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Status
Public on Dec 27, 2014
Title
Agilent-044345 UniversityPadova_Mytilus galloprovincialis_8x60K
Technology type
in situ oligonucleotide
Distribution
custom-commercial
Organism
Mytilus galloprovincialis Manufacturer
Agilent Technologies
Manufacture protocol
See SurePrint Technology at manufacturer's web site http://agilent.com/
Description
Roche 454 sequencing of hemocytes, oocytes, larval stages (trochophores, veliger, pediveliger, settled larvae, one moth seed) and adult tissues (gills, foot, mantle, muscle, digestive gland, gonads) have been performed. A total of 1,325,571 reads have been obtained and assembled through MIRA3 (default parameters). Assembly produced a total of 103,995 transcripts. A preliminary annotation was obtained for 43,218 contigs (41.5%) through Blast similarity searches conducted against several protein databases (e-value 1 E-5). Probe design was carried out using the Agilent eArray interface (https://earray.chem.agilent.com/earray/ ), which applies proprietary prediction algorithms to design 60-mer probes. A total of 59,971 out of 59,997 probes were successfully obtained, representing 50,680 different M. galloprovincialis contigs.
Submission date
May 08, 2014
Last update date
May 08, 2014
Contact name
Massimo Milan
E-mail(s)
massimo.milan@unipd.it Phone
+39 0498272941
Organization name
University of Padova
Department
Dept. of Department of Public Health, Comparative Pathology,and Veterinary Hygiene
Street address
Viale dell'Università 16
City
Legnaro
State/province
PD
ZIP/Postal code
35020
Country
Italy
Samples (69)
GSM1383105 , GSM1383106 , GSM1383107 , GSM1383108 , GSM1383109 , GSM1383110
GSM1383111 ,
GSM1383112 ,
GSM1383113 ,
GSM1383114 ,
GSM1383115 ,
GSM1635562 ,
GSM1635563 ,
GSM1635564 ,
GSM1635565 ,
GSM1635566 ,
GSM1635567 ,
GSM1635568 ,
GSM1635569 ,
GSM1635570 ,
GSM1635571 ,
GSM1635572 ,
GSM1635573 ,
GSM2759916 ,
GSM2759917 ,
GSM2759918 ,
GSM2759919 ,
GSM2759920 ,
GSM2759921 ,
GSM2759922 ,
GSM2759923 ,
GSM2759924 ,
GSM2759925 ,
GSM2759926 ,
GSM2759927 ,
GSM2759928 ,
GSM2759929 ,
GSM2759930 ,
GSM2759931 ,
GSM2759932 ,
GSM2759933 ,
GSM2759934 ,
GSM2759935 ,
GSM2759936 ,
GSM2759937 ,
GSM2759938 ,
GSM2759939 ,
GSM2790863 ,
GSM2790864 ,
GSM2790865 ,
GSM2790866 ,
GSM2790867 ,
GSM2790868 ,
GSM2790869 ,
GSM2790870 ,
GSM2790871 ,
GSM2790872 ,
GSM2790873 ,
GSM2790874 ,
GSM2790875 ,
GSM2790876 ,
GSM2790877 ,
GSM2790878 ,
GSM2790879 ,
GSM2790880 ,
GSM2790881 ,
GSM2790882 ,
GSM2790883 ,
GSM2790884 Series (4)
GSE57460 Pollutants bioavailability and toxicological risk from microplastics to marine mussels
GSE66990 Pollutants bioavailability and toxicological risk from NSAIDs to marine mussels
GSE103295 Long-term exposure of Mytilus galloprovincialis to Diclofenac, Ibuprofen and Ketoprofen: insights into bioavailbility, biomarkers and transcriptomic changes
GSE104153 Revealing Mytilus galloprovincialis transcriptomic profile during ontogeny
Data table header descriptions ID FeatureNum
Row Feature location: row
Col Feature location:column
SubTypeMask Numeric code defining the subtype of any control feature
SubTypeName Name of subtype of any control feature
ControlType Feature control type (0: Control type none; 1: Positive control; -1: Negative control)
ProbeName Identifier for the probe synthesized on the microarray
SEQUENCE Sequence of probe represented on the microarray
ContigName Identifier for the contig
SPOT_ID
Data table ID Row Col SubTypeMask SubTypeName ControlType ProbeName SEQUENCE ContigName SPOT_ID 1
1
1
260
BrightCorner
1
GE_BrightCorner
GE_BrightCorner
2
1
2
66
Structural
1
DarkCorner
DarkCorner
3
1
3
66
Structural
1
DarkCorner
DarkCorner
4
1
4
0
0
ALL2_REP_C63979_P
CAAGAATATGGAGGAGATTGGTTCATATTCCTTAAATCTAGATAATGTACAAGTCGGTGA
ALL2_REP_C63979
ContigName: ALL2_REP_C63979
5
1
5
0
0
ALL2_C103_P
GCTAGACTTGATGATATGAGCGTAAATGAACTGGCAGGTTATTTTGATGACTTTGTTTAT
ALL2_C103
ContigName: ALL2_C103
6
1
6
0
0
HJVT2KG01BVHII_P
GGCCAATCTGCAGCTATTTGATTTCAACGATAGACTTATGAATGAGAAAGTCAGTTTGAA
HJVT2KG01BVHII
ContigName: HJVT2KG01BVHII
7
1
7
0
0
ALL2_REP_C30015_P
CTTCCAATTACATGTTCTTTCAATGCAACTACTAAAGGGACACAGTATATTTGTCGCACT
ALL2_REP_C30015
ContigName: ALL2_REP_C30015
8
1
8
0
0
ALL2_REP_C32325_AS
AACCTTGAACCTCTATCATCCCTTGAAGGTCCTCTATCAAAGTCTCTTGAGGGAAAACCC
ALL2_REP_C32325
ContigName: ALL2_REP_C32325
9
1
9
0
0
ALL2_REP_C34123_S
AACCGGTATCGGCGAATCATTTTGCTTCTTAGACTGTAAGGCATTTAAGAGAATTCTTAA
ALL2_REP_C34123
ContigName: ALL2_REP_C34123
10
1
10
0
0
ALL2_REP_C17998_S
CGTGTTGCATTTGTGAGATTTATAACCATAGACAACATTGAGTTGATGTAAGTGATTTGG
ALL2_REP_C17998
ContigName: ALL2_REP_C17998
11
1
11
0
0
ALL2_REP_C40460_P
TCTGTGTAGTGAGGTATGTTTTTTATGTTCAGATGTGTATTCAGAATAGGCAGCTACCAC
ALL2_REP_C40460
ContigName: ALL2_REP_C40460
12
1
12
0
0
ALL2_C12775_S
GAACAGGGGGTGTTGAAATTAGTGTGGGTCATTAAAATAAAAGAAATGATTCTTTGGATG
ALL2_C12775
ContigName: ALL2_C12775
13
1
13
0
0
ALL2_C59492_P
CAATTGTCAATATCTATTCCTTTAATGGACTGATTGCTTCTTTCCAGTAAAAGCAGTGTG
ALL2_C59492
ContigName: ALL2_C59492
14
1
14
0
0
ALL2_REP_C29903_S
TTTCTTTGGCTGGTCTGAAACTAAAGGATGCTTAATCGTAAGAGGTGACAACACTAAATT
ALL2_REP_C29903
ContigName: ALL2_REP_C29903
15
1
15
0
0
ALL2_REP_C45253_S
CCGAATCATATAGCGCTTCAATGCAAATATGCCTCGATTTAAAACGCTTGTTGATTACAG
ALL2_REP_C45253
ContigName: ALL2_REP_C45253
16
1
16
0
0
ALL2_REP_C14850_P
GCCATTTGCTACAGGAGGATCTGGTAGTACATATGTGTATGGATATGTTGACACACATTA
ALL2_REP_C14850
ContigName: ALL2_REP_C14850
17
1
17
0
0
ALL2_REP_C98636_P
GGAAGAGAGCAAAAGAGTGATGACATTGCTAACGAGATGACTTTATATCATATAGGCATC
ALL2_REP_C98636
ContigName: ALL2_REP_C98636
18
1
18
0
0
ALL2_C57344_P
ATGATCGCAGATATAAGAAAGGGACCTAAGTCAGAGGACCTGATAGACCAAAAGATGGAC
ALL2_C57344
ContigName: ALL2_C57344
19
1
19
0
0
ALL2_C1171_P
GAGTTGTTGAAGAGACAGGGAGTGTTATAACTGACATGTGTTTTTATCAGATCATATTCA
ALL2_C1171
ContigName: ALL2_C1171
20
1
20
0
0
ALL2_C10966_P
AATAACATCAGCTCCAAGTGGATCAGTGTACATACAGTGGGGCAGAAAATCGTGTACCAG
ALL2_C10966
ContigName: ALL2_C10966
61290 7979 Kbytes .Supplementary data files not provided
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