modENCODE Blog

These two tables provide estimated expression levels for annotated genes and exons, using signals from Affymetrix Drosophila tiling arrays. The arrays were hybridized with total RNAs extracted from 25 cell lines and 30 developmental stages.

Drosophila_Cell_Lines_and_Developmental_Stages_Exon_Scores.txt
Drosophila_Cell_Lines_and_Developmental_Stages_Gene_Scores.txt

For more information, please see http://www.modencode.org/docs/flyscores.

The tables were compiled by the Bloomington group in the fly transcriptome project of modENCODE (Celniker, PI).

This week we’ve released 1 D. melanogaster data sets:
Celniker – 1 Computational annotation data sets
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This week we’ve released 5 D. melanogaster data sets:
Celniker – 5 RNA tiling array data sets
on the following kinds of samples:
cell lines: CME W1 Cl.8+, ML-DmBG3-c2, S2-DRSC
stages: late embryonic stage, third instar larval stage
tissues: cns-derived cell-line, dorsal mesothoracic disc, embryo-derived cell-line
Read more…

This week we’ve released 8 D. melanogaster data sets:
Celniker – 4 RNA-seq data sets
MacAlpine – 3 ChIP-chip and 1 RNA tiling array data sets
on the following kinds of samples:
cell lines: CME W1 Cl.8+, Kc167, ML-DmBG3-c2, S2-DRSC
stages: adult stage, cleavage stage, early extended germ band stage, embryonic stage, embryonic stage 1, embryonic stage 2, embryonic stage 3, late embryonic stage, third instar larval stage
strain: y; cn bw sp
tissues: cns-derived cell-line, dorsal mesothoracic disc, embryo-derived cell-line, larval salivary gland, whole organism
Read more…

This week we’ve released 2 D. melanogaster data sets:
Celniker – 1 RNA-seq data sets
White – 1 ChIP-chip data sets
on the following kinds of samples:
antibodies: h3k9me3, no antibody control
cell line: Kc167
stages: late embryonic stage, third instar larval stage
strain: y; cn bw sp
tissues: embryo-derived cell-line, whole organism
Read more…

This week we’ve released 11 D. melanogaster data sets:
Celniker – 1 Computational annotation and 6 RNA sample creation and 3 RNA tiling array data sets
Karpen – 1 ChIP-chip data sets
on the following kinds of samples:

antibody: h3k27ac
cell lines: 1182-4H, CME L1, CME W1 Cl.8+, CME W2, G2, GM2, Kc167, ML-DmBG1-c1, ML-DmBG2-c2, ML-DmBG3-c2, ML-DmD11, ML-DmD16-c3, ML-DmD17-c3, ML-DmD20-c2, ML-DmD20-c5, ML-DmD21, ML-DmD23-c4, ML-DmD32, ML-DmD4-c1, ML-DmD8, ML-DmD9, S1, S2-DRSC, S2R+, S3, Sg4, mbn2
stages: adult stage, cleavage stage, dorsal closure stage, early extended germ band stage, egg stage, embryonic stage, embryonic stage 1, larval stage, late embryonic stage, third instar larval stage
strains: Oregon-R-modENCODE, y; cn bw sp
tissues: antenna disc-derived cell-line, blastoderm cell, cns-derived cell-line, dorsal mesothoracic disc, early embryonic cell, embryo-derived cell-line, embryonic/larval hemocyte, eye-antenna disc-derived cell-line, gastrula cell, imaginal disc-derived cell-line, ventral prothoracic disc, whole organism
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This week we’ve released 1 D. melanogaster data sets:
Celniker – 1 RNA tiling array data sets
on the following kinds of samples:
stages: pharate adult stage, pharate adult stage p8
strain: y; cn bw sp
tissue: whole organism
Read more…

This week we’ve released 6 D. melanogaster data sets:
Celniker – 5 RNA tiling array data sets
Henikoff – 1 RNA tiling array data sets
on the following kinds of samples:

cell lines: S2, S2-DRSC
stages: embryonic stage, embryonic stage 5, embryonic stage 6, embryonic stage 7, embryonic stage 8, late embryonic stage, pharate adult stage, pharate adult stage p15, pharate adult stage p15(i), pharate adult stage p9, prepupal stage, prepupal stage p4, prepupal stage p4(i), prepupal stage p4(ii), pupal stage, pupal stage p6
strains: Oregon-R-modENCODE, y; cn bw sp
tissues: embryo-derived cell-line, whole organism

Read more…

This week we’ve released 4 D. melanogaster data sets:
Celniker – 4 RNA tiling array data sets
on the following kinds of samples:

cell lines: Kc167, ML-DmBG2-c2
stages: egg stage, embryonic stage, embryonic stage 16, fertilized egg stage, late embryonic stage, third instar larval stage, unfertilized egg stage
strain: Oregon-R-modENCODE
tissues: cns-derived cell-line, embryo-derived cell-line, whole organism

Read more…

This week we’ve released 2 D. melanogaster data sets:
Celniker – 1 RTPCR data sets
Lai – 1 (small RNA) RNA-seq data sets
on the following kinds of samples:

cell line: CME L1
stages: pharate adult stage p10, pharate adult stage p11, pharate adult stage p12, pharate adult stage p13, pharate adult stage p14, pharate adult stage p15, third instar larval stage
strain: Canton-S
tissues: ventral prothoracic disc, whole organism

Read more…