Literature DB >> 28940711

The human protein atlas: A spatial map of the human proteome.

Peter J Thul1, Cecilia Lindskog2.   

Abstract

The correct spatial distribution of proteins is vital for their function and often mis-localization or ectopic expression leads to diseases. For more than a decade, the Human Protein Atlas (HPA) has constituted a valuable tool for researchers studying protein localization and expression in human tissues and cells. The centerpiece of the HPA is its unique antibody collection for mapping the entire human proteome by immunohistochemistry and immunocytochemistry. By these approaches, more than 10 million images showing protein expression patterns at a single-cell level were generated and are publicly available at www.proteinatlas.org. The antibody-based approach is combined with transcriptomics data for an overview of global expression profiles. The present article comprehensively describes the HPA database functions and how users can utilize it for their own research as well as discusses the future path of spatial proteomics.
© 2017 The Protein Society.

Entities:  

Keywords:  antibodies; immunofluorescence; immunohistochemistry; protein expression; single-cell; spatial proteomics; transcriptomics

Mesh:

Substances:

Year:  2017        PMID: 28940711      PMCID: PMC5734309          DOI: 10.1002/pro.3307

Source DB:  PubMed          Journal:  Protein Sci        ISSN: 0961-8368            Impact factor:   6.725


  25 in total

1.  Systematic validation of antibody binding and protein subcellular localization using siRNA and confocal microscopy.

Authors:  Charlotte Stadler; Martin Hjelmare; Beate Neumann; Kalle Jonasson; Rainer Pepperkok; Mathias Uhlén; Emma Lundberg
Journal:  J Proteomics       Date:  2012-02-15       Impact factor: 4.044

2.  Proteomics. Tissue-based map of the human proteome.

Authors:  Mathias Uhlén; Linn Fagerberg; Björn M Hallström; Cecilia Lindskog; Per Oksvold; Adil Mardinoglu; Åsa Sivertsson; Caroline Kampf; Evelina Sjöstedt; Anna Asplund; IngMarie Olsson; Karolina Edlund; Emma Lundberg; Sanjay Navani; Cristina Al-Khalili Szigyarto; Jacob Odeberg; Dijana Djureinovic; Jenny Ottosson Takanen; Sophia Hober; Tove Alm; Per-Henrik Edqvist; Holger Berling; Hanna Tegel; Jan Mulder; Johan Rockberg; Peter Nilsson; Jochen M Schwenk; Marica Hamsten; Kalle von Feilitzen; Mattias Forsberg; Lukas Persson; Fredric Johansson; Martin Zwahlen; Gunnar von Heijne; Jens Nielsen; Fredrik Pontén
Journal:  Science       Date:  2015-01-23       Impact factor: 47.728

3.  Mass-spectrometry-based draft of the human proteome.

Authors:  Mathias Wilhelm; Judith Schlegl; Hannes Hahne; Amin Moghaddas Gholami; Marcus Lieberenz; Mikhail M Savitski; Emanuel Ziegler; Lars Butzmann; Siegfried Gessulat; Harald Marx; Toby Mathieson; Simone Lemeer; Karsten Schnatbaum; Ulf Reimer; Holger Wenschuh; Martin Mollenhauer; Julia Slotta-Huspenina; Joos-Hendrik Boese; Marcus Bantscheff; Anja Gerstmair; Franz Faerber; Bernhard Kuster
Journal:  Nature       Date:  2014-05-29       Impact factor: 49.962

4.  A pathology atlas of the human cancer transcriptome.

Authors:  Mathias Uhlen; Cheng Zhang; Sunjae Lee; Evelina Sjöstedt; Linn Fagerberg; Gholamreza Bidkhori; Rui Benfeitas; Muhammad Arif; Zhengtao Liu; Fredrik Edfors; Kemal Sanli; Kalle von Feilitzen; Per Oksvold; Emma Lundberg; Sophia Hober; Peter Nilsson; Johanna Mattsson; Jochen M Schwenk; Hans Brunnström; Bengt Glimelius; Tobias Sjöblom; Per-Henrik Edqvist; Dijana Djureinovic; Patrick Micke; Cecilia Lindskog; Adil Mardinoglu; Fredrik Ponten
Journal:  Science       Date:  2017-08-18       Impact factor: 47.728

5.  A human protein atlas for normal and cancer tissues based on antibody proteomics.

Authors:  Mathias Uhlén; Erik Björling; Charlotta Agaton; Cristina Al-Khalili Szigyarto; Bahram Amini; Elisabet Andersen; Ann-Catrin Andersson; Pia Angelidou; Anna Asplund; Caroline Asplund; Lisa Berglund; Kristina Bergström; Harry Brumer; Dijana Cerjan; Marica Ekström; Adila Elobeid; Cecilia Eriksson; Linn Fagerberg; Ronny Falk; Jenny Fall; Mattias Forsberg; Marcus Gry Björklund; Kristoffer Gumbel; Asif Halimi; Inga Hallin; Carl Hamsten; Marianne Hansson; My Hedhammar; Görel Hercules; Caroline Kampf; Karin Larsson; Mats Lindskog; Wald Lodewyckx; Jan Lund; Joakim Lundeberg; Kristina Magnusson; Erik Malm; Peter Nilsson; Jenny Odling; Per Oksvold; Ingmarie Olsson; Emma Oster; Jenny Ottosson; Linda Paavilainen; Anja Persson; Rebecca Rimini; Johan Rockberg; Marcus Runeson; Asa Sivertsson; Anna Sköllermo; Johanna Steen; Maria Stenvall; Fredrik Sterky; Sara Strömberg; Mårten Sundberg; Hanna Tegel; Samuel Tourle; Eva Wahlund; Annelie Waldén; Jinghong Wan; Henrik Wernérus; Joakim Westberg; Kenneth Wester; Ulla Wrethagen; Lan Lan Xu; Sophia Hober; Fredrik Pontén
Journal:  Mol Cell Proteomics       Date:  2005-08-27       Impact factor: 5.911

6.  Towards a human proteome atlas: high-throughput generation of mono-specific antibodies for tissue profiling.

Authors:  Peter Nilsson; Linda Paavilainen; Karin Larsson; Jenny Odling; Mårten Sundberg; Ann-Catrin Andersson; Caroline Kampf; Anja Persson; Cristina Al-Khalili Szigyarto; Jenny Ottosson; Erik Björling; Sophia Hober; Henrik Wernérus; Kenneth Wester; Fredrik Pontén; Mathias Uhlen
Journal:  Proteomics       Date:  2005-11       Impact factor: 3.984

7.  Visualizing spatiotemporal dynamics of multicellular cell-cycle progression.

Authors:  Asako Sakaue-Sawano; Hiroshi Kurokawa; Toshifumi Morimura; Aki Hanyu; Hiroshi Hama; Hatsuki Osawa; Saori Kashiwagi; Kiyoko Fukami; Takaki Miyata; Hiroyuki Miyoshi; Takeshi Imamura; Masaharu Ogawa; Hisao Masai; Atsushi Miyawaki
Journal:  Cell       Date:  2008-02-08       Impact factor: 41.582

8.  A subcellular map of the human proteome.

Authors:  Peter J Thul; Lovisa Åkesson; Mikaela Wiking; Diana Mahdessian; Aikaterini Geladaki; Hammou Ait Blal; Tove Alm; Anna Asplund; Lars Björk; Lisa M Breckels; Anna Bäckström; Frida Danielsson; Linn Fagerberg; Jenny Fall; Laurent Gatto; Christian Gnann; Sophia Hober; Martin Hjelmare; Fredric Johansson; Sunjae Lee; Cecilia Lindskog; Jan Mulder; Claire M Mulvey; Peter Nilsson; Per Oksvold; Johan Rockberg; Rutger Schutten; Jochen M Schwenk; Åsa Sivertsson; Evelina Sjöstedt; Marie Skogs; Charlotte Stadler; Devin P Sullivan; Hanna Tegel; Casper Winsnes; Cheng Zhang; Martin Zwahlen; Adil Mardinoglu; Fredrik Pontén; Kalle von Feilitzen; Kathryn S Lilley; Mathias Uhlén; Emma Lundberg
Journal:  Science       Date:  2017-05-11       Impact factor: 47.728

9.  Complementing tissue characterization by integrating transcriptome profiling from the Human Protein Atlas and from the FANTOM5 consortium.

Authors:  Nancy Yiu-Lin Yu; Björn M Hallström; Linn Fagerberg; Fredrik Ponten; Hideya Kawaji; Piero Carninci; Alistair R R Forrest; Yoshihide Hayashizaki; Mathias Uhlén; Carsten O Daub
Journal:  Nucleic Acids Res       Date:  2015-06-27       Impact factor: 16.971

10.  Ensembl 2016.

Authors:  Andrew Yates; Wasiu Akanni; M Ridwan Amode; Daniel Barrell; Konstantinos Billis; Denise Carvalho-Silva; Carla Cummins; Peter Clapham; Stephen Fitzgerald; Laurent Gil; Carlos García Girón; Leo Gordon; Thibaut Hourlier; Sarah E Hunt; Sophie H Janacek; Nathan Johnson; Thomas Juettemann; Stephen Keenan; Ilias Lavidas; Fergal J Martin; Thomas Maurel; William McLaren; Daniel N Murphy; Rishi Nag; Michael Nuhn; Anne Parker; Mateus Patricio; Miguel Pignatelli; Matthew Rahtz; Harpreet Singh Riat; Daniel Sheppard; Kieron Taylor; Anja Thormann; Alessandro Vullo; Steven P Wilder; Amonida Zadissa; Ewan Birney; Jennifer Harrow; Matthieu Muffato; Emily Perry; Magali Ruffier; Giulietta Spudich; Stephen J Trevanion; Fiona Cunningham; Bronwen L Aken; Daniel R Zerbino; Paul Flicek
Journal:  Nucleic Acids Res       Date:  2015-12-19       Impact factor: 16.971

View more
  214 in total

1.  Regulation of Connexin32 by ephrin receptors and T-cell protein-tyrosine phosphatase.

Authors:  Andrew J Trease; Hanjun Li; Gaelle Spagnol; Li Zheng; Kelly L Stauch; Paul L Sorgen
Journal:  J Biol Chem       Date:  2018-11-06       Impact factor: 5.157

2.  Deep learning enables high-quality and high-throughput prediction of enzyme commission numbers.

Authors:  Jae Yong Ryu; Hyun Uk Kim; Sang Yup Lee
Journal:  Proc Natl Acad Sci U S A       Date:  2019-06-20       Impact factor: 11.205

3.  Response to the comment on "Trivalent CAR T cells overcome interpatient antigenic variability in glioblastoma" by Bielamowicz et al.

Authors:  Sujith K Joseph; Hebatalla Samaha; Kevin Bielamowicz; Nabil Ahmed
Journal:  Neuro Oncol       Date:  2018-06-18       Impact factor: 12.300

4.  COVID-19 and the Digestive System.

Authors:  Chunxiang Ma; Yingzi Cong; Hu Zhang
Journal:  Am J Gastroenterol       Date:  2020-05-22       Impact factor: 10.864

5.  A human cell atlas of fetal gene expression.

Authors:  Junyue Cao; Diana R O'Day; Hannah A Pliner; Paul D Kingsley; Mei Deng; Riza M Daza; Michael A Zager; Kimberly A Aldinger; Ronnie Blecher-Gonen; Fan Zhang; Malte Spielmann; James Palis; Dan Doherty; Frank J Steemers; Ian A Glass; Cole Trapnell; Jay Shendure
Journal:  Science       Date:  2020-11-13       Impact factor: 47.728

6.  Comparison of Human Tissue Microarray to Human Pericyte Transcriptome Yields Novel Perivascular Cell Markers.

Authors:  Ching Yun Hsu; Mario Gomez Salazar; Sarah Miller; Carolyn Meyers; Catherine Ding; Winters Hardy; Bruno Péault; Aaron W James
Journal:  Stem Cells Dev       Date:  2019-08-01       Impact factor: 3.272

7.  Inhibition of tumorigenesis by peroxisome proliferator-activated receptor (PPAR)-dependent cell cycle blocks in human skin carcinoma cells.

Authors:  Michael G Borland; Ellen M Kehres; Christina Lee; Ashley L Wagner; Brooke E Shannon; Prajakta P Albrecht; Bokai Zhu; Frank J Gonzalez; Jeffrey M Peters
Journal:  Toxicology       Date:  2018-05-03       Impact factor: 4.221

Review 8.  Big Data in Nephrology.

Authors:  Navchetan Kaur; Sanchita Bhattacharya; Atul J Butte
Journal:  Nat Rev Nephrol       Date:  2021-06-30       Impact factor: 28.314

9.  FAM210A is a novel determinant of bone and muscle structure and strength.

Authors:  Ken-Ichiro Tanaka; Yingben Xue; Loan Nguyen-Yamamoto; John A Morris; Ippei Kanazawa; Toshitsugu Sugimoto; Simon S Wing; J Brent Richards; David Goltzman
Journal:  Proc Natl Acad Sci U S A       Date:  2018-04-04       Impact factor: 11.205

Review 10.  Proteomics: Clinical and research applications in respiratory diseases.

Authors:  Katy C Norman; Bethany B Moore; Kelly B Arnold; David N O'Dwyer
Journal:  Respirology       Date:  2018-08-13       Impact factor: 6.424

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.