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 Rv3064c/-:

update plot	correlation	link to info on gene
Rv0281/-	(cc=0.4621)	info on Rv0281/-
Rv3321c/vapB44	(cc=0.4512)	info on Rv3321c/vapB44
Rv3468c/-	(cc=0.4473)	info on Rv3468c/-
Rv0997/-	(cc=0.4449)	info on Rv0997/-
Rv2689c/-	(cc=0.4438)	info on Rv2689c/-
Rv2575/-	(cc=0.4329)	info on Rv2575/-
Rv0442c/PPE10	(cc=0.432)	info on Rv0442c/PPE10
Rv1562c/treZ	(cc=0.4305)	info on Rv1562c/treZ
Rv3819/-	(cc=0.4286)	info on Rv3819/-
Rv2463/lipP	(cc=0.4163)	info on Rv2463/lipP

Correlation of Rv3064c/- with Rv2575/-

Normalized LFCs for Rv3064c/-:
(description and provenance of datasets)

	Rv3064c/-	Rv2575/-
Fe_supp_jason_reseq	-0.497	-0.357
low_pH_jason_reseq	-0.074	0.176
NO_jason_reseq	0.194	0.373
B6_jason_reseq	-0.165	-1.261
MHCII_jason_reseq	-0.668	-0.524
Isoniazid02	0.374	0.285
Rifampicin4	0.485	-0.398
Ethambutol3	1.597	0.838
Meropenem3	0.156	0.375
Vancomycin16	0.379	0.387
Rv2680_day32	0.261	-1.044
H37Rv_KO_MarP	0.509	-0.761
hypoxia_3wks	-0.355	1.081
hypoxia_6wks	-0.699	1.52
glycerol	-0.288	-1.204
cholesterol	0.041	-0.156
AJ	0.055	0.103
Bibs02	-0.282	-0.391
Bibs02c	-0.071	-0.476
BL6	0.312	1.269
BL6a	0.11	0.618
BXD01	0.424	1.404
BXD010	0.106	0.992
BXD011	0.176	2.068
BXD03	0.081	0.728
BXD04	0.39	1.434
BXD05	0.429	0.724
BXD06	0.333	0.913
BXD07	0.431	1.138
BXD08	1.596	1.16
BXD09	0.65	1.548
CAST	-0.182	-0.624
CCcont	0.194	1.381
DS01	0.356	-0.505
DS02	-0.011	-1.95
DS04	0.684	-0.526
DS0c	-0.754	-0.787
GP01	-0.324	-0.082
GP02	0.247	0.804
GP0c	-0.74	0.395
NOD	0.747	0.399
NZO	-0.107	0.0
PWK	-0.038	-0.365
H37Rv_KO_CtpC	-0.015	-0.302
H37Rv_KO_CtpD	0.094	1.574
H37Rv_KO_Rv1272	0.45	1.069
H37Rv_KO_SugABC	0.748	2.023
H37Rv_KO_MbtN	0.295	-0.844
Trans05	-0.322	0.418
macrophage_unactivated	-0.095	0.205
IL1	-0.421	1.017
Rapamycin	-0.47	0.491
Tcell	0.016	0.241
GMCSF	1.22	0.533
IFNab	-0.03	0.085
IFNg	0.067	0.473
IFNg_GMCSF1	-0.786	-0.308
Rv1432_day32	0.034	0.029
Rv1565c_day32	2.243	0.319
secA2_input	-0.246	-0.1
delta_Rv3594	-0.177	0.286
delta_Rv3717	-0.588	-0.434
delta_Rv3811	-0.467	-0.022
delta_Rv0954	-0.363	1.105
PonA1	-0.37	-0.354
EccD1_KO	-0.099	-1.023
EspI_KO	-0.513	-0.171
PE35_KO	-0.07	0.0
PPE68_KO	0.019	-0.656
glycerol2	0.416	0.429
lignocerate	0.608	0.688
oleate	0.346	0.014
phosphatidylcholine	0.706	0.891
acetate	0.672	0.884
glucAc	1.074	0.515
Rv0950ko	0.196	0.166
Rv1096ko	-0.045	0.042
Rv3684ko	0.295	-0.046
delta_otsA_trehalose	2.722	3.259