Detection of nucleic acids from whole

Abstract

Methods of detecting one or more nucleic acids from whole blood or plasma are provided. The nucleic acids are captured on a solid support and detected. Compositions, kits, and systems related to the methods are also described.

1 - 25 . (canceled) 
     
     
         26 . A composition comprising:
 a first set of n capture extenders, wherein n is at least two, which first set of capture extenders is capable of hybridizing to a first target nucleic acid;   a solid support, wherein a first capture probe is bound to the solid support, the first capture probe being capable of hybridizing to the capture extenders of the first set and thereby associating the capture extenders with the solid support;   a whole blood lysate, which whole blood lysate comprises peripheral blood cell nucleic acids and the first target nucleic acid; and   an exogenously supplied protease;   wherein the first target nucleic acid is hybridized to the first set of capture extenders, which capture extenders are hybridized to the first capture probe, whereby the first target nucleic acid is associated with the solid support;   wherein the composition is maintained at a hybridization temperature which is greater than a melting temperature (T m ) of a complex between each individual capture extender and the capture probe.   
     
     
         27 - 28 . (canceled) 
     
     
         29 . The composition of  claim 26 , wherein the peripheral blood cell nucleic acids comprise the first target nucleic acid. 
     
     
         30 . The composition of  claim 26 , wherein the first target nucleic acid is an RNA. 
     
     
         31 . The composition of  claim 26 , wherein the first target nucleic acid is a DNA. 
     
     
         32 . (canceled) 
     
     
         33 . The composition of  claim 26 , wherein n is at least three. 
     
     
         34 . The composition of  claim 26 , wherein n is at most 10. 
     
     
         35 - 36 . (canceled) 
     
     
         37 . The composition of  claim 26 , wherein the solid support is a substantially planar solid support. 
     
     
         38 . The composition of  claim 26 , wherein the solid support comprises a plurality of particles. 
     
     
         39 . The composition of  claim 26 , comprising a second set of m capture extenders, wherein m is at least two, which second set of capture extenders is capable of hybridizing to a second target nucleic acid, wherein a second capture probe is bound to the solid support, the second capture probe being capable of hybridizing to the capture extenders of the second set and thereby associating the capture extenders with the solid support. 
     
     
         40 . The composition of  claim 39 , comprising the second target nucleic acid. 
     
     
         41 . The composition of  claim 39 , wherein the solid support is a substantially planar solid support, wherein the first capture probe is predisposed at a first selected position on the solid support, whereby the first set of capture extenders is associated with the first selected position on the solid support, and wherein the second capture probe is predisposed at a second selected position on the solid support, whereby the second set of capture extenders is associated with the second selected position on the solid support. 
     
     
         42 . The composition of  claim 39 , wherein the solid support comprises a population of particles, the population comprising at least two sets of particles, the particles in each set being distinguishable from the particles in every other set; wherein a first set of particles comprises the first capture probe, whereby the first set of capture extenders is associated with the first set of particles; and wherein a second set of particles comprises the second capture probe, whereby the second set of capture extenders is associated with the second set of particles. 
     
     
         43 . (canceled) 
     
     
         44 . The composition of  claim 26 , comprising a first set of one or more label extenders, which first set of label extenders is capable of hybridizing to the first target nucleic acid, and/or a label probe system comprising a label. 
     
     
         45 . The composition of  claim 44 , wherein the label probe system comprises an amplification multimer and a plurality of label probes, wherein the amplification multimer is capable of hybridizing simultaneously to a label extender and to a plurality of label probes. 
     
     
         46 . The composition of  claim 45 , wherein the label probe comprises the label. 
     
     
         47 . The composition of  claim 44 , wherein the label is a fluorescent label or an enzyme. 
     
     
         48 - 69 . (canceled) 
     
     
         70 . The composition of  claim 39 , comprising five or more sets of at least two capture extenders, each of which sets is capable of hybridizing to one of five or more target nucleic acids; wherein the solid support comprises five or more capture probes bound to the solid support. 
     
     
         71 . The composition of  claim 26 , wherein the exogenously supplied protease is proteinase K. 
     
     
         72 . The composition of  claim 71 , wherein the proteinase K is at a concentration of at least 1 mg per ml of the whole blood lysate. 
     
     
         73 . The composition of  claim 26 , wherein the volume of whole blood from which the whole blood lysate is produced is at most ⅕ the volume of the composition.