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 Rv1871c/-:

update plot	correlation	link to info on gene
Rv2722/-	(cc=0.6053)	info on Rv2722/-
Rv1920/-	(cc=0.5532)	info on Rv1920/-
Rv1816/-	(cc=0.5521)	info on Rv1816/-
Rv1949c/-	(cc=0.5509)	info on Rv1949c/-
Rv1582c/-	(cc=0.5457)	info on Rv1582c/-
Rv1978/-	(cc=0.5423)	info on Rv1978/-
Rv1787/PPE25	(cc=0.5409)	info on Rv1787/PPE25
Rv1521/fadD25	(cc=0.5377)	info on Rv1521/fadD25
Rv2510c/-	(cc=0.534)	info on Rv2510c/-
Rv1548c/PPE21	(cc=0.5304)	info on Rv1548c/PPE21

Correlation of Rv1871c/- with Rv1521/fadD25

Normalized LFCs for Rv1871c/-:
(description and provenance of datasets)

	Rv1871c/-	Rv1521/fadD25
Fe_supp_jason_reseq	-0.912	1.408
low_pH_jason_reseq	-0.53	-0.495
NO_jason_reseq	0.473	0.0
B6_jason_reseq	-1.258	0.444
MHCII_jason_reseq	-1.425	0.125
Isoniazid02	1.439	-0.183
Rifampicin4	0.479	0.133
Ethambutol3	0.428	0.322
Meropenem3	0.461	0.081
Vancomycin16	0.456	0.379
Rv2680_day32	-0.682	0.161
H37Rv_KO_MarP	-0.285	0.0
hypoxia_3wks	0.75	0.698
hypoxia_6wks	0.073	0.576
glycerol	-0.992	-0.404
cholesterol	-0.324	-0.35
AJ	-0.239	0.274
Bibs02	-0.36	0.539
Bibs02c	-1.199	-0.537
BL6	-0.055	0.492
BL6a	-0.277	0.408
BXD01	-0.095	0.906
BXD010	0.395	1.149
BXD011	0.603	0.802
BXD03	-0.029	1.018
BXD04	-0.269	1.19
BXD05	0.71	0.952
BXD06	0.057	0.737
BXD07	0.007	0.688
BXD08	0.157	1.121
BXD09	-0.145	0.668
CAST	0.37	0.052
CCcont	-0.471	0.478
DS01	-0.039	0.027
DS02	-0.501	0.0
DS04	-0.177	-0.045
DS0c	-0.277	-0.05
GP01	1.05	0.634
GP02	0.11	1.092
GP0c	0.703	0.726
NOD	0.485	0.524
NZO	-0.688	-0.023
PWK	-0.604	-0.59
H37Rv_KO_CtpC	0.112	1.032
H37Rv_KO_CtpD	0.495	1.28
H37Rv_KO_Rv1272	0.893	1.45
H37Rv_KO_SugABC	0.349	0.767
H37Rv_KO_MbtN	1.584	1.982
Trans05	0.698	1.332
macrophage_unactivated	0.625	0.505
IL1	-0.403	0.552
Rapamycin	0.476	0.703
Tcell	-0.345	0.404
GMCSF	0.869	0.129
IFNab	0.686	0.72
IFNg	-0.168	0.476
IFNg_GMCSF1	0.292	0.531
Rv1432_day32	-0.485	0.169
Rv1565c_day32	-0.009	0.313
secA2_input	-0.994	-0.762
delta_Rv3594	-1.137	0.515
delta_Rv3717	-1.158	-0.225
delta_Rv3811	-0.758	0.0
delta_Rv0954	-0.908	-0.127
PonA1	-1.138	-0.18
EccD1_KO	-0.306	0.033
EspI_KO	0.915	0.314
PE35_KO	-0.184	0.347
PPE68_KO	-0.074	0.65
glycerol2	0.265	-0.149
lignocerate	-0.578	-0.496
oleate	0.698	0.067
phosphatidylcholine	0.37	-0.045
acetate	-0.836	-0.308
glucAc	-1.325	-0.773
Rv0950ko	-0.874	0.193
Rv1096ko	-1.378	-1.194
Rv3684ko	-0.707	-0.793
delta_otsA_trehalose	0.11	0.144