cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12878323
title: Additional file 1 of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA

description: Additional file 1:List of 413,494 unique tags. (ZIP 3 MB)
DOI: 10.6084/m9.figshare.12878323.v1
title: Additional file 1 of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA

description: Additional file 1:List of 413,494 unique tags. (ZIP 3 MB)
DOI: 10.6084/m9.figshare.12878329
title: Additional file 2 of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA

description: Additional file 2:List of unique tags mapped to repetitive elements and ncRNAs based on the 3' end sequences. (TXT 846 KB)
DOI: 10.6084/m9.figshare.12878329.v1
title: Additional file 2 of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA

description: Additional file 2:List of unique tags mapped to repetitive elements and ncRNAs based on the 3' end sequences. (TXT 846 KB)
DOI: 10.6084/m9.figshare.12878332
title: Additional file 3 of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA

description: Additional file 3:List of unique tags mapped to repetitive elements and ncRNAs based on the 5' end sequences. (TXT 249 KB)
DOI: 10.6084/m9.figshare.12878332.v1
title: Additional file 3 of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA

description: Additional file 3:List of unique tags mapped to repetitive elements and ncRNAs based on the 5' end sequences. (TXT 249 KB)
DOI: 10.6084/m9.figshare.12878338
title: Additional file 5 of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA

description: Additional file 5:List of unique tags mapped to RefSeq sequences based on 3' end sequences. (TXT 136 KB)
DOI: 10.6084/m9.figshare.12878338.v1
title: Additional file 5 of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA

description: Additional file 5:List of unique tags mapped to RefSeq sequences based on 3' end sequences. (TXT 136 KB)
DOI: 10.6084/m9.figshare.12878335
title: Additional file 4 of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA

description: Additional file 4:List of unique tags mapped to miRNAs, pre-miRNAs or miRNA-star based on 3' end sequences. (TXT 3 MB)
DOI: 10.6084/m9.figshare.12878335.v1
title: Additional file 4 of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA

description: Additional file 4:List of unique tags mapped to miRNAs, pre-miRNAs or miRNA-star based on 3' end sequences. (TXT 3 MB)
DOI: 10.6084/m9.figshare.12878341
title: Additional file 6 of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA

description: Additional file 6:List of unique tags mapped to RefSeq sequences based on 5' end sequences. (TXT 1 KB)
DOI: 10.6084/m9.figshare.12878341.v1
title: Additional file 6 of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA

description: Additional file 6:List of unique tags mapped to RefSeq sequences based on 5' end sequences. (TXT 1 KB)
DOI: 10.6084/m9.figshare.12878347
title: Additional file 8 of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA

description: Additional file 8:List of unique tags mapped to redundant mouse ESTs based on 5' end sequences. (TXT 43 KB)
DOI: 10.6084/m9.figshare.12878344
title: Additional file 7 of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA

description: Additional file 7:List of unique tags mapped to redundant mouse ESTs based on 3' end sequences. (TXT 345 KB)
DOI: 10.6084/m9.figshare.12878350
title: Additional file 9 of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA

description: Additional file 9:List of unique tags mapped to a single locus in the mouse genome based on 3' end sequences. (TXT 63 KB)
DOI: 10.6084/m9.figshare.12878344.v1
title: Additional file 7 of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA

description: Additional file 7:List of unique tags mapped to redundant mouse ESTs based on 3' end sequences. (TXT 345 KB)
DOI: 10.6084/m9.figshare.12878347.v1
title: Additional file 8 of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA

description: Additional file 8:List of unique tags mapped to redundant mouse ESTs based on 5' end sequences. (TXT 43 KB)
DOI: 10.6084/m9.figshare.12878350.v1
title: Additional file 9 of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA

description: Additional file 9:List of unique tags mapped to a single locus in the mouse genome based on 3' end sequences. (TXT 63 KB)
DOI: 10.6084/m9.figshare.12878353
title: Additional file of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA

description: Additional file of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA
DOI: 10.6084/m9.figshare.12878353.v30
title: Additional file of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA

description: Additional file of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA
DOI: 10.6084/m9.figshare.12878353.v29
title: Additional file of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA

description: Additional file of Deep sequencing analysis of the developing mouse brain reveals a novel microRNA
DOI: 10.15468/5c72bq
title: A New Species Of Myrmozercon Berlese (Acari: Mesostigmata: Laelapidae) Associated With Ant From Iran

description: This dataset contains the digitized treatments in Plazi based on the original journal article Babaeian, E., Joharchi, O., Saboori, A. (2013): A New Species Of Myrmozercon Berlese (Acari: Mesostigmata: Laelapidae) Associated With Ant From Iran. Acarologia 53 (4): 453-460, DOI: 10.1051/acarologia/20132109, URL: http://dx.doi.org/10.1051/acarologia/20132109
DOI: 10.6084/m9.figshare.14433817.v9
title: Additional file of Genome-wide binding of the orphan nuclear receptor TR4 suggests its general role in fundamental biological processes

description: Additional file of Genome-wide binding of the orphan nuclear receptor TR4 suggests its general role in fundamental biological processes
DOI: 10.6084/m9.figshare.14433817.v7
title: Additional file of Genome-wide binding of the orphan nuclear receptor TR4 suggests its general role in fundamental biological processes

description: Additional file of Genome-wide binding of the orphan nuclear receptor TR4 suggests its general role in fundamental biological processes
DOI: 10.6084/m9.figshare.12881184
title: Additional file 2 of Genome-wide binding of the orphan nuclear receptor TR4 suggests its general role in fundamental biological processes

description: Additional file 2:Primer sequences for standard and qPCR validation of TR4 ChIP samples. (XLS 28 KB)
DOI: 10.6084/m9.figshare.12881184.v1
title: Additional file 2 of Genome-wide binding of the orphan nuclear receptor TR4 suggests its general role in fundamental biological processes

description: Additional file 2:Primer sequences for standard and qPCR validation of TR4 ChIP samples. (XLS 28 KB)
DOI: 10.6084/m9.figshare.12881190
title: Additional file 4 of Genome-wide binding of the orphan nuclear receptor TR4 suggests its general role in fundamental biological processes

description: Additional file 4:ChIP-seq data and analysis summary(XLS 22 KB)
DOI: 10.6084/m9.figshare.12881190.v1
title: Additional file 4 of Genome-wide binding of the orphan nuclear receptor TR4 suggests its general role in fundamental biological processes

description: Additional file 4:ChIP-seq data and analysis summary(XLS 22 KB)
DOI: 10.6084/m9.figshare.14433874.v11
title: Additional file of Comparative genomics of the bacterial genus Listeria: Genome evolution is characterized by limited gene acquisition and limited gene loss

description: Additional file of Comparative genomics of the bacterial genus Listeria: Genome evolution is characterized by limited gene acquisition and limited gene loss
DOI: 10.6084/m9.figshare.14433874.v12
title: Additional file of Comparative genomics of the bacterial genus Listeria: Genome evolution is characterized by limited gene acquisition and limited gene loss

description: Additional file of Comparative genomics of the bacterial genus Listeria: Genome evolution is characterized by limited gene acquisition and limited gene loss
DOI: 10.6084/m9.figshare.14433874.v16
title: Additional file of Comparative genomics of the bacterial genus Listeria: Genome evolution is characterized by limited gene acquisition and limited gene loss

description: Additional file of Comparative genomics of the bacterial genus Listeria: Genome evolution is characterized by limited gene acquisition and limited gene loss
DOI: 10.6084/m9.figshare.14433850
title: Additional file 2 of Comparative genomics of the bacterial genus Listeria: Genome evolution is characterized by limited gene acquisition and limited gene loss

description: Additional file 2:Excel file SNP differences between L. monocytogenes F2365 and its duplicate FSL R2-574 and results of Sanger sequencing SNP confirmation. (XLS 18 KB)
DOI: 10.6084/m9.figshare.14433853.v1
title: Additional file 3 of Comparative genomics of the bacterial genus Listeria: Genome evolution is characterized by limited gene acquisition and limited gene loss

description: Additional file 3:Excel file containing presence/absence data of genes in the Listeria pan-genome. (XLS 1 MB)
DOI: 10.6084/m9.figshare.14433850.v1
title: Additional file 2 of Comparative genomics of the bacterial genus Listeria: Genome evolution is characterized by limited gene acquisition and limited gene loss

description: Additional file 2:Excel file SNP differences between L. monocytogenes F2365 and its duplicate FSL R2-574 and results of Sanger sequencing SNP confirmation. (XLS 18 KB)
DOI: 10.6084/m9.figshare.14433853
title: Additional file 3 of Comparative genomics of the bacterial genus Listeria: Genome evolution is characterized by limited gene acquisition and limited gene loss

description: Additional file 3:Excel file containing presence/absence data of genes in the Listeria pan-genome. (XLS 1 MB)
DOI: 10.6084/m9.figshare.14433865
title: Additional file 7 of Comparative genomics of the bacterial genus Listeria: Genome evolution is characterized by limited gene acquisition and limited gene loss

description: Additional file 7:Table in MS Excel with presence or absence of 78 virulence associated genes in the genomes of the genus Listeria. (XLS 43 KB)
DOI: 10.6084/m9.figshare.14433865.v1
title: Additional file 7 of Comparative genomics of the bacterial genus Listeria: Genome evolution is characterized by limited gene acquisition and limited gene loss

description: Additional file 7:Table in MS Excel with presence or absence of 78 virulence associated genes in the genomes of the genus Listeria. (XLS 43 KB)
DOI: 10.6084/m9.figshare.14433931.v4
title: Additional file of Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels

description: Additional file of Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels
DOI: 10.6084/m9.figshare.14433988.v5
title: Additional file of Massive parallel sequencing of mRNA in identification of unannotated salinity stress-inducible transcripts in rice (Oryza sativa L.)

description: Additional file of Massive parallel sequencing of mRNA in identification of unannotated salinity stress-inducible transcripts in rice (Oryza sativa L.)
DOI: 10.6084/m9.figshare.14433988.v6
title: Additional file of Massive parallel sequencing of mRNA in identification of unannotated salinity stress-inducible transcripts in rice (Oryza sativa L.)

description: Additional file of Massive parallel sequencing of mRNA in identification of unannotated salinity stress-inducible transcripts in rice (Oryza sativa L.)
DOI: 10.6084/m9.figshare.14433988.v4
title: Additional file of Massive parallel sequencing of mRNA in identification of unannotated salinity stress-inducible transcripts in rice (Oryza sativa L.)

description: Additional file of Massive parallel sequencing of mRNA in identification of unannotated salinity stress-inducible transcripts in rice (Oryza sativa L.)
DOI: 10.6084/m9.figshare.14433988.v8
title: Additional file of Massive parallel sequencing of mRNA in identification of unannotated salinity stress-inducible transcripts in rice (Oryza sativa L.)

description: Additional file of Massive parallel sequencing of mRNA in identification of unannotated salinity stress-inducible transcripts in rice (Oryza sativa L.)
DOI: 10.6084/m9.figshare.14433961
title: Additional file 1 of Massive parallel sequencing of mRNA in identification of unannotated salinity stress-inducible transcripts in rice (Oryza sativa L.)

description: Additional file 1:Table S1. Classification of unmapped reads. (XLS 8 KB)
DOI: 10.6084/m9.figshare.14433964
title: Additional file 2 of Massive parallel sequencing of mRNA in identification of unannotated salinity stress-inducible transcripts in rice (Oryza sativa L.)

description: Additional file 2:Table S2. RPKM of RAP2 annotated genes. (XLS 14 MB)
DOI: 10.6084/m9.figshare.14433967
title: Additional file 3 of Massive parallel sequencing of mRNA in identification of unannotated salinity stress-inducible transcripts in rice (Oryza sativa L.)

description: Additional file 3:Table S3. RPKM and ORF predictions of unannotated transcripts. (XLS 2 MB)
DOI: 10.6084/m9.figshare.14433961.v1
title: Additional file 1 of Massive parallel sequencing of mRNA in identification of unannotated salinity stress-inducible transcripts in rice (Oryza sativa L.)

description: Additional file 1:Table S1. Classification of unmapped reads. (XLS 8 KB)
DOI: 10.6084/m9.figshare.14433967.v1
title: Additional file 3 of Massive parallel sequencing of mRNA in identification of unannotated salinity stress-inducible transcripts in rice (Oryza sativa L.)

description: Additional file 3:Table S3. RPKM and ORF predictions of unannotated transcripts. (XLS 2 MB)
DOI: 10.6084/m9.figshare.14433973
title: Additional file 5 of Massive parallel sequencing of mRNA in identification of unannotated salinity stress-inducible transcripts in rice (Oryza sativa L.)

description: Additional file 5:Table S4. Primers used in this study. (XLS 13 KB)
DOI: 10.6084/m9.figshare.14433964.v1
title: Additional file 2 of Massive parallel sequencing of mRNA in identification of unannotated salinity stress-inducible transcripts in rice (Oryza sativa L.)

description: Additional file 2:Table S2. RPKM of RAP2 annotated genes. (XLS 14 MB)
DOI: 10.6084/m9.figshare.14433973.v1
title: Additional file 5 of Massive parallel sequencing of mRNA in identification of unannotated salinity stress-inducible transcripts in rice (Oryza sativa L.)

description: Additional file 5:Table S4. Primers used in this study. (XLS 13 KB)
DOI: 10.6084/m9.figshare.14434045.v6
title: Additional file of A genome-wide study of PDZ-domain interactions in C. elegans reveals a high frequency of non-canonical binding

description: Additional file of A genome-wide study of PDZ-domain interactions in C. elegans reveals a high frequency of non-canonical binding
DOI: 10.6084/m9.figshare.14434045.v8
title: Additional file of A genome-wide study of PDZ-domain interactions in C. elegans reveals a high frequency of non-canonical binding

description: Additional file of A genome-wide study of PDZ-domain interactions in C. elegans reveals a high frequency of non-canonical binding
DOI: 10.6084/m9.figshare.14434045.v7
title: Additional file of A genome-wide study of PDZ-domain interactions in C. elegans reveals a high frequency of non-canonical binding

description: Additional file of A genome-wide study of PDZ-domain interactions in C. elegans reveals a high frequency of non-canonical binding
DOI: 10.6084/m9.figshare.14434045.v9
title: Additional file of A genome-wide study of PDZ-domain interactions in C. elegans reveals a high frequency of non-canonical binding

description: Additional file of A genome-wide study of PDZ-domain interactions in C. elegans reveals a high frequency of non-canonical binding
DOI: 10.6084/m9.figshare.14434021.v1
title: Additional file 2 of A genome-wide study of PDZ-domain interactions in C. elegans reveals a high frequency of non-canonical binding

description: Additional file 2:PDZ domains cloning and annotations. Additional file 2 contains two tables (S1 and S2) listing for each PDZ domain identified, respectively the primer sequences and the Gene Ontology annotations. Supplemental Table S1: List of primers used to clone PDZ domains. Proteins names and IDs are given according to Wormbase WS150 [44]. For multiple PDZ domains in the same protein, a ".n" extension was added to the ID of the PDZ containing protein. This extension was numbered from the ATG (eg: F54E7.3.1 is the ID for the first PDZ domain of F54E7.3). When only one PDZ was present, protein ID was kept as such. Coordinates on PDZ domain containing proteins correspond to the splice form specified in the third column (PDZ domain containing protein ID). Each primer contains the B1 and B2 Gateway recombination cloning tail. Supplemental Table S2: Gene Ontology annotation based on experimental data for PDZ domains proteins. Gene ontology annotations were retrieved from Wormbase WS190 [16]. Experimental Evidence Codes: EXP: Inferred from Experiment, IDA: Inferred from Direct Assay, IPI: Inferred from Physical Interaction, IMP: Inferred from Mutant Phenotype, IGI: Inferred from Genetic Interaction, IEP: Inferred from Expression Pattern. (XLS 68 KB)
DOI: 10.6084/m9.figshare.14434024
title: Additional file 3 of A genome-wide study of PDZ-domain interactions in C. elegans reveals a high frequency of non-canonical binding

description: Additional file 3:PDZome network. Additional file 3 contains four tables (S3 to S6) listing the PDZome network interacting pairs and giving statistical analysis of the interactions. Supplemental Table S3: Two hybrid screen results. Gene names and ID are given according to Wormbase WS150[44]. Number of hits refers to the number of independent colonies identified and phenotypically tested for each interacting partner. Number of splice-forms identified or predicted in Wormbase WS150 and last 6 amino acids of each splice-form are given in cases were several splice-forms are identified or predicted. When sequencing from the N-terminus did not span the entire fragment, and thus the C-terminus was not experimentally confirmed, if any of the predicted splice-form had a C-terminal consensus motif, to be conservative, a consensus class was attributed. Consensus class type: [ST]X[YFWCMVILA] = 1; [YFWCMVILA]X[YFWCMVILA] = 2; [DE]X[YFWCMVILA] = 3 (X: any amino acid). Supplemental Table S4: Promiscuity and specificity of PDZ interactome network. Number of independent interacting proteins per PDZ domain, and number of PDZ domains interacting with each protein are given for AD-wrmcDNA and AD-ORFeome libraries two-hybrid screens. Supplemental Table S5: Promiscuity and specificity of PDZ interactome network: mean and median for number of interacting proteins per PDZ or vice versa. Supplemental Table S6: Number of interacting proteins per consensus class in network. Single hits: interacting proteins for which only one clone was identified in two-hybrid screens. Multiple hits: interacting proteins for which more than one clone was identified in two-hybrid screens. (XLS 206 KB)
DOI: 10.6084/m9.figshare.14434024.v1
title: Additional file 3 of A genome-wide study of PDZ-domain interactions in C. elegans reveals a high frequency of non-canonical binding

description: Additional file 3:PDZome network. Additional file 3 contains four tables (S3 to S6) listing the PDZome network interacting pairs and giving statistical analysis of the interactions. Supplemental Table S3: Two hybrid screen results. Gene names and ID are given according to Wormbase WS150[44]. Number of hits refers to the number of independent colonies identified and phenotypically tested for each interacting partner. Number of splice-forms identified or predicted in Wormbase WS150 and last 6 amino acids of each splice-form are given in cases were several splice-forms are identified or predicted. When sequencing from the N-terminus did not span the entire fragment, and thus the C-terminus was not experimentally confirmed, if any of the predicted splice-form had a C-terminal consensus motif, to be conservative, a consensus class was attributed. Consensus class type: [ST]X[YFWCMVILA] = 1; [YFWCMVILA]X[YFWCMVILA] = 2; [DE]X[YFWCMVILA] = 3 (X: any amino acid). Supplemental Table S4: Promiscuity and specificity of PDZ interactome network. Number of independent interacting proteins per PDZ domain, and number of PDZ domains interacting with each protein are given for AD-wrmcDNA and AD-ORFeome libraries two-hybrid screens. Supplemental Table S5: Promiscuity and specificity of PDZ interactome network: mean and median for number of interacting proteins per PDZ or vice versa. Supplemental Table S6: Number of interacting proteins per consensus class in network. Single hits: interacting proteins for which only one clone was identified in two-hybrid screens. Multiple hits: interacting proteins for which more than one clone was identified in two-hybrid screens. (XLS 206 KB)
DOI: 10.6084/m9.figshare.14434027
title: Additional file 4 of A genome-wide study of PDZ-domain interactions in C. elegans reveals a high frequency of non-canonical binding

description: Additional file 4:Functional annotation of interacting proteins. Additional file 4 contains three tables (S7 to S9) listing the functional annotations of the PDZ domain interacting proteins. Supplemental Table S7: Concise description, GO terms and KOG (EuKaryotic Orthologous Groups), for each interacting protein when available, retrieved from Wormbase WS 190 [16]; note that most attributes are inferred from electronic annotation. Experimental Evidence Codes: EXP: Inferred from Experiment, IDA: Inferred from Direct Assay, IPI: Inferred from Physical Interaction, IMP: Inferred from Mutant Phenotype, IGI: Inferred from Genetic Interaction, IEP: Inferred from Expression Pattern. Computational Analysis Evidence Codes: ISS: Inferred from Sequence or Structural Similarity, ISO: Inferred from Sequence Orthology, ISA: Inferred from Sequence Alignment, ISM: Inferred from Sequence Model, IGC: Inferred from Genomic Context, RCA: inferred from Reviewed Computational Analysis. Author Statement Evidence Codes: TAS: Traceable Author Statement, NAS: Non-traceable Author Statement. Curator Statement Evidence Codes: IC: Inferred by Curator, ND: No biological Data available. Automatically-assigned Evidence Codes: IEA: Inferred from Electronic Annotation. Supplemental Table S8: Classification of interacting proteins according to Cellular Components terms: integral to membrane, nucleus and other&unknown. Supplemental Table S9: Classification of interacting proteins according to Biological Processes: manual curation of annotations retrieved from Wormbase WS190 were used to define the 11 groups of processes shown in Figure 2. (XLS 366 KB)