The extent of gene essentiality and buffering by duplicates is not conserved across organisms Supplementary Material

نویسندگان

  • Kevin Hannay
  • Edward M. Marcotte
  • Christine Vogel
چکیده

Abbreviations: CAI – Codon Adaptation Index; D – effective gene family size (number of additional gene duplicates); E-value – expectation value; KD – knockdown; KO – knockout; MIPS Munich Information Center for Protein Sequences; P(S) – probability of survival upon singleor double-gene KO or KD; R – squared Pearson correlation coefficient; SGA– Synthetic Genetic Array; SSL – synthetic sick or lethal (mutant); SYD – Stanford Yeast Database; WGD – whole-genome duplication Organisms: M. genitalium Mycoplasma genitalium; H. pylori – Helicobacter pylori; H. influenzae – Haemophilus influenzae; M. tuberculosis Mycobacterium tuberculosis; Paer Pseudomonas aeruginosa; B. subtilis – Bacillus subtilis; E. coli – Escherichia coli; S. cerevisiae – Saccharomyces cerevisiae (yeast); C. elegans – Caenorhabditis elegans (worm); D. melanogaster – Drosophila melanogaster (fly); M. musculus – Mus musculus (mouse)

برای دانلود متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید

ثبت نام

اگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید

منابع مشابه

Supervised Learning for Detection of Duplicates in Genomic Sequence Databases

MOTIVATION First identified as an issue in 1996, duplication in biological databases introduces redundancy and even leads to inconsistency when contradictory information appears. The amount of data makes purely manual de-duplication impractical, and existing automatic systems cannot detect duplicates as precisely as can experts. Supervised learning has the potential to address such problems by ...

متن کامل

Cloning and determination of biochemical properties of protective and broadly conserved vaccine antigens from the genome of extraintestinal pathogenic Escherichia coli into pET28a vector

Urinary tract infections are one of the most common infectious diseases that lead to significant health problems in the world. Urinary tract infections are referred to any infection in any part of the renal system. Uropathogenic Escherichia coli, Proteus mirabilis, and Klebsiella are main organisms that are involved in these infections. After identifying same protective and conserved virulence ...

متن کامل

Towards a compendium of essential genes – From model organisms to synthetic lethality in cancer cells

Essential genes are defined by their requirement to sustain life in cells or whole organisms. The systematic identification of essential gene sets not only allows insights into the fundamental building blocks of life, but may also provide novel therapeutic targets in oncology. The discovery of essential genes has been tightly linked to the development and deployment of various screening technol...

متن کامل

Inferring protein-protein interactions through high-throughput interaction data from diverse organisms

MOTIVATION Identifying protein-protein interactions is critical for understanding cellular processes. Because protein domains represent binding modules and are responsible for the interactions between proteins, computational approaches have been proposed to predict protein interactions at the domain level. The fact that protein domains are likely evolutionarily conserved allows us to pool infor...

متن کامل

P-157: Polymorphic Core Promoter GA-repeats Alter Gene Expression of The Early Embryonic Developmental Genes

Background: We examine the GA-repeat core promoters of MECOM and GABRA3 in human embryonic kidney-293 cell line and show that those GA-repeats have promoter activity,and those different alleles of the repeats can significantly alter gene expression.We propose a novel role for GA-repeat core promoters to regulate gene expression in the genes involved in development and evolution. Materials and M...

متن کامل

ذخیره در منابع من


  با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید

برای دانلود متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید

ثبت نام

اگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید

عنوان ژورنال:

دوره   شماره 

صفحات  -

تاریخ انتشار 2008