Experiments

Searchable full-text extractions: founding hypothesis, core claims, experimental setups, key results and statistics — pulled out of each paper as structure. Search a cell line, an assay or an entity (e.g. HUH7) and find every paper that worked with it. This corpus stands on its own: most entries carry no reproduction assessment (yet).

Publications 1.3k Datasets 392.5k Experiments 72

System / cell line: mtdna ✕ Clear

In situ origin of deep rooting lineages of mitochondrial Macrohaplogroup 'M' in India.

PMID 16776823 · PMC1534032 · BMC genomics · 2006 · 6 claims · 5 setups

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The Indian mtDNA pool contains several deep-rooting macrohaplogroup M lineages, indicating in-situ origin of these haplogroups in South Asia, most likely India

mtdna mitochondrial partial hvs1
Mitochondrial DNA mutations in renal cell carcinomas revealed no general impact on energy metabolism.

PMID 16404428 · PMC2361126 · British journal of cancer · 2006 · 6 claims · 5 setups

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Somatic mtDNA mutations occur in renal cell carcinoma but are infrequent and frequently present at low (below 25%) heteroplasmy levels

renal dhplc direct pcr-restriction
Analysis of mitochondrial DNA sequences in childhood encephalomyopathies reveals new disease-associated variants.

PMID 17895983 · PMC1976591 · PloS one · 2007 · 8 claims · 5 setups

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Sequencing of complete mtDNA genomes in 23 pediatric patients identified 27 significant variants (12 novel, 15 known) associated with mitochondrial encephalomyopathies.

blood-derived lymphocytes maternal wild-type complete respiratory pcr-rflp
Interspecies hybridization on DNA resequencing microarrays: efficiency of sequence recovery and accuracy of SNP detection in human, ape, and codfish mitochondrial DNA genomes sequenced on a human-specific MitoChip.

PMID 17894875 · PMC2211321 · BMC genomics · 2007 · 8 claims · 6 setups

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Efficiency of sequence recovery and accuracy of SNP identification on a species-specific resequencing microarray decline as sequence divergence from the reference increases.

mtdna chimpanzee gorilla atlantic resequencing dideoxy phylogenetic
Phylogeography of mtDNA haplogroup R7 in the Indian peninsula.

PMID 18680585 · PMC2529308 · BMC evolutionary biology · 2008 · 8 claims · 7 setups

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R7a1, a recently derived sub-branch of haplogroup R7, is particularly frequent among Munda-speaking tribal groups

mtdnas haplogroup genetic geographic complete hvs-i reduced-median
Significance of somatic mutations and content alteration of mitochondrial DNA in esophageal cancer.

PMID 16620376 · PMC1459869 · BMC cancer · 2006 · 8 claims · 3 setups

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Somatic mtDNA mutations are frequent in esophageal cancer, found in 55% (11/20) of tumors analyzed

paired fragments ttge direct real-time
Mitochondrial DNA aberrations of bone marrow cells from patients with aplastic anemia.

PMID 19119453 · PMC2610644 · Journal of Korean medical science · 2008 · 7 claims · 3 setups

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Bone marrow cells from AA patients show significantly more mtDNA aberrations (mean=25.6) than healthy controls (mean=12.8)

bone buccal mtdna direct sequence
The Genographic Project public participation mitochondrial DNA database.

PMID 17604454 · PMC1904368 · PLoS genetics · 2007 · 7 claims · 4 setups

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The Genographic Project created the largest standardized human mtDNA database to date, comprising 78,590 genotypes from the first 18 months of public participation.

buccal reference entire direct coding-region leave-one-out
A novel 154-bp deletion in the human mitochondrial DNA control region in healthy individuals.

PMID 18629826 · PMC2697596 · Human mutation · 2008 · 8 claims · 5 setups

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A novel 154-bp mtDNA control region deletion (m.16154_16307del154) was identified in a healthy family

blood-derived mtdna pcr fragment mtdna
No evidence of a Neanderthal contribution to modern human diversity.

PMID 18304371 · PMC2374707 · Genome biology · 2008 · 8 claims · 7 setups

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There is no evidence of any Neanderthal contribution to modern human genetic diversity

neanderthal culture modern genomic mitochondrial nuclear gene-specific
Slowly progressive encephalopathy with hearing loss due to a mutation in the mtDNA tRNA(Leu(CUN)) gene.

PMID 20022607 · PMC3891822 · Journal of the neurological sciences · 2010 · 8 claims · 7 setups

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The heteroplasmic m.12276G>A mtDNA tRNA Leu(CUN) mutation causes a childhood-onset, slowly progressive encephalopathy with ataxia, cognitive impairment, dyspraxia, and sensorineural hearing loss

skeletal muscle genomic individual histochemistry biochemical direct
The background of mitochondrial DNA haplogroup J increases the sensitivity of Leber's hereditary optic neuropathy cells to 2,5-hexanedione toxicity.

PMID 19936068 · PMC2774515 · PloS one · 2009 · 8 claims · 7 setups

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Haplogroup J1 background greatly increases sensitivity of LHON cells (11778/ND4 and 14484/ND6 mutations) to 2,5-HD toxicity

cybrids fibroblasts digitonin-permeabilized cybrid mtt atp complete
High frequency of mitochondrial genome instability in human endometrial carcinomas.

PMID 12915881 · PMC2376924 · British journal of cancer · 2003 · 7 claims · 3 setups

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56% (28 out of 50) of endometrial carcinoma cases carry one or more somatic mtDNA changes (deletion, point mutation, or mtMSI) compared with matched normal tissue

endometrial paraffin-embedded long-range pcr polyacrylamide
Mutation patterns of mtDNA: empirical inferences for the coding region.

PMID 18518963 · PMC2438339 · BMC evolutionary biology · 2008 · 5 claims · 3 setups

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Heteroplasmy was detected in 6.5% (3/46) of Azorean families analyzed, all caused by new point mutations with no insertions/deletions.

extended-family same direct electropherogram molecular
Limited clinical relevance of mitochondrial DNA mutation and gene expression analyses in ovarian cancer.

PMID 18842121 · PMC2571110 · BMC cancer · 2008 · 8 claims · 2 setups

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Somatic mutations in the mtDNA D-loop are found in 57% of ovarian cancer samples, mostly C-tract length changes and substitutions

ovarian sanger real-time
EGenBio: a data management system for evolutionary genomics and biodiversity.

PMID 17118150 · PMC1683573 · BMC bioinformatics · 2006 · 7 claims · 7 setups

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EGenBio is a web-based system for integrated management, filtering, curation, and visualization of large-scale genomic sequences, alignments, and phylogenetic trees for evolutionary genomics and biodiversity research.

vertebrate sequence mutant phylogenetic sequence coevolution saturation
Performance of mitochondrial DNA mutations detecting early stage cancer.

PMID 18834532 · PMC2572633 · BMC cancer · 2008 · 8 claims · 6 setups

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The Affymetrix MitoChip resequencing array is a high-throughput, higher-resolution alternative to capillary sequencing for detecting mtDNA point mutations and heteroplasmy in clinical specimens.

matched blood mtdna low-quantity mitochondrial capillary str
Minisequencing mitochondrial DNA pathogenic mutations.

PMID 18402672 · PMC2377236 · BMC medical genetics · 2008 · 7 claims · 7 setups

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A minisequencing multiplex assay can interrogate 25 pathogenic mtDNA mutations across the whole mtDNA genome in a single reaction using 13 amplicons.

blood-derived same genomic pcr minisequencing automatic multiplex
Updated three-stage model for the peopling of the Americas.

PMID 18797500 · PMC2527656 · PloS one · 2008 · 8 claims · 3 setups

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Removing nine non-Native American mtDNA sequences eliminates the previously reported early (~40 kya) expansion signal for the proto-Amerind population

native mitochondrial new bayesian mtdna molecular
Phylogenetic analysis of higher-level relationships within Hydroidolina (Cnidaria: Hydrozoa) using mitochondrial genome data and insight into their mitochondrial transcription.

PMID 26618080 · PMC4655093 · PeerJ · 2015 · 8 claims · 8 setups

Has reproduction · 68

Siphonophorae is the first diverging clade within Hydroidolina.

hydroidolinan nanomia liriope assembled long-range rna-seq dna-seq

Experiments

In situ origin of deep rooting lineages of mitochondrial Macrohaplogroup 'M' in India.

Mitochondrial DNA mutations in renal cell carcinomas revealed no general impact on energy metabolism.

Analysis of mitochondrial DNA sequences in childhood encephalomyopathies reveals new disease-associated variants.

Interspecies hybridization on DNA resequencing microarrays: efficiency of sequence recovery and accuracy of SNP detection in human, ape, and codfish mitochondrial DNA genomes sequenced on a human-specific MitoChip.

Phylogeography of mtDNA haplogroup R7 in the Indian peninsula.

Significance of somatic mutations and content alteration of mitochondrial DNA in esophageal cancer.

Mitochondrial DNA aberrations of bone marrow cells from patients with aplastic anemia.

The Genographic Project public participation mitochondrial DNA database.

A novel 154-bp deletion in the human mitochondrial DNA control region in healthy individuals.

No evidence of a Neanderthal contribution to modern human diversity.

Slowly progressive encephalopathy with hearing loss due to a mutation in the mtDNA tRNA(Leu(CUN)) gene.

The background of mitochondrial DNA haplogroup J increases the sensitivity of Leber's hereditary optic neuropathy cells to 2,5-hexanedione toxicity.

High frequency of mitochondrial genome instability in human endometrial carcinomas.

Mutation patterns of mtDNA: empirical inferences for the coding region.

Limited clinical relevance of mitochondrial DNA mutation and gene expression analyses in ovarian cancer.

EGenBio: a data management system for evolutionary genomics and biodiversity.

Performance of mitochondrial DNA mutations detecting early stage cancer.

Minisequencing mitochondrial DNA pathogenic mutations.

Updated three-stage model for the peopling of the Americas.

Phylogenetic analysis of higher-level relationships within Hydroidolina (Cnidaria: Hydrozoa) using mitochondrial genome data and insight into their mitochondrial transcription.