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processed pseudogenes (397) 397
humans (267) 267
animals (264) 264
genetics & heredity (245) 245
molecular sequence data (194) 194
biochemistry & molecular biology (188) 188
base sequence (164) 164
pseudogenes (157) 157
evolution (148) 148
index medicus (147) 147
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amino acid sequence (111) 111
human genome (99) 99
phylogeny (92) 92
expression (90) 90
mice (85) 85
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dna (81) 81
pseudogenes - genetics (81) 81
research (81) 81
genomics (78) 78
processed pseudogene (78) 78
genome (76) 76
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sequence alignment (60) 60
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multigene family (53) 53
genetic aspects (52) 52
genetics (52) 52
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sequence analysis, dna (50) 50
rna (49) 49
sequence homology, nucleic acid (49) 49
cloning, molecular (48) 48
gene (48) 48
transcription, genetic (48) 48
proteins (46) 46
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protein (45) 45
mouse (44) 44
transcription (44) 44
analysis (43) 43
exons (43) 43
polymerase chain reaction (42) 42
pseudogene (40) 40
models, genetic (38) 38
transposable elements (38) 38
drosophila (37) 37
gene duplication (37) 37
messenger-rna (37) 37
rna, messenger - genetics (37) 37
ribosomal proteins - genetics (36) 36
sequences (36) 36
molecular evolution (35) 35
mutation (35) 35
retroelements - genetics (35) 35
biology (34) 34
family (34) 34
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physiological aspects (34) 34
rats (34) 34
retrotransposition (33) 33
sequence homology, amino acid (33) 33
biological evolution (32) 32
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genetic research (30) 30
multidisciplinary sciences (30) 30
drosophila-melanogaster (29) 29
cells (27) 27
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biophysics (26) 26
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species specificity (26) 26
life sciences (25) 25
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database (24) 24
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cdna (23) 23
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nucleotide-sequence (23) 23
gene expression regulation (22) 22
messenger-rnas (22) 22
reverse transcription (22) 22
biotechnology (21) 21
gene-expression (21) 21
primates (21) 21
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1. Full Text The pseudogenes of barley
by Prade, Verena M and Gundlach, Heidrun and Twardziok, Sven and Chapman, Brett and Tan, Cong and Langridge, Peter and Schulman, Alan H and Stein, Nils and Waugh, Robbie and Zhang, Guoping and Platzer, Matthias and Li, Chengdao and Spannagl, Manuel and Mayer, Klaus F. X
The Plant Journal, ISSN 0960-7412, 02/2018, Volume 93, Issue 3, pp. 502 - 514
Summary Pseudogenes have a reputation of being ‘evolutionary relics’ or ‘junk DNA’. While they are well characterized in mammals, studies in more complex plant... 
pseudogenes | barley | Hordeum vulgare | gene fragments | gene evolution | plants | EVOLUTIONARY | PLANT-CELLS | IDENTIFICATION | PROCESSED PSEUDOGENES | CD-HIT | PLANT SCIENCES | SIGNAL-TRANSDUCTION | HUMAN GENOME | GENE | DNA | CALCIUM | Gene Duplication | Multigene Family | Pseudogenes | Genes, Plant | Selection, Genetic | Synteny | Chromosome Mapping | Chromosomes, Plant | Hordeum - genetics | Barley | Transposons | Analysis | Genes | Genomics | Plant genetics | Plants | Cereals | Transcription | Biological evolution | Innovations | Grain cultivation | Fragments | Genomes | Retrotransposition | Mammals | Gene sequencing | Evolution | Chromosomes | Deoxyribonucleic acid--DNA | Tips
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2. Full Text Pseudogenes: Pseudo-functional or key regulators in health and diseasě
by Pink, Ryan Charles and Wicks, Kate and Caley, Daniel Paul and Punch, Emma Kathleen and Jacobs, Laura and Carter, David Raul Francisco
RNA, ISSN 1355-8382, 05/2011, Volume 17, Issue 5, pp. 792 - 798
Pseudogenes have long been labeled as "junk'' DNA, failed copies of genes that arise during the evolution of genomes. However, recent results are challenging... 
Functional | Noncoding RNA | Pseudogenes | RNA | Transcription | functional | noncoding RNA | transcription | DROSOPHILA-MELANOGASTER | BIOCHEMISTRY & MOLECULAR BIOLOGY | MOLECULAR EVOLUTION | BACTERIAL GENOMES | pseudogenes | GENOME TILING ARRAYS | TUMOR-CELLS | MESSENGER-RNA STABILITY | PROCESSED PSEUDOGENES | NONCODING RNAS | MOUSE OOCYTES | HOMOLOGOUS CODING GENE | Animals | Genetic Code | Humans | Transcription, Genetic | RNA, Untranslated - genetics | Evolution, Molecular | Review
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3. Full Text Pseudogenes: Newly discovered players in human cancer
by Poliseno, Laura
Science Signaling, ISSN 1945-0877, 09/2012, Volume 5, Issue 242, pp. re5 - re5
Because they are generally noncoding and thus considered nonfunctional and unimportant, pseudogenes have long been neglected. Recent advances have established... 
HUMAN GENOME | LONG NONCODING RNA | MESSENGER-RNA | PROMOTER METHYLATION | OCT4 EXPRESSION | BIOCHEMISTRY & MOLECULAR BIOLOGY | TRANSCRIBED PSEUDOGENE | CONNEXIN43 PSEUDOGENE | FUNCTIONAL EVIDENCE | PROCESSED PSEUDOGENES | SMALL INTERFERING RNAS | CELL BIOLOGY | Neoplasms - metabolism | Protein Biosynthesis | Pseudogenes | RNA, Neoplasm - biosynthesis | DNA, Neoplasm - metabolism | Neoplasm Proteins - biosynthesis | Genes, Neoplasm | Humans | Transcription, Genetic
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4. Full Text The GENCODE pseudogene resource
by Pei, Baikang and Sisu, Cristina and Frankish, Adam and Howald, Cédric and Habegger, Lukas and Mu, Xinmeng J and Harte, Rachel and Balasubramanian, Suganthi and Tanzer, Andrea and Diekhans, Mark and Reymond, Alexandre and Hubbard, Tim J and Harrow, Jennifer and Gerstein, Mark B
Genome Biology, ISSN 1474-760X, 09/2012, Volume 13, Issue 9, pp. R51 - R51
Background: Pseudogenes have long been considered as nonfunctional genomic sequences. However, recent evidence suggests that many of them might have some form... 
ENCODE REGIONS | GENE | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | ANNOTATION | RIBOSOMAL-PROTEIN PSEUDOGENES | MOUSE OOCYTES | GENETICS & HEREDITY | GENOME-WIDE SURVEY | IDENTIFICATION | PROCESSED PSEUDOGENES | COMPREHENSIVE ANALYSIS | MAMMALIAN GENOMES | Humans | Molecular Sequence Annotation | Regulatory Sequences, Nucleic Acid | Selection, Genetic | Models, Statistical | Phylogeny | RNA Polymerase II - metabolism | Sequence Analysis, DNA | Transcription Factors - metabolism | Animals | Pseudogenes | Primates | Transcription, Genetic | Models, Genetic | Genome, Human | Binding Sites | Chromatin - genetics | Chromatin - chemistry | Research
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5. Full Text The extinction dynamics of bacterial pseudogenes
by Kuo, Chih-Horng and Ochman, Howard
PLoS Genetics, ISSN 1553-7390, 08/2010, Volume 6, Issue 8, p. e1001050
Pseudogenes are usually considered to be completely neutral sequences whose evolution is shaped by random mutations and chance events. It is possible, however,... 
SALMONELLA-ENTERICA | COMPLETE GENOME SEQUENCE | EVOLUTION | PHYLOGENETIC ANALYSIS | GENETICS & HEREDITY | SUBSTITUTION RATES | GENE DECAY | IDENTIFICATION | PROCESSED PSEUDOGENES | EXPRESSION | PARATYPHI | Genome, Bacterial | Pseudogenes | Gene Deletion | Molecular Sequence Data | Salmonella - genetics | Phylogeny | Salmonella - classification | Gene mutations | Physiological aspects | Evolution | Genetic aspects | Genomes | Research | Index Medicus | Salmonella | Mutation | Microbiology | Genes | Bacteriology
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6. Full Text Comparative analysis of pseudogenes across three phyla
by Cristina Sisu and Baikang Pei and Jing Leng and Adam Frankish and Yan Zhang and Suganthi Balasubramanian and Rachel Harte and Daifeng Wang and Michael Rutenberg-Schoenberg and Wyatt Clark and Mark Diekhans and Joel Rozowsky and Tim Hubbard and Jennifer Harrow and Mark B. Gerstein
Proceedings of the National Academy of Sciences of the United States of America, ISSN 0027-8424, 9/2014, Volume 111, Issue 37, pp. 13361 - 13366
Pseudogenes are degraded fossil copies of genes. Here, we report a comparison of pseudogenes spanning three phyla, leveraging the completed annotations of the... 
Pseudogenes | Genes | Humans | Genomics | Qualitative comparative analysis | Evolution | Genomes | Promoter regions | Chromosomes | Worms | Transcriptomics | Genome annotation | Functional genomics | RECOMBINATION | CAENORHABDITIS-ELEGANS | HUMAN GENOME | X-CHROMOSOME | EVOLUTION | MULTIDISCIPLINARY SCIENCES | GENES | MOUSE | IDENTIFICATION | PROCESSED PSEUDOGENES | MAMMALIAN GENOMES | Pseudogenes - genetics | Animals | Genetic Association Studies | Caenorhabditis elegans - genetics | Molecular Sequence Annotation | Phylogeny | Drosophila melanogaster - genetics | Promoter Regions, Genetic - genetics | Sequence Homology, Nucleic Acid | Evolution, Molecular | Genetic research | Gene expression | Research | transcriptomics | Biological Sciences | functional genomics | genome annotation
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7. Full Text Pseudogenes are not pseudo any more
by Wen, Yan-Zi and Zheng, Ling-Ling and Qu, Liang-Hu and Ayala, Francisco J and Lun, Zhao-Rong
RNA Biology, ISSN 1547-6286, 01/2012, Volume 9, Issue 1, pp. 27 - 32
Recent significant progress toward understanding the function of pseudogenes in protozoa (Trypanosoma brucei), metazoa (mouse) and plants, make it pertinent to... 
pseudogene | RNA regulation | transcription | biological function | Binding | Proteins | Landes | Calcium | Bioscience | Biology | Cell | Cycle | Cancer | Organogenesis | Pseudogene | Biological function | Transcription | Trypanosoma brucei | REGULATE GENE-EXPRESSION | TRYPANOSOMA-BRUCEI | PROTEIN | BIOCHEMISTRY & MOLECULAR BIOLOGY | ANTISENSE | IDENTIFICATION | PROCESSED PSEUDOGENES | HUMAN GENOME | EVOLUTION | NONCODING RNAS | MOUSE OOCYTES | PTEN Phosphohydrolase - genetics | RNA, Small Interfering - genetics | Humans | Gene Expression Regulation | Trypanosoma brucei brucei - genetics | Animals | Pseudogenes | Neoplasms - genetics | Plants - genetics | RNA Interference | Conserved Sequence | Transcription, Genetic | Mice
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8. Full Text Oct4 and Its Pseudogenes Confuse Stem Cell Research
by Liedtke, Stefanie and Enczmann, Jürgen and Waclawczyk, Simon and Wernet, Peter and Kögler, Gesine
Cell Stem Cell, ISSN 1934-5909, 2007, Volume 1, Issue 4, pp. 364 - 366
Octamer-binding transcription factor 4 (Oct4) encodes a POU-domain transcription factor (Scholer et al., 1990). The gene is specifically expressed in embryonic... 
NANOG | PROCESSED PSEUDOGENES | EXPRESSION | GENES | CELL BIOLOGY | Octamer Transcription Factor-3 - genetics | Pseudogenes - genetics | Reproducibility of Results | Alternative Splicing - genetics | Humans | Sensitivity and Specificity | Polymerase Chain Reaction | Molecular Sequence Data | DNA Primers - genetics | Stem Cells - metabolism
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9. Full Text Pseudogenes
by Tutar, Yusuf
Comparative and Functional Genomics, ISSN 1531-6912, 2012, Volume 2012, pp. 424526 - 4
Pseudogenes are ubiquitous and abundant in genomes. Pseudogenes were once called "genomic fossils" and treated as "junk DNA" several years. Nevertheless, it... 
HUMAN GENOME | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | BIOCHEMISTRY & MOLECULAR BIOLOGY | GENES | GENETICS & HEREDITY | IDENTIFICATION | PROCESSED PSEUDOGENES | Studies | Medical research | Genetics | Mutation | Genomics | Deoxyribonucleic acid--DNA | Hsp90 protein | Gene regulation | Heat shock proteins | Data processing | siRNA | Chaperones | Fossils | Pseudogenes | DNA | Tumor suppressor genes | genomics | miRNA | Oncogenes | Review
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10. Full Text Comprehensive analysis of the pseudogenes of glycolytic enzymes in vertebrates: The anomalously high number of GAPDH pseudogenes highlights a recent burst of retrotrans-positional activity
by Liu, Yuen-Jong and Zheng, Deyou and Balasubramanian, Suganthi and Carriero, Nicholas and Khurana, Ekta and Robilotto, Rebecca and Gerstein, Mark B
BMC Genomics, ISSN 1471-2164, 10/2009, Volume 10, Issue 1, pp. 480 - 480
Pseudogenes provide a record of the molecular evolution of genes. As glycolysis is such a highly conserved and fundamental metabolic pathway, the pseudogenes... 
Animals | Pseudogenes | Comparative Genomic Hybridization | Vertebrates - genetics | DNA Mutational Analysis | Retroelements | Synteny | Glyceraldehyde-3-Phosphate Dehydrogenases - genetics | Genome | Evolution, Molecular | HUMAN GENOME | ENCODE REGIONS | GLOBIN GENES | EVOLUTION | PROTEIN | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE | SEQUENCE | MOUSE | GENETICS & HEREDITY | BACTERIAL GENOMES | PROCESSED PSEUDOGENES | Physiological aspects | Vertebrates | Genetic aspects | Research | Glycolytic enzymes
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11. Full Text A genome-wide survey of human pseudogenes
by Torrents, David and Suyama, Mikita and Zdobnov, Evgeny and Bork, Peer
Genome Research, ISSN 1088-9051, 12/2003, Volume 13, Issue 12, pp. 2559 - 2567
We screened all intergenic regions in the human genome to identify pseudogenes with a combination of homology searches and a functionality test using the ratio... 
MAXIMUM-LIKELIHOOD | SEARCH | BIOCHEMISTRY & MOLECULAR BIOLOGY | IDENTIFICATION | PROCESSED PSEUDOGENES | ELEMENTS | EVOLUTION | DATABASE | DNA-SEQUENCE | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | GENES | GENETICS & HEREDITY | CHROMOSOME-22 | Benchmarking - statistics & numerical data | Computational Biology - methods | Pseudogenes | Humans | Statistical Distributions | Benchmarking - methods | Computational Biology - statistics & numerical data | DNA, Intergenic - genetics | Genome, Human | Online Systems | Sequence Homology, Nucleic Acid | Analysis | Genetic research | Physiological aspects | Genomes | Genetic aspects | Research | Nucleotides | Methods | comparative analysis | Letters
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12. Full Text Identification of pseudogenes in Brachypodium distachyon chromosomes
by Camiolo, Salvatore and Porceddu, Andrea
Methods in Molecular Biology, ISSN 1064-3745, 2018, Volume 1667, pp. 149 - 171
Pseudogenes are gene copies that have lost the capability to encode a functional protein. Based on their structure, pseudogenes are classified in two types.... 
Duplicated pseudogenes | Processed pseudogenes | Intron–exon structure | Disabling mutations | Paralogous genes | Plant Proteins - genetics | Pseudogenes | Exons | Introns | Brachypodium - genetics | Software | Genome, Plant | Chromosomes, Plant - genetics | Genomics - methods
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13. Full Text Origination and Function of Plant Pseudogenes
by Xie, Jianbo and Chen, Sisi and Xu, Weijie and Zhao, Yiyang and Zhang, Deqiang
Plant Signaling & Behavior, ISSN 1559-2316, 08/2019, Volume 14, Issue 8, p. 1625698
Pseudogenes, nonfunctional genomic sequences derived from functional protein-coding genes, form by duplication or retrotransposition, and loss of gene function... 
Pseudogene | evolution | noncoding RNAs | origin | function | REGULATE GENE-EXPRESSION | BIOCHEMISTRY & MOLECULAR BIOLOGY | MOUSE | PROCESSED PSEUDOGENES | ENDOGENOUS RNA | PLANT SCIENCES | HUMAN GENOME | ANNOTATION
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14. Full Text The human ABC transporter pseudogene family: Evidence for transcription and gene-pseudogene interference
by Piehler, Armin P and Hellum, Marit and Wenzel, Jürgen J and Kaminski, Ellen and Haug, Kari Bente Foss and Kierulf, Peter and Kaminski, Wolfgang E
BMC Genomics, ISSN 1471-2164, 04/2008, Volume 9, Issue 1, pp. 165 - 165
Background: Pseudogenes are an integral component of the human genome. Little attention, however, has so far been paid to the phenomenon that some pseudogenes... 
BINDING CASSETTE TRANSPORTER | BROWSER | HUMAN GENOME | EVOLUTION | CONVERSION | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | RIBOSOMAL-PROTEIN PSEUDOGENES | MOUSE | DISEASE | GENETICS & HEREDITY | IDENTIFICATION | PROCESSED PSEUDOGENES | Multigene Family - genetics | Cell Line | Humans | Computational Biology | Gene Expression Regulation | Molecular Sequence Data | DNA Primers - genetics | Reverse Transcriptase Polymerase Chain Reaction | Sequence Analysis, DNA | Pseudogenes - genetics | ATP-Binding Cassette Transporters - genetics | RNA Interference | Base Sequence | ATP-Binding Cassette Transporters - metabolism | Spectrophotometry | Pseudogenes | Research | Genetic transcription | Health aspects
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15. Full Text Pseudogenes and their genome-wide prediction in plants
by Xiao, Jin and Kumarsekhwal, Manoj and Li, Pingchuan and Raja, Ragupathy and Sylvie, Cloutier and Wang, Xiue and You, Frank M
International Journal of Molecular Sciences, ISSN 1661-6596, 12/2016, Volume 17, Issue 12, pp. 1991 - 1991
Pseudogenes are paralogs generated from ancestral functional genes (parents) during genome evolution, which contain critical defects in their sequences, such... 
Duplicated | Genome-wide | Pseudogenes | Plants | Bioinformatics tools | Processed | RICH REPEAT GENES | PROTEIN | BIOCHEMISTRY & MOLECULAR BIOLOGY | bioinformatics tools | pseudogenes | NUCLEOTIDE-BINDING SITE | IDENTIFICATION | PROCESSED PSEUDOGENES | CHEMISTRY, MULTIDISCIPLINARY | duplicated | processed | genome-wide | EVOLUTION | ENCODING GENES | plants | ANNOTATION | DUPLICATION | EXPRESSION | Gene Duplication - genetics | Computational Biology - methods | Pseudogenes - genetics | Genome, Plant - genetics | Genomes | Flowers & plants | Bioinformatics | Genes
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16. Full Text Evolutionary and Expression Signatures of Pseudogenes in Arabidopsis and Rice
by Cheng Zou and Melissa D. Lehti-Shiu and Françoise Thibaud-Nissen and Tanmay Prakash and C. Robin Buell and Shin-Han Shiu
Plant Physiology, ISSN 0032-0889, 9/2009, Volume 151, Issue 1, pp. 3 - 15
Pseudogenes (ψ) are nonfunctional genomic sequences resembling functional genes. Knowledge of ψs can improve genome annotation and our understanding of genome... 
Pseudogenes | RNA | Genome Analysis | Genes | Duplicate genes | Evolution | Genomes | Negative selection | Plants | Genetic mutation | Rice | LINEAGE-SPECIFIC EXPANSION | HUMAN GENOME | DUPLICATE GENES | TRANSCRIPTION | RECEPTOR-LIKE KINASES | HOMOLOGOUS CODING GENE | LARGE-SCALE | MESSENGER-RNA STABILITY | IDENTIFICATION | PROCESSED PSEUDOGENES | PLANT SCIENCES | Arabidopsis - genetics | Biological Evolution | Multigene Family | Pseudogenes - genetics | Oryza - genetics | Pseudogenes - physiology | Oryza - metabolism | Gene Expression Regulation, Plant - physiology | Gene Expression Profiling | Genome, Plant | Arabidopsis - metabolism | Arabidopsis thaliana | Genetic aspects | Research | Gene expression | Identification and classification
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