Min-Sik Kim^1,2, Sneha M. Pinto³, Derese Getnet^1,4, Raja Sekhar Nirujogi³, Srikanth S. Manda³, Raghothama Chaerkady^1,2, Anil K. Madugundu³, Dhanashree S. Kelkar³, Ruth Isserlin⁵, Shobhit Jain⁵, Joji K. Thomas³, Babylakshmi Muthusamy³, Pamela Leal-Rojas^1,6, Praveen Kumar³, Nandini A. Sahasrabuddhe³, Lavanya Balakrishnan³, Jayshree Advani³, Bijesh George³, Santosh Renuse³, Lakshmi Dhevi N. Selvan³, Arun H. Patil³, Vishalakshi Nanjappa³, Aneesha Radhakrishnan³, Samarjeet Prasad¹, Tejaswini Subbannayya³, Rajesh Raju³, Manish Kumar³, Sreelakshmi K. Sreenivasamurthy³, Arivusudar Marimuthu³, Gajanan J. Sathe³, Sandip Chavan³, Keshava K. Datta³, Yashwanth Subbannayya³, Apeksha Sahu³, Soujanya D. Yelamanchi³, Savita Jayaram³, Pavithra Rajagopalan³, Jyoti Sharma³, Krishna R. Murthy³, Nazia Syed³, Renu Goel³, Aafaque A. Khan³, Sartaj Ahmad³, Gourav Dey³, Keshav Mudgal⁷, Aditi Chatterjee³, Tai-Chung Huang¹, Jun Zhong¹, XinyanWu^1,2, Patrick G. Shaw¹, Donald Freed¹, Muhammad S. Zahari², Kanchan K. Mukherjee⁸, Subramanian Shankar⁹, Anita Mahadevan^10,11, Henry Lam¹², Christopher J. Mitchell¹, Susarla Krishna Shankar^10,11, Parthasarathy Satishchandra¹³, John T. Schroeder¹⁴, Ravi Sirdeshmukh³, Anirban Maitra^15,16, Steven D. Leach^1,17, Charles G. Drake^16,18, Marc K. Halushka¹⁵, T. S. Keshava Prasad³, Ralph H. Hruban^15,16, Candace L. Kerr^19†, Gary D. Bader⁵, Christine A. Iacobuzio-Donahue^15,16,17, Harsha Gowda³ & Akhilesh Pandey^{1,2,3,4,15,16,20}

¹McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA. ²Department of Biological Chemistry, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA. ³Institute of Bioinformatics, International Tech Park, Bangalore 560066, India. ⁴Adrienne Helis Malvin Medical Research Foundation, New Orleans, Louisiana 70130, USA. ⁵The Donnelly Centre, University of Toronto, Toronto, OntarioM5S3E1, Canada. ⁶Department of Pathology, Universidad de La Frontera, Center of Genetic and Immunological Studies-Scientific and Technological Bioresource Nucleus, Temuco 4811230, Chile. ⁷School of Medicine, Imperial College London, South Kensington Campus, London SW7 2AZ, UK. ⁸Department of Neurosurgery, Postgraduate Institute of Medical Education & Research, Chandigarh 160012, India. ⁹Department of Internal Medicine Armed Forces Medical College, Pune 411040, India. ¹⁰Department of Neuropathology, National Institute of Mental Health and Neurosciences, Bangalore 560029, India. ¹¹HumanBrain Tissue Repository, Neurobiology Research Centre, National Institute of Mental Health and Neurosciences, Bangalore 560029, India. ¹²Department of Chemical and Biomolecular Engineering and Division of Biomedical Engineering, The Hong Kong University of Science and Technology, Clear Water Bay, Hong Kong. ¹³Department of Neurology, National Institute of Mental Health and Neurosciences, Bangalore 560029, India. ¹⁴Department of Medicine, Johns Hopkins University School of Medicine, Baltimore, Maryland 21224, USA. ¹⁵The Sol Goldman Pancreatic Cancer Research Center, Department of Pathology, Johns Hopkins University School of Medicine, Baltimore, Maryland 21231, USA. ¹⁶Department of Oncology, Johns Hopkins University School of Medicine, Baltimore, Maryland 21231, USA. ¹⁷Department of Surgery, Johns Hopkins University School of Medicine, Baltimore, Maryland 21231, USA. ¹⁸Departments of Immunology and Urology, Sidney Kimmel Comprehensive Cancer Center, Johns Hopkins University School of Medicine, Baltimore, Maryland 21231, USA. ¹⁹Department of Obstetrics and Gynecology, Johns Hopkins University School of Medicine Baltimore, Maryland 21205, USA. ²⁰Diana Helis Henry Medical Research Foundation, New Orleans, Louisiana 70130, USA. ^†Present address: Department of Biochemistry and Molecular Biology, University of Maryland School of Medicine, Baltimore, Maryland 21201, USA.

Correspondence to: Harsha Gowda or Akhilesh Pandey

Abstract
The availability of human genome sequence has transformed biomedical research over the past decade. However, an equivalent map for the human proteome with direct measurements of proteins and peptides does not exist yet. Here we present a draft map of the human proteome using high-resolution Fourier-transform mass spectrometry. In-depth proteomic profiling of 30 histologically normal human samples, including 17 adult tissues, 7 fetal tissues and 6 purified primary haematopoietic cells, resulted in identification of proteins encoded by 17,294 genes accounting for approximately 84% of the total annotated protein-coding genes in humans. A unique and comprehensive strategy for proteogenomic analysis enabled us to discover a number of novel protein-coding regions, which includes translated pseudogenes, non-coding RNAs and upstream open reading frames. This large human proteome catalogue (available as an interactive web-based resource at http://www.humanproteomemap.org) will complement available human genome and transcriptome data to accelerate biomedical research in health and disease.