  6 in total

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