FlyBase:ModENCODE data at FlyBase
Revision as of 17:53, 4 March 2023 by Gil519 (talk | contribs) (→Finding Your modENCODE Dataset of Interest)
WARNING
This page is under construction. The link to this temp page is below. https://wiki.flybase.org/wiki/FlyBase:FlyBase_Help_Index#Tools_and_Downloads_Documentation Once this page is finalized, it's intended to replace content at this page. https://wiki.flybase.org/wiki/FlyBase:ModENCODE_RNA-Seq_Overview Once the replacement is complete, delete this page and links to it.
Overview
FlyBase offers a subset of modENCODE datasets that characterize gene expression and transcriptional regulation in Drosophila. The modENCODE datasets incorporated by FlyBase often represent high-level distillations of data, combining or synthesizing data from multiple modENCODE experiments, rather than the raw data from individual experiments. Most modENCODE datasets at FlyBase are available through JBrowse; in some cases, modENCODE data has been combined with data from other non-modENCODE datasets. For RNA-seq datasets, FlyBase provides additional query/analysis tools, as well download files and data displays on gene reports. FlyBase dataset reports provide descriptions of how data was generated and analyzed, as well as links to the original raw data at data repositories.
Please note: While FlyBase hosts a selection of tools for browsing and using modENCODE data, it is not an exhaustive resource for all data generated from the modENCODE project.
RNA-Seq Query Tools and Browsers
The primary RNA-Seq data in FlyBase are the modENCODE data originally published in Graveley et al., 2011 and Brown et al., 2014, comprising 30 developmental stage expression profiles, 29 tissue expression profiles, 25 treatment/condition expression profiles and 24 cell line expression profiles. RNA-Seq reads were mapped to the Release 6 genome assembly as described in Brown et al., 2014; note that data for replicates of a given biological condition were combined. In JBrowse genomic views, several other RNA-Seq datasets are also presented, but the RNA-Seq query tools are restricted to the modENCODE datasets.
A series of video tutorials describing different RNA-Seq tools is available. See
- RNA-Seq Part I: Using GBrowse -- Warning: The GBrowse genome viewer has been updated to JBrowse, but techniques shown here are still useful in JBrowse.
- RNA-Seq Part II: Using RNA-Seq Profile Search
- RNA Seq Part III: Searching for Similarly Expressed Genes
RNA-Seq Data In JBrowse
FlyBase JBrowse has several tracks that display RNA-Seq expression profiles, which give coverage values base-by-base across the genome. Choose datasets for expression by stage, tissue, treatments, or cell lines. By default, the many tracks are displayed in the layered FlyBase “TopoView” format, and data are shown on a log2 scale, since they range over many orders of magnitude. Customization options are offered to help drill down into the data, accessed by clicking on the down arrow in the track title bar.
- Space the data out. Increase the “vertical spacing between samples to prevent strong signal from one sample from obscuring the profile behind it.
- Align the profiles. Change the “Samples presentation style” from “Tilted” (default) to “Vertical” to remove the horizontal offset between adjacent RNA-Seq profiles so that they align horizontally to the same genome position.
- Choose the appropriate scaling method. Log2 scaling provides the best dynamic range for viewing both low and high signal together. Linear scaling is preferable in regions with high baseline signal, and provides a more intuitive view of the relative change in signal.
Additional JBrowse tracks display discrete transcription start sites, exon junctions and RNA A-to-I editing sites identified by analysis of modENCODE RNA-Seq data. The exon junction and editing site tracks also include additional data from non-modENCODE experiments.
RNA-Seq JBrowse Track Listing
JBrowse tracks sourced from modENCODE data (in part or in full) can be enabled via the “Available Tracks” menu on the left pane of the JBrowse viewer. These tracks include:
The FlyBase JBrowse wig files are available for download on the FlyBase FTP site. Note that FlyBase wig files are slightly different from the standard wig format, in that the optional "span" parameter is implied (not explicitly declared): for example, for a run of 5 nucleotides on chr 2L having the same value at each position, only the value for the first position is declared, without the preceding "variableStep chrom=chr2L span=5" information.
RNA-Seq RPKM Data
For most modENCODE RNA-Seq samples, FlyBase calculated the "RPKM" gene expression level within the exonic extent of the gene, as described in Gelbart and Emmert, 2013. These RPKM values are recalculated with each FlyBase release to account for changes in gene transcript structure. For the purposes of presentation and queries, values were assigned to one of eight bins, from very low to extremely high. These RPKM values are displayed on gene reports (see the "Expression Data > High-Throughput Expression Data" section) and can be downloaded from directly from the gene report. RPKM data for all genes can be downloaded from the "Genes" section of the Downloads page.
RNA-Seq Profile
Go to RNA-Seq Part II: Using RNA-Seq Profile Search to see the associated video tutorial.
RNA-Seq Profile is a fine grained query tool, powered by modENCODE high-throughput RNA-Seq expression data (using FlyBase-computed RPKM expression values), that allows you to find genes with specific patterns of expression across several variables. Interested in development of the central nervous system? Search for genes that are expressed in these tissues during a specific developmental stage. Curious how toxins affect the fly reproductive system? Search for genes expressed in fly gonads that are activated (or suppressed) by exposure to Paraquat or Rotenone.
Choose datasets for expression by stage, tissue, treatments, or cell lines, or use several datasets in conjunction. Each dataset is presented in a form that allows you to select either narrow slices of the data, or larger sections for more coverage. You also have control over the levels of expression used in the search, allowing you to define distinct thresholds for the ON and OFF states. Keep in mind that extremely narrow search conditions may produce sparse or empty result sets. Feel free to experiment; the tool will remember your settings so that you can adjust, instead of needing to re-enter them. Search results can be exported, as usual, for further analysis or download.
NB: The group check box selectors are interpreted differently depending on whether you are making selections from the 'Expression ON' or 'Expression OFF' sections. 'Expression ON' selectors: Selecting multiple stages using one of the grouping check boxes acts as an 'OR'. This means that if a gene is expressed at or above the chosen expression level in any one or more of the selected stages it will be returned in the result list. To get 'AND' behavior (i.e., return only those genes which are expressed at the chosen level in each one of the selected stages) you must select each of the stages individually. 'Expression OFF' selectors: Selecting multiple stages using one of the grouping check boxes acts as an 'AND'. This means that for a gene to be returned in the result list, the observed level of expression must be at or below the selected level in all of the selected group stages. Therefore, for the 'expression OFF' selectors, checking a group check box is functionally identical to selecting each individual sub-category.
RNA-Seq Similarity
Go to RNA Seq Part III: Searching for Similarly Expressed Genes to see the associated video tutorial.
RNA-Seq Similarity finds genes with expression patterns that are similar to that of a given gene; this search option can also be launched from the relevant gene page. 'Similar to' in this case means that the pattern of higher and lower expression1 in the categories for the RNA-Seq expression experiment data you choose are close to those of your chosen gene, as measured by the correlation coefficient2 between the data for your given gene and each of the search result genes. Enter your query gene symbol in the box, and choose to search for genes with similar expression by developmental stage, tissue, treatments, or cell lines. You can also specify a subset of experimental samples within a set of RNA-Seq expression data to use when making comparisons. The resulting genes can be exported to a FlyBase hit list.
1 Note that two expression patterns will be flagged as similar if the profile of peaks and troughs of expression have a similar shape, even though one expression pattern may have much higher or lower values overall.
2 FlyBase uses a generalized Spearman rank correlation for this statistic.
RNA-Seq By Region
RNA-Seq By Region can be used to compare the RNA-Seq signal for a given region across samples, or to compare signal between two regions within a single sample.
Supply the symbol or FBgn ID for one gene of interest, and choose to query either the developmental or tissue RNA-Seq profiles. The tool will retrieve the locations of all exons for the gene specified, and report an average RNA-Seq signal for each region. Values are normalized for read depth across a given set, and reported as values from 1 to 50; very high read values are truncated at a value of 50. Alternatively, input one or more genomic regions using standard GBrowse coordinate nomenclature (e.g., X:350000..351000) and the tool will return the average RNA-Seq signal for each submitted genomic span; for multiple regions, enter one region per line in the input box.
For fast visual inspection of the potentially large expression tables, the background of table cells is colored in the same way as in the heatmap coloring schema of expression histograms in FlyBase gene reports. These tables can be copied and downloaded and used for further analysis.
Note that the signal reported for a given region may arise from the expression of multiple transcripts from one or more genes; the tool simply reports the total signal for that region and does not attempt to assign the expression in that region to any specific transcript.
Download RNA-Seq Data
Each FlyBase analysis tool described above offers a way to download the results.
RPKM data for a specific gene can be downloaded from directly from the gene report "Expression Data" section. RPKM data for all genes can be downloaded from the "Genes" section of the Downloads page.
FlyBase JBrowse wig files are available for download on the FlyBase FTP site. Note that the format is more compact: for a run of nucleotides having the same coverage value, only the first nucleotide in the run is declared in the file.
Transcriptional Regulation Datasets
Transcriptional Regulation Data In JBrowse
FlyBase JBrowse has several tracks that display regions of distinct chromatin configurations, origins of replication, insulators, and transcription factor binding sites (TFBS), determined by ChIP-chip and ChIP-Seq experiments.
Transcriptional Regulation JBrowse Track Listing
JBrowse tracks describing aspects of chromatin and transcriptional regulation that were sourced from modENCODE data can be enabled via the “Available Tracks” menu on the left pane of the JBrowse viewer. These tracks are all located in the Genome Level Features track section and are listed in the table below.
| Track section | Track name | FlyBase Dataset(s) | JBrowse Track Description |
|---|---|---|---|
| Genome Level Features >Chromatin Features |
Chromatin Domains (9-state model, S2 cells) | Chromatin_types_mE1.S2 | Chromatin Feature Tracks |
| Genome Level Features >Chromatin Features |
Chromatin Domains (9-state model, BG3 cells) | Chromatin_types_mE1.BG3 | Chromatin Feature Tracks |
| Genome Level Features >Transcriptional Regulatory Elements |
Insulators (modENCODE, class I) | Insulator_Class_I.mE01 | Transcriptional Regulatory Elements Tracks |
| Genome Level Features >Transcriptional Regulatory Elements |
Insulators (modENCODE, class II) | Insulator_Class_II.mE01 | Transcriptional Regulatory Elements Tracks |
| Genome Level Features >Transcriptional Regulatory Elements |
Putative PREs (modENCODE) | mE1_HDAC_PRE | Transcriptional Regulatory Elements Tracks |
| Genome Level Features >Transcription Factor Binding Sites (TFBS) >TFBS (modENCODE, ChIP-chip, whole embryo) |
whole embryo, TFBS HOT spot analysis | mE1_TFBS_HSA | TFBS Tracks |
| Genome Level Features >Transcription Factor Binding Sites (TFBS) >TFBS (modENCODE, ChIP-chip, whole embryo) |
whole embryo, ZINC Finger TFBS | mE1_TFBS_disco mE1_TFBS_ftz-f1 mE1_TFBS_GATAe BDTNP1_TFBS_hb mE1_TFBS_hkb BDTNP1_TFBS_kni mE1_TFBS_Kr mE1_TFBS_sbb mE1_TFBS_sens BDTNP1_TFBS_shn BDTNP1_TFBS_sna BDTNP1_TFBS_tll mE1_TFBS_zfh1 |
TFBS Tracks |
| Genome Level Features >Transcription Factor Binding Sites (TFBS) >TFBS (modENCODE, ChIP-chip, whole embryo) |
whole embryo, Homeodomain TFBS | BDTNP1_TFBS_bcd mE1_TFBS_cad mE1_TFBS_Dll mE1_TFBS_en mE1_TFBS_eve BDTNP1_TFBS_ftz mE1_TFBS_inv BDTNP1_TFBS_prd mE1_TFBS_Ubx BDTNP1_TFBS_z |
TFBS Tracks |
| Genome Level Features >Transcription Factor Binding Sites (TFBS) >TFBS (modENCODE, ChIP-chip, whole embryo) |
whole embryo, Helix-loop-helix TFBS | BDTNP1_TFBS_da mE1_TFBS_h mE1_TFBS_kn BDTNP1_TFBS_twi |
TFBS Tracks |
| Genome Level Features >Transcription Factor Binding Sites (TFBS) >TFBS (modENCODE, ChIP-chip, whole embryo) |
whole embryo, BTB/POS ChIP TFBS | mE1_TFBS_bab1 mE1_TFBS_chinmo mE1_TFBS_Trl mE1_TFBS_ttk |
TFBS Tracks |
| Genome Level Features >Transcription Factor Binding Sites (TFBS) >TFBS (modENCODE, ChIP-chip, whole embryo) |
whole embryo, Other classes TFBS | mE1_TFBS_cnc mE1_TFBS_D BDTNP1_TFBS_dl BDTNP1_TFBS_gt mE1_TFBS_jumu BDTNP1_TFBS_Mad BDTNP1_TFBS_Med mE1_TFBS_run BDTNP1_TFBS_slp1 mE1_TFBS_Stat92E |
TFBS Tracks |
| Genome Level Features >Other Sequence Elements |
Origins of replication (modENCODE, Kc, S2, BG3 cells) | mE_Early_Replication_Origins_cells | Other Sequence Element Tracks |
Download Data
For JBrowse tracks representing discrete regions (like ChIP binding regions, chromatin domains, etc), the locations of those features can be downloaded using the JBrowse track menu (at the top left of the track), for either the region in view or the entire chromosome scaffold being viewed, in GFF3, BED or Sequin formats. Unfortunately, download of genome-wide data for a given JBrowse track is not supported.
Currently, the only way to download genome-wide data for a given dataset in JBrowse is to parse it from the single large FlyBase GFF file that powers FlyBase JBrowse, using dataset name and/or FlyBase "FBlc" identifier in column 9 of the GFF file: e.g., _Library=mE1_TFBS_chinmo:FBlc0000289.
Finding Your modENCODE Dataset of Interest
Below is a list of all FlyBase datasets representing modENCODE data, along with modENCODE, NCBI GEO and SRA identifiers. FlyBase datasets offer succinct descriptions of the sample prep and data analysis methods. For raw data, please follow links to NCBI GEO or SRA. If you can't find your modENCODE dataset of interest, we recommend searching for the dataset at NCBI GEO or dataMED. If searching using the modENCODE identifier, it may be helpful to add modencode_ or modencode_submission_ as a prefix to the identifier.
- Note:*** This list still needs to be verified against Chris T's independent RNA-seq list.
| data_type | flybase_dataset | species | dataset_type | dataset_title | modencode_submission_ids | ncbi_bioproject_ids | ncbi_geo_ids | sra_ids | flybase_representation |
|---|---|---|---|---|---|---|---|---|---|
| Expression | [https:flybase.org/reports/FBlc0000260.html modENCODE_mRNA-Seq_cell.B] | D. melanogaster | project | Transcriptional profile of D. melanogaster cell lines, stranded RNA-Seq, modENCODE. | 555 | PRJNA75285 | SRP003893 | Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | |
| Expression | [https:flybase.org/reports/FBlc0001414.html RNA-Seq_mE4391_1182-4H] | D. melanogaster | assay | RNA-Seq of D. melanogaster, 1182-4H cell line, modENCODE. | 4391 | SRX029185 | Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001415.html RNA-Seq_mE4392_CME-L1] | D. melanogaster | assay | RNA-Seq of D. melanogaster, CME-L1 cell line, modENCODE. | 4392 | SRX029186 SRX029187 |
Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001312.html RNA-Seq_mE5955_CME-W1-Cl.8+] | D. melanogaster | assay | RNA-Seq of D. melanogaster, CME-W1-Cl.8+ cell line, modENCODE, unstranded. | 5955 | GSM390061 GSM390062 |
SRX003834 SRX003835 |
Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | |
| Expression | [https:flybase.org/reports/FBlc0001408.html RNA-Seq_mE4393_CME-W2] | D. melanogaster | assay | RNA-Seq of D. melanogaster, CME-W2 cell line, modENCODE. | 4393 | SRX029188 SRX029189 SRX045355 |
Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001431.html RNA-Seq_mE5966_fGS-OSS] | D. melanogaster | assay | RNA-Seq of D. melanogaster, fGS/OSS cell line, modENCODE. | 5966 | SRX149409 | Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001409.html RNA-Seq_mE4394_GM2] | D. melanogaster | assay | RNA-Seq of D. melanogaster, GM2 cell line, modENCODE. | 4394 | SRX029190 SRX029191 SRX029192 |
Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001315.html RNA-Seq_mE4395_Kc167] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Kc167 cell line, modENCODE, unstranded. | 5952 | GSM390059 GSM390060 |
SRX003836 SRX003837 |
Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | |
| Expression | [https:flybase.org/reports/FBlc0001410.html RNA-Seq_mE4396_mbn2] | D. melanogaster | assay | RNA-Seq of D. melanogaster, mbn2 cell line, modENCODE. | 4396 | SRX029196 SRX045354 |
Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001417.html RNA-Seq_mE4397_ML-DmBG1-c1] | D. melanogaster | assay | RNA-Seq of D. melanogaster, ML-DmBG1-c1 cell line, modENCODE. | 4397 | SRX029199 | Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001411.html RNA-Seq_mE4398_ML-DmBG2-c2] | D. melanogaster | assay | RNA-Seq of D. melanogaster, ML-DmBG2-c2 cell line, modENCODE. | 4398 | SRX029197 SRX029198 SRX045357 |
Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001313.html RNA-Seq_mE5954_ML-DmBG3-c2] | D. melanogaster | assay | RNA-Seq of D. melanogaster, ML-DmBG3-c2 cell line, modENCODE, unstranded. | 5954 | GSM390065 GSM390066 |
SRX003838 SRX003839 |
Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | |
| Expression | [https:flybase.org/reports/FBlc0001418.html RNA-Seq_mE4399_ML-DmD11] | D. melanogaster | assay | RNA-Seq of D. melanogaster, ML-DmD11 cell line, modENCODE. | 4399 | SRX029200 SRX029201 SRX045356 |
Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001419.html RNA-Seq_mE4400_ML-DmD16-c3] | D. melanogaster | assay | RNA-Seq of D. melanogaster, ML-DmD16-c3 cell line, modENCODE. | 4400 | SRX029202 SRX029203 |
Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001420.html RNA-Seq_mE4401_ML-DmD17-c3] | D. melanogaster | assay | RNA-Seq of D. melanogaster, ML-DmD17-c3 cell line, modENCODE. | 4401 | SRX029204 SRX029205 |
Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001412.html RNA-Seq_mE4402_ML-DmD20-c5] | D. melanogaster | assay | RNA-Seq of D. melanogaster, ML-DmD20-c5 cell line, modENCODE. | 4402 | SRX029206 SRX045353 |
Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001421.html RNA-Seq_mE4403_ML-DmD21] | D. melanogaster | assay | RNA-Seq of D. melanogaster, ML-DmD21 cell line, modENCODE. | 4403 | SRX029207 | Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001422.html RNA-Seq_mE4404_ML-DmD32] | D. melanogaster | assay | RNA-Seq of D. melanogaster, ML-DmD32 cell line, modENCODE. | 4404 | SRX029208 SRX029209 SRX045358 |
Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001423.html RNA-Seq_mE4405_ML-DmD4-c1] | D. melanogaster | assay | RNA-Seq of D. melanogaster, ML-DmD4-c1 cell line, modENCODE. | 4405 | SRX029210 SRX045359 |
Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001424.html RNA-Seq_mE4406_ML-DmD8] | D. melanogaster | assay | RNA-Seq of D. melanogaster, ML-DmD8 cell line, modENCODE. | 4406 | SRX029211 | Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001425.html RNA-Seq_mE4407_ML-DmD9] | D. melanogaster | assay | RNA-Seq of D. melanogaster, ML-DmD9 cell line, modENCODE. | 4407 | SRX029212 | Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001430.html RNA-Seq_mE5965_OSC] | D. melanogaster | assay | RNA-Seq of D. melanogaster, OSC cell line, modENCODE. | 5965 | SRX149408 | Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001429.html RNA-Seq_mE5964_OSS] | D. melanogaster | assay | RNA-Seq of D. melanogaster, OSS cell line, modENCODE. | 5964 | SRX149407 | Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001426.html RNA-Seq_mE4408_S1] | D. melanogaster | assay | RNA-Seq of D. melanogaster, S1 cell line, modENCODE. | 4408 | SRX029213 SRX029214 SRX045352 |
Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001314.html RNA-Seq_mE5953_S2-DRSC] | D. melanogaster | assay | RNA-Seq of D. melanogaster, S2-DRSC cell line, modENCODE, unstranded. | 5953 | GSM390063 GSM390064 |
SRX003840 SRX003841 |
Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | |
| Expression | [https:flybase.org/reports/FBlc0001427.html RNA-Seq_mE4409_S2R+] | D. melanogaster | assay | RNA-Seq of D. melanogaster, S2R+ cell line, modENCODE. | 4409 | SRX029215 SRX029216 SRX029217 SRX246395 SRX246396 SRX246397 SRX246398 SRX246399 SRX246400 |
Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001413.html RNA-Seq_mE4410_S3] | D. melanogaster | assay | RNA-Seq of D. melanogaster, S3 cell line, modENCODE. | 4410 | SRX029218 SRX045351 |
Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001428.html RNA-Seq_mE4411_Sg4] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Sg4 cell line, modENCODE. | 4411 | SRX029219 | Cell Lines: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0000085.html modENCODE_mRNA-Seq_development] | D. melanogaster | project | Transcriptional profile of D. melanogaster developmental stages, unstranded RNA-Seq, modENCODE. | 574 | PRJNA75285 | SRP001065 | Developmental stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | |
| Expression | [https:flybase.org/reports/FBlc0001341.html RNA-Seq_mE4433_AF_1d] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, adult female (1 day post-eclosion), modENCODE, unstranded. | 4433 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001343.html RNA-Seq_mE4434_AF_30d] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, adult female (30 days post-eclosion), modENCODE, unstranded. | 4434 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001342.html RNA-Seq_mE4435_AF_5d] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, adult female (5 days post-eclosion), modENCODE, unstranded. | 4435 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001344.html RNA-Seq_mE4436_AM_1d] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, adult male (1 day post-eclosion), modENCODE, unstranded. | 4436 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001346.html RNA-Seq_mE4437_AM_30d] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, adult male (30 days post-eclosion), modENCODE, unstranded. | 4437 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001345.html RNA-Seq_mE4438_AM_5d] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, adult male (5 days post-eclosion), modENCODE, unstranded. | 4438 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001317.html RNA-Seq_mE4439_E1-4] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, embryo (0-2hr AEL), modENCODE, unstranded. | 4439 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001322.html RNA-Seq_mE4440_E13-15] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, embryo (10-12hr AEL), modENCODE, unstranded. | 4440 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001323.html RNA-Seq_mE4441_E15-16] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, embryo (12-14hr AEL), modENCODE, unstranded. | 4441 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001324.html RNA-Seq_mE4442_E16] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, embryo (14-16hr AEL), modENCODE, unstranded. | 4442 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001325.html RNA-Seq_mE4443_E17(i)] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, embryo (16-18hr AEL), modENCODE, unstranded. | 4443 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001326.html RNA-Seq_mE4444_E17(ii)] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, embryo (18-20hr AEL), modENCODE, unstranded. | 4444 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001318.html RNA-Seq_mE4447_E4-9] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, embryo (2-4hr AEL), modENCODE, unstranded. | 4447 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001327.html RNA-Seq_mE4445_E17(iii)] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, embryo (20-22hr AEL), modENCODE, unstranded. | 4445 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001328.html RNA-Seq_mE4446_E17(iv)] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, embryo (22-24hr AEL), modENCODE, unstranded. | 4446 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001319.html RNA-Seq_mE4448_E9-11] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, embryo (4-6hr AEL), modENCODE, unstranded. | 4448 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001320.html RNA-Seq_mE4449_E11-12] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, embryo (6-8hr AEL), modENCODE, unstranded. | 4449 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001321.html RNA-Seq_mE4450_E12-13] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, embryo (8-10hr AEL), modENCODE, unstranded. | 4450 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001329.html RNA-Seq_mE4451_L1] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, larva (L1), modENCODE, unstranded. | 4451 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001330.html RNA-Seq_mE4452_L2] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, larva (L2), modENCODE, unstranded. | 4452 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001331.html RNA-Seq_mE4453_L3_12hr] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, larva (L3, 12hr post-molt), modENCODE, unstranded. | 4453 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001334.html RNA-Seq_mE4456_L3_PS7-9] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, larva (L3, clear gut), modENCODE, unstranded. | 4456 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001332.html RNA-Seq_mE4454_L3_PS1-2] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, larva (L3, dark gut), modENCODE, unstranded. | 4454 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001333.html RNA-Seq_mE4455_L3_PS3-6] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, larva (L3, light gut), modENCODE, unstranded. | 4455 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001338.html RNA-Seq_mE4459_P8] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, pharate adult (2 days APF), modENCODE, unstranded. | 4459 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001339.html RNA-Seq_mE4460_P9-10] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, pharate adult (3 days APF), modENCODE, unstranded. | 4460 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001340.html RNA-Seq_mE4461_P15] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, pharate adult (4 days APF), modENCODE, unstranded. | 4461 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001336.html RNA-Seq_mE4457_P5] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, pupa (12hr APF), modENCODE, unstranded. | 4457 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001337.html RNA-Seq_mE4458_P6] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, pupa (24hr APF), modENCODE, unstranded. | 4458 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001335.html RNA-Seq_mE4462_WPP] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, white prepupa, modENCODE, unstranded. | 4462 | SRX007811 SRX008180 SRX008227 SRX008238 SRX008258 |
Developmental Stages: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0000206.html modENCODE_mRNA-Seq_tissues] | D. melanogaster | project | Transcriptional profile of D. melanogaster tissues, stranded RNA-Seq, modENCODE. | 3207 | PRJNA75285 | SRP003905 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | |
| Expression | [https:flybase.org/reports/FBlc0001369.html RNA-Seq_mE4250_A_1d_carcass] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult (1 day), carcass. | 4250 | SRX029379 SRX029380 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001370.html RNA-Seq_mE4251_A_1d_digestive_system] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult (1 day), digestive system. | 4251 | SRX029381 SRX029382 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001371.html RNA-Seq_mE4252_A_20d_carcass] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult (20 days), carcass. | 4252 | SRX029383 SRX029384 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001372.html RNA-Seq_mE4253_A_20d_digestive_system] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult (20 days), digestive system. | 4253 | SRX029385 SRX029386 SRX045360 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001397.html RNA-Seq_mE4276_A_4d_Cd_0.05M] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult (4 day), 0.05M cadmium treatment. | 4276 | SRX043503 SRX047234 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001396.html RNA-Seq_mE4279_A_4d_Cd_0.1M] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult (4 day), 0.1M cadmium treatment. | 4279 | SRX043506 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001401.html RNA-Seq_mE4285_A_4d_Paraquat_10mM] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult (4 day), 10mM paraquat treatment. | 4285 | SRX043509 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001391.html RNA-Seq_mE4283_A_4d_Cu_15mM] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult (4 day), 15mM copper treatment. | 4283 | SRX043508 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001394.html RNA-Seq_mE4274_A_4d_Caffeine_2.5mg/ml] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult (4 day), 2.5mg/ml caffeine treatment. | 4274 | SRX043501 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001393.html RNA-Seq_mE4275_A_4d_Caffeine_25mg/ml] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult (4 day), 25mg/ml caffeine treatment. | 4275 | SRX043502 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001392.html RNA-Seq_mE4289_A_4d_Zn_4.5mM] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult (4 day), 4.5mM zinc treatment. | 4289 | SRX043513 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001400.html RNA-Seq_mE4286_A_4d_Paraquat_5mM] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult (4 day), 5mM paraquat treatment. | 4286 | SRX043510 SRX047233 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001387.html RNA-Seq_mE4280_A_4d_Cold1] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult (4 day), cold treatment 1. | 4280 | SRX043515 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001388.html RNA-Seq_mE4281_A_4d_Cold2] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult (4 day), cold treatment 2. | 4281 | SRX043516 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001407.html RNA-Seq_mE4284_A_4d_Heatshock] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult (4 day), heat shock treatment. | 4284 | SRX043517 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001373.html RNA-Seq_mE4254_A_4d_carcass] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult (4 days), carcass. | 4254 | SRX029387 SRX029388 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001374.html RNA-Seq_mE4255_A_4d_digestive_system] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult (4 days), digestive system. | 4255 | SRX029389 SRX029390 SRX045361 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001358.html RNA-Seq_mE4241_AF_mated_1d_head] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult female (1 day), mated, head. | 4241 | SRX029367 SRX042017 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001361.html RNA-Seq_mE4263_AF_virgin_1d_head] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult female (1 day), virgin, head. | 4263 | SRX029391 SRX042024 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001363.html RNA-Seq_mE4242_AF_mated_20d_head] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult female (20 days), mated, head. | 4242 | SRX029368 SRX042018 SRX045504 SRX048965 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001382.html RNA-Seq_mE4264_AF_virgin_20d_head] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult female (20 days), virgin, head. | 4264 | SRX029392 SRX029393 SRX042025 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001364.html RNA-Seq_mE4243_AF_mated_4d_head] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult female (4 days), mated, head. | 4243 | SRX029369 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001359.html RNA-Seq_mE4244_AF_mated_4d_ovary] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult female (4 days), mated, ovary. | 4244 | SRX029370 SRX042019 SRX042020 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001362.html RNA-Seq_mE4265_AF_virgin_4d_head] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult female (4 days), virgin, head. | 4265 | SRX029394 SRX042026 SRX042027 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001383.html RNA-Seq_mE4266_AF_virgin_4d_ovary] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult female (4 days), virgin, ovary. | 4266 | SRX029395 SRX029396 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001360.html RNA-Seq_mE4245_AM_mated_1d_head] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult male (1 day), mated, head. | 4245 | SRX029371 SRX042021 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001365.html RNA-Seq_mE4246_AM_mated_20d_head] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult male (20 days), mated, head. | 4246 | SRX029372 SRX029373 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001366.html RNA-Seq_mE4247_AM_mated_4d_accessory_gland] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult male (4 days), mated, accessory gland. | 4247 | SRX029374 SRX029375 SRX042022 SRX048961 SRX099848 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001367.html RNA-Seq_mE4248_AM_mated_4d_head] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult male (4 days), mated, head. | 4248 | SRX029376 SRX029377 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001368.html RNA-Seq_mE4249_AM_mated_4d_testis] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, adult male (4 days), mated, testis. | 4249 | SRX029378 SRX042023 SRX099849 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001375.html RNA-Seq_mE4256_P8_CNS] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, pharate adult (stage P8), CNS. | 4256 | SRX029404 SRX042030 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001386.html RNA-Seq_mE4267_P8_fat_body] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, pharate adult (stage P8), fat body. | 4267 | SRX029405 SRX029406 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0000236.html modENCODE_mRNA-Seq_treatments] | D. melanogaster | project | Transcriptional profile of D. melanogaster response to various treatments, stranded RNA-Seq, modENCODE. | 3724 | PRJNA75165 | SRP005712 | Treatments/Conditions: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | |
| Expression | [https:flybase.org/reports/FBlc0001389.html RNA-Seq_mE4282_L3_Cu_0.5mM] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, third instar larva, 0.5mM copper treatment. | 4282 | SRX043507 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001395.html RNA-Seq_mE4273_L3_Caffeine_1.5mg/ml] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, third instar larva, 1.5mg/ml caffeine treatment. | 4273 | SRX043500 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001404.html RNA-Seq_mE4270_L3_EtOH_10] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, third instar larva, 10% ethanol treatment. | 4270 | SRX043497 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001398.html RNA-Seq_mE4277_L3_Cd_12h] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, third instar larva, 12hr 0.05M cadmium treatment. | 4277 | SRX043504 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001406.html RNA-Seq_mE4271_L3_EtOH_2.5] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, third instar larva, 2.5% ethanol treatment. | 4271 | SRX043498 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001403.html RNA-Seq_mE4287_L3_Rotenone_2ug] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, third instar larva, 2ug/ml rotenone treatment. | 4287 | SRX043511 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001405.html RNA-Seq_mE4272_L3_EtOH_5] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, third instar larva, 5% ethanol treatment. | 4272 | SRX043499 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001390.html RNA-Seq_mE4290_L3_late_Zn_5mM] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, third instar larva, 5mM zinc treatment. | 4290 | SRX043514 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001399.html RNA-Seq_mE4278_L3_Cd_6hr] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, third instar larva, 6hr 0.05M cadmium treatment. | 4278 | SRX043505 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001402.html RNA-Seq_mE4288_L3_Rotenone_8ug] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, third instar larva, 8ug/ml rotenone treatment. | 4288 | SRX043512 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001377.html RNA-Seq_mE4258_L3_carcass] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, third instar larva, carcass. | 4258 | SRX029397 SRX042028 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001376.html RNA-Seq_mE4257_L3_CNS] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, third instar larva, CNS. | 4257 | SRX029398 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001378.html RNA-Seq_mE4259_L3_digestive_system] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, third instar larva, digestive system. | 4259 | SRX029399 SRX042029 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001379.html RNA-Seq_mE4260_L3_fat_body] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, third instar larva, fat body. | 4260 | SRX029400 | Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001380.html RNA-Seq_mE4261_L3_imaginal_disc] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, third instar larva, imaginal disc. | 4261 | SRX029401 SRX045362 SRX099850 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001381.html RNA-Seq_mE4262_L3_salivary_gland] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, third instar larva, salivary gland. | 4262 | SRX029402 SRX029403 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001384.html RNA-Seq_mE4268_WPP_fat_body] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, white prepupa, fat body. | 4268 | SRX029407 SRX029408 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001385.html RNA-Seq_mE4269_WPP_salivary_gland] | D. melanogaster | assay | RNA-Seq of D. melanogaster, Oregon-R-modENCODE strain, white prepupa, salivary gland. | 4269 | SRX029409 SRX042031 |
Tissues: RPKM, JBrowse coverage, analysis tools (profile, region, similarity) | ||
| Expression | [https:flybase.org/reports/FBlc0001098.html RNA-Seq_mE3085_Dpse_AM_head] | D. pseudoobscura pseudoobscura | assay | RNA-Seq of D. pseudoobscura, MV2-25 strain, adult male head. | 3085 | GSM499404 | FlyBase JBrowse wig file available for download. | ||
| Expression | [https:flybase.org/reports/FBlc0001099.html RNA-Seq_mE3086_Dpse_AF_head] | D. pseudoobscura pseudoobscura | assay | RNA-Seq of D. pseudoobscura, MV2-25 strain, adult female head. | 3086 | GSM499403 | FlyBase JBrowse wig file available for download. | ||
| Expression | [https:flybase.org/reports/FBlc0001100.html RNA-Seq_mE3620_Dpse_AM] | D. pseudoobscura pseudoobscura | assay | RNA-Seq of D. pseudoobscura, adult male. | 3620 | GSM694281 GSM694282 |
FlyBase JBrowse wig file available for download. | ||
| Expression | [https:flybase.org/reports/FBlc0001101.html RNA-Seq_mE3621_Dpse_AF] | D. pseudoobscura pseudoobscura | assay | RNA-Seq of D. pseudoobscura, adult female. | 3621 | GSM694279 GSM694280 |
FlyBase JBrowse wig file available for download. | ||
| Expression | [https:flybase.org/reports/FBlc0001117.html RNA-Seq_mE4049_Dpse_AF_ovary] | D. pseudoobscura pseudoobscura | assay | RNA-Seq of D. pseudoobscura, adult female ovary. | 4049 | GSM775498 GSM775499 |
FlyBase JBrowse wig file available for download. | ||
| Expression | [https:flybase.org/reports/FBlc0001118.html RNA-Seq_mE4047_Dpse_AF_carcass] | D. pseudoobscura pseudoobscura | assay | RNA-Seq of D. pseudoobscura, adult female carcass. | 4047 | GSM775494 GSM775495 |
FlyBase JBrowse wig file available for download. | ||
| Expression | [https:flybase.org/reports/FBlc0001119.html RNA-Seq_mE4050_Dpse_AM_testis] | D. pseudoobscura pseudoobscura | assay | RNA-Seq of D. pseudoobscura, adult male testis. | 4050 | GSM775500 GSM775501 |
FlyBase JBrowse wig file available for download. | ||
| Expression | [https:flybase.org/reports/FBlc0001120.html RNA-Seq_mE4048_Dpse_AM_carcass] | D. pseudoobscura pseudoobscura | assay | RNA-Seq of D. pseudoobscura, adult male carcass. | 4048 | GSM775496 GSM775497 |
FlyBase JBrowse wig file available for download. | ||
| Expression | [https:flybase.org/reports/FBlc0000040.html RM_cDNA] | D. melanogaster | assay | cDNA sequences of D. melanogaster, iso-1 strain, embryo, 5' ends of capped transcripts. | 34 | JBrowse: TSS (modENCODE, embryo) | |||
| Expression | [https:flybase.org/reports/FBlc0000049.html RP_cDNA] | D. melanogaster | assay | RNA-Seq of D. melanogaster, iso-1 strain, embryo, 5' ends of capped transcripts. | 1041|1042|1043|1044 | JBrowse: TSS (modENCODE, embryo) | |||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0000200.html Chromatin_types_mE2.BG3] | D. melanogaster | result | 9-state chromatin model derived from analysis of histone modification ChIP, ML-DmBG3-c2 cells. | 3362 | JBrowse: Chromatin Domains (9-state model, BG3 cells) | |||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0000199.html Chromatin_types_mE1.S2] | D. melanogaster | result | 9-state chromatin model derived from analysis of histone modification ChIP, S2-DRSC cells. | 3363 | JBrowse: Chromatin Domains (9-state model, S2 cells) | |||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0000058.html Insulator_Class_I.mE01] | D. melanogaster | result | Insulators (type I) identified by ChIP-chip of Cp190, BEAF-32 and CTCF in embryos. | 2946 | JBrowse: Insulators (modENCODE, class I) | |||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0000059.html Insulator_Class_II.mE01] | D. melanogaster | result | Insulators (type II) identified by ChIP-chip of su(Hw) in embryos. | 2946 | JBrowse: Insulators (modENCODE, class II) | |||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0000188.html mE_Early_Replication_Origins_cells] | D. melanogaster | result | Early replication origins, analysis of three cell lines (meta-peaks). | 3441 | JBrowse: Origins of replication (modENCODE, Kc, S2, BG3 cells) | |||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003160.html ChIP-chip_mE2559_HDAC1_E1-15] | D. melanogaster | assay | ChIP-chip of HDAC1 in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL). | 2559 | GSE25956 | JBrowse: Putative PREs (modENCODE) | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003161.html ChIP-chip_mE2560_HDAC1_E1-15] | D. melanogaster | assay | ChIP-chip of HDAC1 in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL). | 2560 | GSE25957 | JBrowse: Putative PREs (modENCODE) | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003166.html ChIP-chip_mE2563_HDAC4_E1-15] | D. melanogaster | assay | ChIP-chip of HDAC4 in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL). | 2563 | GSE25960 | JBrowse: Putative PREs (modENCODE) | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003167.html ChIP-chip_mE2564_HDAC4_E1-15] | D. melanogaster | assay | ChIP-chip of HDAC4 in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL). | 2564 | GSE25961 | JBrowse: Putative PREs (modENCODE) | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003189.html ChIP-chip_mE919_H3K27me3_E1-15] | D. melanogaster | assay | ChIP-chip of H3K27me3 in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL). | 919 | GSE16245 | JBrowse: Putative PREs (modENCODE) | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003190.html ChIP-chip_mE622_H3K4me3_E1-15] | D. melanogaster | assay | ChIP-chip of H3K4me3 in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL). | 622 | GSE15980 GSE16245 |
JBrowse: Putative PREs (modENCODE) | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003210.html ChIP-chip_mE2574_hairy_E1-12] | D. melanogaster | assay | ChIP-chip of hairy in D. melanogaster, iso-1 strain, embryo (0-8 hr AEL). | 2574 | GSE25259 | JBrowse: whole embryo, TFBS HOT spot analysis whole embyro, Helix-loop-helix TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003213.html ChIP-chip_mE618_kn_E1-15] | D. melanogaster | assay | ChIP-chip of kn in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL). | 618 | GSE15984 | JBrowse: whole embryo, TFBS HOT spot analysis whole embyro, Helix-loop-helix TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003219.html ChIP-chip_mE615_ttk_E1-15] | D. melanogaster | assay | ChIP-chip of ttk in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL). | 615 | GSE15987 | JBrowse: whole embryo, TFBS HOT spot analysis whole embryo, BTB/POS ChIP TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003225.html ChIP-chip_mE628_bab1_E1-15] | D. melanogaster | assay | ChIP-chip of bab1 in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL). | 628 | GSE15908 | JBrowse: whole embryo, TFBS HOT spot analysis whole embryo, BTB/POS ChIP TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003228.html ChIP-chip_mE23_Trl_E1-15] | D. melanogaster | assay | ChIP-chip of Trl in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL). | 23 | GSE16245 | JBrowse: whole embryo, TFBS HOT spot analysis whole embryo, BTB/POS ChIP TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003232.html ChIP-chip_mE608_chinmo_E1-15] | D. melanogaster | assay | ChIP-chip of chinmo in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL). | 608 | GSE15959 | JBrowse: whole embryo, TFBS HOT spot analysis whole embryo, BTB/POS ChIP TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003198.html ChIP-chip_mE606_Dll_E1-15] | D. melanogaster | assay | ChIP-chip of Dll in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL). | 606 | GSE15963 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, homeodomain TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003199.html ChIP-chip_mE2578_cad_E9-12] | D. melanogaster | assay | ChIP-chip of cad in D. melanogaster, cad-GFP, embryo (4-8 hr AEL). | 2578 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, homeodomain TFBS | |||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003200.html ChIP-chip_mE902_cad_E1-9] | D. melanogaster | assay | ChIP-chip of cad in D. melanogaster, cad-GFP, embryo (0-4 hr AEL). | 902 | GSE25259 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, homeodomain TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003201.html ChIP-Seq_mE2626_cad_E1-9] | D. melanogaster | assay | ChIP-Seq of cad in D. melanogaster, cad-GFP, embryo (0-4 hr AEL). | 2626 | GSE20000 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, homeodomain TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003202.html ChIP-chip_mE2570_cad_E1-9] | D. melanogaster | assay | ChIP-chip of cad in D. melanogaster, iso-1 strain, embryo (0-4 hr AEL). | 2570 | GSE25259 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, homeodomain TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003203.html ChIP-Seq_mE2637_cad_E9-12] | D. melanogaster | assay | ChIP-Seq of cad in D. melanogaster, cad-GFP, embryo (4-8 hr AEL). | 2637 | GSE20000 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, homeodomain TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003207.html ChIP-chip_mE625_en_E1-15] | D. melanogaster | assay | ChIP-chip of en in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL). | 625 | GSE15964 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, homeodomain TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003208.html ChIP-chip_mE2603_eve_E3-11] | D. melanogaster | assay | ChIP-chip of eve in D. melanogaster, eve-YFP, embryo (1-6 hr AEL). | 2603 | GSE26221 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, homeodomain TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003211.html ChIP-chip_mE605_inv_E1-15] | D. melanogaster | assay | ChIP-chip of inv in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL). | 605 | GSE15982 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, homeodomain TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003212.html ChIP-chip_mE619_inv_E1-15] | D. melanogaster | assay | ChIP-chip of inv in D. melanogaster, inv-GFP, embryo (0-12 hr AEL). | 619 | GSE15983 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, homeodomain TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003220.html ChIP-chip_mE614_Ubx_E1-15] | D. melanogaster | assay | ChIP-chip of Ubx in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL). | 614 | GSE15988 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, homeodomain TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003221.html ChIP-chip_mE613_Ubx_E7-12] | D. melanogaster | assay | ChIP-chip of Ubx in D. melanogaster, iso-1 strain, embryo (3-8 hr AEL). | 613 | GSE15992 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, homeodomain TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003222.html ChIP-chip_mE612_Ubx_E7-12] | D. melanogaster | assay | ChIP-chip of Ubx in D. melanogaster, iso-1 strain, embryo (3-8 hr AEL). | 612 | GSE15993 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, homeodomain TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003223.html ChIP-chip_mE603_Ubx_E7-12] | D. melanogaster | assay | ChIP-chip of Ubx in D. melanogaster, iso-1 strain, embryo (3-8 hr AEL). | 603 | GSE15994 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, homeodomain TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003204.html ChIP-chip_mE626_Dichaete_E1-15] | D. melanogaster | assay | ChIP-chip of Dichaete in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL). | 626 | GSE15927 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, Other classes TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003205.html ChIP-chip_mE2571_Dichaete_E1-12] | D. melanogaster | assay | ChIP-chip of Dichaete in D. melanogaster, iso-1 strain, embryo (0-8 hr AEL). | 2571 | GSE25259 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, Other classes TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003218.html ChIP-chip_mE617_run_E1-15] | D. melanogaster | assay | ChIP-chip of run in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL). | 617 | GSE15985 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, Other classes TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003229.html ChIP-chip_mE2576_jumu_E1-12] | D. melanogaster | assay | ChIP-chip of jumu in D. melanogaster, iso-1 strain, embryo (0-8 hr AEL). | 2576 | GSE25259 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, Other classes TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003230.html ChIP-chip_mE616_Stat92E_E1-15] | D. melanogaster | assay | ChIP-chip of Stat92E in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL). | 616 | GSE15986 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, Other classes TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003234.html ChIP-chip_mE627_cnc_E1-15] | D. melanogaster | assay | ChIP-chip of cnc in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL). | 627 | GSE15926 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, Other classes TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003206.html ChIP-chip_mE2572_disco_E1-12] | D. melanogaster | assay | ChIP-chip of disco in D. melanogaster, iso-1 strain, embryo (0-8 hr AEL). | 2572 | GSE25259 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, ZINC Finger TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003209.html ChIP-chip_mE624_ftz-f1_E1-15] | D. melanogaster | assay | ChIP-chip of ftz-f1 in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL). | 624 | GSE15965 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, ZINC Finger TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003214.html ChIP-chip_mE898_Kr_E1-12] | D. melanogaster | assay | ChIP-chip of Kr in D. melanogaster, iso-1 strain, embryo (0-8 hr AEL). | 898 | GSE25259 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, ZINC Finger TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003215.html ChIP-chip_mE979_sens_E9-12] | D. melanogaster | assay | ChIP-chip of sens in D. melanogaster, sens-GFP, embryo (4-8 hr AEL). | 979 | GSE25259 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, ZINC Finger TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003216.html ChIP-chip_mE978_sens_E9-12] | D. melanogaster | assay | ChIP-chip of sens in D. melanogaster, iso-1 strain, embryo (4-8 hr AEL). | 978 | GSE25259 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, ZINC Finger TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003217.html ChIP-chip_mE2577_sens_E9-12] | D. melanogaster | assay | ChIP-chip of sens in D. melanogaster, iso-1 strain, embryo (4-8 hr AEL). | 2577 | GSE25259 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, ZINC Finger TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003224.html ChIP-chip_mE604_zfh1_E1-15] | D. melanogaster | assay | ChIP-chip of zfh1 in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL). | 604 | GSE15989 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, ZINC Finger TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003226.html ChIP-chip_mE609_sbb_E1-15] | D. melanogaster | assay | ChIP-chip of sbb in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL). | 609 | GSE15958 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, ZINC Finger TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003227.html ChIP-chip_mE2569_sbb_E1-9] | D. melanogaster | assay | ChIP-chip of sbb in D. melanogaster, iso-1 strain, embryo (0-4 hr AEL). | 2569 | GSE25259 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, ZINC Finger TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003231.html ChIP-chip_mE2573_GATAe_E1-12] | D. melanogaster | assay | ChIP-chip of GATAe in D. melanogaster, iso-1 strain, embryo (0-8 hr AEL). | 2573 | GSE25259 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, ZINC Finger TFBS | ||
| Chromatin/Transcriptional Regulation | [https:flybase.org/reports/FBlc0003233.html ChIP-chip_mE2575_hkb_E1-12] | D. melanogaster | assay | ChIP-chip of hkb in D. melanogaster, iso-1 strain, embryo (0-8 hr AEL). | 2575 | GSE25259 | JBrowse: whole embryo, TFBS HOT spot analysis JBrowse: whole embryo, ZINC Finger TFBS |