title: Contribution of antibody-based protein profiling to the human Chromosome-centric Proteome Project (C-HPP).
abstract: A gene-centric Human Proteome Project has been proposed to characterize the human protein-coding genes in a chromosome-centered manner to understand human biology and disease. Here, we report on the protein evidence for all genes predicted from the genome sequence based on manual annotation from literature (UniProt), antibody-based profiling in cells, tissues and organs and analysis of the transcript profiles using next generation sequencing in human cell lines of different origins. We estimate that there is good evidence for protein existence for 69% (n = 13985) of the human protein-coding genes, while 23% have only evidence on the RNA level and 7% still lack experimental evidence. Analysis of the expression patterns shows few tissue-specific proteins and approximately half of the genes expressed in all the analyzed cells. The status for each gene with regards to protein evidence is visualized in a chromosome-centric manner as part of a new version of the Human Protein Atlas ( www.proteinatlas.org ).
authors.affiliation: Science for Life Laboratory, KTH-Royal Institute of Technology, Stockholm, Sweden.
authors.forename: Linn
authors.initials: L
authors.lastname: Fagerberg
authors.forename: Per
authors.initials: P
authors.lastname: Oksvold
authors.forename: Marie
authors.initials: M
authors.lastname: Skogs
authors.forename: Cajsa
authors.initials: C
authors.lastname: Algenäs
authors.forename: Emma
authors.initials: E
authors.lastname: Lundberg
authors.forename: Fredrik
authors.initials: F
authors.lastname: Pontén
authors.forename: Asa
authors.initials: A
authors.lastname: Sivertsson
authors.forename: Jacob
authors.initials: J
authors.lastname: Odeberg
authors.forename: Daniel
authors.initials: D
authors.lastname: Klevebring
authors.forename: Caroline
authors.initials: C
authors.lastname: Kampf
authors.forename: Anna
authors.initials: A
authors.lastname: Asplund
authors.forename: Evelina
authors.initials: E
authors.lastname: Sjöstedt
authors.forename: Cristina
authors.initials: C
authors.lastname: Al-Khalili Szigyarto
authors.forename: Per-Henrik
authors.initials: PH
authors.lastname: Edqvist
authors.forename: Ingmarie
authors.initials: I
authors.lastname: Olsson
authors.forename: Urban
authors.initials: U
authors.lastname: Rydberg
authors.forename: Paul
authors.initials: P
authors.lastname: Hudson
authors.forename: Jenny
authors.initials: J
authors.lastname: Ottosson Takanen
authors.forename: Holger
authors.initials: H
authors.lastname: Berling
authors.forename: Lisa
authors.initials: L
authors.lastname: Björling
authors.forename: Hanna
authors.initials: H
authors.lastname: Tegel
authors.forename: Johan
authors.initials: J
authors.lastname: Rockberg
authors.forename: Peter
authors.initials: P
authors.lastname: Nilsson
authors.forename: Sanjay
authors.initials: S
authors.lastname: Navani
authors.forename: Karin
authors.initials: K
authors.lastname: Jirström
authors.forename: Jan
authors.initials: J
authors.lastname: Mulder
authors.forename: Jochen M
authors.initials: JM
authors.lastname: Schwenk
authors.forename: Martin
authors.initials: M
authors.lastname: Zwahlen
authors.forename: Sophia
authors.initials: S
authors.lastname: Hober
authors.forename: Mattias
authors.initials: M
authors.lastname: Forsberg
authors.forename: Kalle
authors.initials: K
authors.lastname: von Feilitzen
authors.forename: Mathias
authors.initials: M
authors.lastname: Uhlén
mesh_terms: D000906:Antibodies / Q000737:chemistry*; D002460:Cell Line; D045744:Cell Line, Tumor; D002877:Chromosomes, Human / Q000737:chemistry*; D015870:Gene Expression; D020869:Gene Expression Profiling; D015894:Genome, Human; D016045:Human Genome Project; D006801:Humans; D008856:Microscopy, Fluorescence; D009363:Neoplasm Proteins / Q000235:genetics / Q000302:isolation & purification* / Q000378:metabolism; D009369:Neoplasms / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism; D020411:Oligonucleotide Array Sequence Analysis; D020543:Proteome / Q000235:genetics / Q000302:isolation & purification* / Q000378:metabolism; D012333:RNA, Messenger / Q000235:genetics / Q000378:metabolism
chemical_list: D000906:Antibodies; D009363:Neoplasm Proteins; D020543:Proteome; D012333:RNA, Messenger