TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv0082/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0228/-	(cc=0.5796)	info on Rv0228/-
Rv1180/pks3	(cc=0.5696)	info on Rv1180/pks3
Rv0850/-	(cc=0.5672)	info on Rv0850/-
Rv2636/-	(cc=0.561)	info on Rv2636/-
Rv3354/-	(cc=0.5469)	info on Rv3354/-
Rv0266c/oplA	(cc=0.5464)	info on Rv0266c/oplA
Rv3295/-	(cc=0.5458)	info on Rv3295/-
Rv2633c/-	(cc=0.5361)	info on Rv2633c/-
Rv0139/-	(cc=0.5115)	info on Rv0139/-
Rv2924c/fpg	(cc=0.5112)	info on Rv2924c/fpg

Correlation of Rv0082/- with Rv0228/-

Normalized LFCs for Rv0082/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0082/-	Rv0228/-
Fe_supp_jason_reseq	0.508	1.07
low_pH_jason_reseq	0.634	0.0
NO_jason_reseq	-0.331	0.0
B6_jason_reseq	0.97	1.759
MHCII_jason_reseq	0.315	0.37
Isoniazid02	0.047	-0.167
Rifampicin4	0.341	0.558
Ethambutol3	-0.168	-0.14
Meropenem3	0.289	0.128
Vancomycin16	-0.088	0.796
Rv2680_day32	1.173	0.0
H37Rv_KO_MarP	-0.03	-0.684
hypoxia_3wks	-0.55	0.678
hypoxia_6wks	0.758	-0.626
glycerol	0.206	0.585
cholesterol	-0.012	0.915
AJ	0.052	0.05
Bibs02	0.0	0.56
Bibs02c	1.278	-1.66
BL6	-3.413	-2.023
BL6a	0.682	-2.66
BXD01	-1.81	-2.107
BXD010	-2.5	-2.072
BXD011	-0.983	-2.06
BXD03	-1.204	-2.187
BXD04	-0.505	-2.0
BXD05	-0.461	-2.177
BXD06	-1.816	-2.159
BXD07	-1.478	-2.24
BXD08	-0.59	-2.151
BXD09	-0.437	-2.273
CAST	0.052	-0.389
CCcont	-2.708	-2.131
DS01	-1.341	-0.727
DS02	-0.61	-1.942
DS04	-0.271	0.779
DS0c	-1.604	-1.431
GP01	-0.862	-1.597
GP02	-0.294	-1.346
GP0c	-0.922	-2.103
NOD	-0.088	-0.83
NZO	0.718	-0.285
PWK	0.145	0.168
H37Rv_KO_CtpC	-1.127	-2.628
H37Rv_KO_CtpD	-0.489	-1.922
H37Rv_KO_Rv1272	-3.25	-2.281
H37Rv_KO_SugABC	-2.038	-1.503
H37Rv_KO_MbtN	-1.402	-1.667
Trans05	-0.194	-1.983
macrophage_unactivated	-1.553	-2.923
IL1	-2.106	-2.747
Rapamycin	-0.807	-2.842
Tcell	-1.603	-3.017
GMCSF	-0.264	-2.445
IFNab	-1.034	-2.799
IFNg	-0.406	-2.475
IFNg_GMCSF1	-0.207	-1.386
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	-0.307	1.565
delta_Rv3594	-0.765	0.402
delta_Rv3717	-1.1	0.0
delta_Rv3811	-0.431	0.205
delta_Rv0954	0.434	0.0
PonA1	-0.419	0.0
EccD1_KO	-0.835	-0.865
EspI_KO	-1.349	-0.359
PE35_KO	-1.135	-0.368
PPE68_KO	-0.525	-0.841
glycerol2	0.667	0.0
lignocerate	-0.078	0.591
oleate	0.916	0.0
phosphatidylcholine	1.648	0.193
acetate	0.199	0.0
glucAc	-1.242	0.0
Rv0950ko	0.314	0.793
Rv1096ko	0.983	1.143
Rv3684ko	0.534	0.452
delta_otsA_trehalose	-0.071	0.0