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| Status |
Public on Jun 05, 2018 |
| Title |
A compendium of long non-coding RNAs transcriptional fingerprint in multiple myeloma. |
| Organism |
Homo sapiens |
| Experiment type |
Non-coding RNA profiling by array
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| Summary |
Multiple myeloma (MM) is a malignant proliferation of bone marrow plasma cells (PCs) characterized by highly heterogeneous genetic background and clinical course, and whose pathogenesis remains largely unknown. Long ncRNAs (lncRNAs) are a large class of non-protein-coding RNA, involved in many physiological cellular and genomic processes as well as in carcinogenesis, cancer metastasis and invasion. Although still in its infancy, the knowledge of the role of lncRNAs in MM is progressively expanding. Besides studies on selected candidates, lncRNAs expression at genome-wide transcriptome level is confined to microarray technologies, thus investigating a limited collection of transcripts. Herein, we assessed the lncRNAs expression profiling by RNA-sequencing in a cohort of 30 MM patients, aimed at defining a comprehensive catalogue of lncRNAs specifically associated with the main MM molecular subgroups and genetic alterations. We identified 391 deregulated lncRNAs, 67% of which were also detectable and validated by whole-transcript microarrays. In addition, we identified a list of lncRNAs, with potential relevance in MM, co-expressed and in close proximity to genes that might undergo a cis-regulatory relationship.
Herein, we assessed the lncRNAs expression profiling by RNA-sequencing in a cohort of 30 MM patients, aimed at defining a comprehensive catalogue of lncRNAs specifically associated with the main MM molecular subgroups and genetic alterations. We identified 391 deregulated lncRNAs, 67% of which were also detectable and validated by whole-transcript microarrays. In addition, we identified a list of lncRNAs, with potential relevance in MM, co-expressed and in close proximity to genes that might undergo a cis-regulatory relationship.
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| Overall design |
Total RNA samples from highly purified plasma cells of 30 MM cases at onset and 4 normal controls (purchased from Voden, Medical Instruments IT).
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| Contributor(s) |
Ronchetti D, Agnelli L, Pietrelli A, Todoerti K, Manzoni M, Taiana E, Neri A |
| Citation(s) |
29700321 |
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| Submission date |
Jan 11, 2018 |
| Last update date |
Sep 04, 2018 |
| Contact name |
Luca Agnelli |
| E-mail(s) |
luca.agnelli@istitutotumori.mi.it, luca.agnelli@gmail.com
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| Phone |
+390223903581
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| Organization name |
IRCCS Istituto Nazionale dei Tumori
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| Department |
Department of Advanced Diagnostics
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| Street address |
Venezian 1
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| City |
MILAN |
| ZIP/Postal code |
20133 |
| Country |
Italy |
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| Platforms (1) |
| GPL24507 |
[HuGene-2_0-st] Affymetrix Human Gene 2.0 ST Array [lncRNAs hugene21st_Hs_ENSG] |
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| Samples (34)
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| GSM2932323 |
Normal sample 4 |
| GSM2932324 |
MM at diagnosis, sample 1 |
| GSM2932325 |
MM at diagnosis, sample 2 |
| GSM2932326 |
MM at diagnosis, sample 3 |
| GSM2932327 |
MM at diagnosis, sample 4 |
| GSM2932328 |
MM at diagnosis, sample 5 |
| GSM2932329 |
MM at diagnosis, sample 6 |
| GSM2932330 |
MM at diagnosis, sample 7 |
| GSM2932331 |
MM at diagnosis, sample 8 |
| GSM2932332 |
MM at diagnosis, sample 9 |
| GSM2932333 |
MM at diagnosis, sample 10 |
| GSM2932334 |
MM at diagnosis, sample 11 |
| GSM2932335 |
MM at diagnosis, sample 12 |
| GSM2932336 |
MM at diagnosis, sample 13 |
| GSM2932337 |
MM at diagnosis, sample 14 |
| GSM2932338 |
MM at diagnosis, sample 15 |
| GSM2932339 |
MM at diagnosis, sample 16 |
| GSM2932340 |
MM at diagnosis, sample 17 |
| GSM2932341 |
MM at diagnosis, sample 18 |
| GSM2932342 |
MM at diagnosis, sample 19 |
| GSM2932343 |
MM at diagnosis, sample 20 |
| GSM2932344 |
MM at diagnosis, sample 21 |
| GSM2932345 |
MM at diagnosis, sample 22 |
| GSM2932346 |
MM at diagnosis, sample 23 |
| GSM2932347 |
MM at diagnosis, sample 24 |
| GSM2932348 |
MM at diagnosis, sample 25 |
| GSM2932349 |
MM at diagnosis, sample 26 |
| GSM2932350 |
MM at diagnosis, sample 27 |
| GSM2932351 |
MM at diagnosis, sample 28 |
| GSM2932352 |
MM at diagnosis, sample 29 |
| GSM2932353 |
MM at diagnosis, sample 30 |
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| Relations |
| BioProject |
PRJNA429660 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE109116_RAW.tar |
296.8 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data included within Sample table |
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