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 Rv1726/-:

update plot	correlation	link to info on gene
Rv3077/-	(cc=0.5916)	info on Rv3077/-
Rv3742c/-	(cc=0.5788)	info on Rv3742c/-
Rv0342/iniA	(cc=0.5451)	info on Rv0342/iniA
Rv2313c/-	(cc=0.5379)	info on Rv2313c/-
Rv3664c/dppC	(cc=0.5365)	info on Rv3664c/dppC
Rv1413/-	(cc=0.5321)	info on Rv1413/-
Rv0968/-	(cc=0.5265)	info on Rv0968/-
Rv3329/-	(cc=0.525)	info on Rv3329/-
Rv2679/echA15	(cc=0.5212)	info on Rv2679/echA15
Rv0399c/lpqK	(cc=0.5157)	info on Rv0399c/lpqK

Correlation of Rv1726/- with Rv0342/iniA

Normalized LFCs for Rv1726/-:
(description and provenance of datasets)

	Rv1726/-	Rv0342/iniA
Fe_supp_jason_reseq	-0.541	-0.583
low_pH_jason_reseq	-0.502	-0.781
NO_jason_reseq	0.727	0.795
B6_jason_reseq	0.182	0.252
MHCII_jason_reseq	0.394	0.5
Isoniazid02	-2.193	-2.219
Rifampicin4	-0.623	0.33
Ethambutol3	-1.188	-2.382
Meropenem3	-2.035	-1.242
Vancomycin16	-0.942	-0.7
Rv2680_day32	-0.623	-0.18
H37Rv_KO_MarP	-0.144	0.368
hypoxia_3wks	0.343	-0.112
hypoxia_6wks	0.198	-0.535
glycerol	-0.032	0.532
cholesterol	-0.173	0.446
AJ	0.82	0.765
Bibs02	0.009	0.009
Bibs02c	0.142	-0.656
BL6	0.437	-0.238
BL6a	-0.065	-0.331
BXD01	-0.306	-0.119
BXD010	-0.362	-0.076
BXD011	-0.674	0.106
BXD03	-0.154	0.207
BXD04	0.506	0.058
BXD05	-0.316	0.414
BXD06	0.049	0.387
BXD07	-0.493	-0.097
BXD08	-0.089	0.05
BXD09	-0.283	-0.062
CAST	-0.494	0.322
CCcont	-0.928	-0.276
DS01	0.577	-0.477
DS02	0.843	0.221
DS04	1.304	-0.646
DS0c	0.0	0.489
GP01	0.433	0.527
GP02	0.396	0.28
GP0c	-0.462	0.068
NOD	-0.604	0.042
NZO	-0.11	0.549
PWK	-0.344	0.517
H37Rv_KO_CtpC	-0.175	0.207
H37Rv_KO_CtpD	0.862	-0.05
H37Rv_KO_Rv1272	0.0	0.588
H37Rv_KO_SugABC	1.181	0.512
H37Rv_KO_MbtN	-0.13	0.24
Trans05	0.379	0.793
macrophage_unactivated	0.243	-0.429
IL1	0.285	-0.35
Rapamycin	0.568	0.147
Tcell	0.342	-0.081
GMCSF	0.227	-0.312
IFNab	0.26	0.239
IFNg	0.401	-0.155
IFNg_GMCSF1	0.899	0.176
Rv1432_day32	0.567	0.186
Rv1565c_day32	0.676	0.39
secA2_input	0.147	0.564
delta_Rv3594	-0.303	-0.509
delta_Rv3717	-0.18	-0.352
delta_Rv3811	0.126	-0.495
delta_Rv0954	0.121	-0.351
PonA1	0.14	-0.163
EccD1_KO	-0.237	0.023
EspI_KO	-0.077	-0.522
PE35_KO	-0.578	-0.292
PPE68_KO	-0.381	-0.659
glycerol2	-0.147	0.423
lignocerate	-0.057	0.66
oleate	-0.22	0.461
phosphatidylcholine	0.063	0.391
acetate	-0.362	0.632
glucAc	-0.503	0.381
Rv0950ko	0.247	0.286
Rv1096ko	1.188	0.531
Rv3684ko	0.583	0.311
delta_otsA_trehalose	2.62	1.165