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Table 1 High throughput studies compiled in Cildb V3.0

From: Remodeling Cildb, a popular database for cilia and links for ciliopathies

Reference for the study Method Species Ciliary analysis
Andersen et al., 2003 [3] Centriole proteome Homo sapiens yes
Arnaiz et al., 2009 [1] Cilium proteome Paramecium tetraurelia yes
Arnaiz et al., 2010 [7] Expression during ciliogenesis Paramecium tetraurelia yes
Avidor-Reiss et al., 2004 [8] Comparative genomics Drosophila melanogaster yes
Baker et al., 2008a [9] Spermatozoa proteome Mus musculus no
Baker et al., 2008b [10] Spermatozoa proteome Rattus norvegicus no
Bechstedt et al., 2010 [11] Expression in tissues containing sensory cilia Drosophila melanogaster yes
Blacque et al., 2005 [12] Differential expression between ciliated and non ciliated cells Caenorhabditis elegans yes
Blacque et al., 2005 [12] Genomic screening for X-boxes in promoters Caenorhabditis elegans yes
Boesger et al., 2009 [13] Flagellum phosphoproteome Chlamydomonas reinhardtii yes
Broadhead et al., 2006 [14] Flagellum proteome Trypanosoma brucei yes
Cachero et al., 2011 [15] Expression in early development of future neural cells Drosophila melanogaster no
Cao et al., 2006 [16] Sperm flagellar axonemes proteome Mus musculus yes
Chen et al., 2006 [17] Expression in daf-19 mutant Caenorhabditis elegans yes
Datta et al., 2011 [18] Gene expression with HIPPI expression modulation Homo sapiens no
Dorus et al., 2006 [19] Spermatozoa proteome Drosophila melanogaster no
Efimenko et al., 2005 [20] Genomic screening for X-boxes in promoters Caenorhabditis elegans yes
Fritz-Laylin and Cande, 2010 [21] Flagellum proteome Naegleria gruberi yes
Geremek et al., 2011 [22] Expression in primary ciliary dyskinesia patients Homo sapiens yes
Geremek et al., 2014 [23] Expression in primary ciliary dyskinesia patients Homo sapiens yes
Guo et al., 2010 [24] Proteomics associated with spermiogenesis Mus musculus no
Hodges et al., 2011 [25] Comparative genomics Chlamydomonas reinhardtii yes
Hoh et al., 2012 [26] Expression in multiciliated cells from trachea Mus musculus yes
Huang et al., 2008 [27] Proteomics associated with spermiogenesis Mus musculus no
Hughes et al., 2008 [28] Proteome of Microtubule-Associated Proteins Drosophila melanogaster no
Ishikawa et al., 2012 [29] Primary cilium proteome Mus musculus yes
Ivliev et al., 2012 [30] Expression profile in different tissues Homo sapiens yes
Jakobsen et al., 2011 [31] Centrosome proteomics Homo sapiens yes
Keller et al., 2005 [32] Expression during ciliogenesis Chlamydomonas reinhardtii yes
Keller et al., 2005 [32] Basal body proteome Chlamydomonas reinhardtii yes
Kilburn et al., 2007 [33] Basal body proteome Tetrahymena thermophila yes
Kim et al., 2010 [34] Ciliogenesis modulation Homo sapiens yes
Kubo et al., 2008 [35] Expression in ciliated tissues Homo sapiens yes
Laurençon et al., 2007 [36] Genomic screening for X-boxes in promoters Drosophila melanogaster yes
Lauwaet et al., 2011 [37] Homology search for basal body proteins Giardia lamblia yes
Lauwaet et al., 2011 [37] Basal body proteome Giardia lamblia yes
Li et al., 2004 [38] Comparative genomics Chlamydomonas reinhardtii yes
Liu et al., 2007 [39] Cilium proteome Mus musculus yes
Martínez-Heredia et al., 2006 [40] Spermatozoa proteome Homo sapiens no
Mayer et al., 2008 [41] Cilium proteome Rattus norvegicus yes
Mayer et al., 2009 [42] Cilium proteome Rattus norvegicus yes
McClintock et al., 2008 [43] Expression in ciliated tissues Mus musculus yes
Merchant et al., 2007 [44] Comparative genomics Chlamydomonas reinhardtii yes
Müller et al., 2010 [45] Centrosome proteome Drosophila melanogaster yes
Nakachi et al., 2011 [46] Sperm tail proteome Ciona intestinalis yes
Nogales-Cadenas et al., 2009 [47] Centrosome human curation Homo sapiens yes
Ostrowski et al., 2002 [2] Cilium proteome Homo sapiens yes
Pazour et al., 2005 [5] Expression during ciliogenesis Chlamydomonas reinhardtii yes
Pazour et al., 2005 [5] Flagellum proteome Chlamydomonas reinhardtii yes
Phirke et al., 2011 [48] Down and upregulated genes in daf-19 mutant Caenorhabditis elegans yes
Reinders et al., 2006 [49] Nuclear-associated body proteome Dictyostelium discoideum no
Ross et al., 2007 [50] Expression during ciliogenesis Homo sapiens yes
Sakamoto et al., 2008 [51] Proteome of Microtubule-Associated Proteins Rattus norvegicus no
Sauer et al., 2005 [52] Mitotic spindle proteome Homo sapiens no
Smith et al., 2005 [53] Cilium proteome Tetrahymena thermophila yes
Stolc et al., 2005 [54] Expression during ciliogenesis Chlamydomonas reinhardtii yes
Stubbs et al., 2008 [55] Expression Under FoxJ1 silencing Xenopus laevis yes
Wigge et al., 1998 [56] Spindle pole body proteome Saccharomyces cerevisiae no
Yano et al., 2013 [57] Ciliary membrane proteome Paramecium tetraurelia yes
  1. The high throughput studies present in Cildb V3.0 are summarized in thetable with indication in the second column whether it is a proteomic, geneexpression, or genomic study. The species in which the studies have beenperformed are specified in the third column. In the fourth column is thefact whether a given study is ciliary (concerns cilia, flagella, basalbodies, centrioles, centrosomes or spindle pole bodies) or not. The table isordered alphabetically by first author of publication of the studies presentin Cildb V3.0.