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 Rv0752c/fadE9:

update plot	correlation	link to info on gene
Rv0727c/fucA	(cc=0.4059)	info on Rv0727c/fucA
Rv3180c/-	(cc=0.4049)	info on Rv3180c/-
Rv2219/-	(cc=0.3896)	info on Rv2219/-
Rv0278c/PE_PGRS3	(cc=0.3828)	info on Rv0278c/PE_PGRS3
Rv1352/-	(cc=0.3705)	info on Rv1352/-
Rv3653/PE_PGRS61	(cc=0.3646)	info on Rv3653/PE_PGRS61
Rv2850c/-	(cc=0.3588)	info on Rv2850c/-
Rv1087/PE_PGRS21	(cc=0.3403)	info on Rv1087/PE_PGRS21
Rv0613c/-	(cc=0.3402)	info on Rv0613c/-
Rv0794c/-	(cc=0.3388)	info on Rv0794c/-

Correlation of Rv0752c/fadE9 with Rv2219/-

Normalized LFCs for Rv0752c/fadE9:
(description and provenance of datasets)

	Rv0752c/fadE9	Rv2219/-
Fe_supp_jason_reseq	-0.129	-0.137
low_pH_jason_reseq	-0.323	-1.282
NO_jason_reseq	0.053	-0.228
B6_jason_reseq	0.494	-0.097
MHCII_jason_reseq	1.211	0.229
Isoniazid02	-0.095	0.162
Rifampicin4	0.33	-0.682
Ethambutol3	-0.119	-0.146
Meropenem3	0.328	-0.474
Vancomycin16	0.546	-0.669
Rv2680_day32	0.259	-1.75
H37Rv_KO_MarP	0.502	0.404
hypoxia_3wks	0.104	-1.655
hypoxia_6wks	0.267	-1.625
glycerol	1.295	0.313
cholesterol	0.361	-0.676
AJ	0.919	0.096
Bibs02	0.775	1.766
Bibs02c	0.0	-1.605
BL6	0.23	1.144
BL6a	0.154	-1.058
BXD01	0.304	0.534
BXD010	-0.164	-0.684
BXD011	0.075	-0.977
BXD03	0.661	-0.388
BXD04	0.944	-0.845
BXD05	-0.821	0.347
BXD06	-0.298	-0.623
BXD07	0.641	0.883
BXD08	1.5	0.467
BXD09	0.027	-0.122
CAST	-0.095	-0.307
CCcont	0.89	1.891
DS01	0.394	-0.678
DS02	0.0	1.068
DS04	1.346	0.953
DS0c	0.248	-1.158
GP01	0.577	0.986
GP02	1.051	-0.388
GP0c	0.847	0.248
NOD	-0.864	-0.905
NZO	0.367	-1.065
PWK	-0.163	-1.189
H37Rv_KO_CtpC	-0.991	-0.558
H37Rv_KO_CtpD	0.355	2.726
H37Rv_KO_Rv1272	1.131	-0.753
H37Rv_KO_SugABC	-0.502	-0.677
H37Rv_KO_MbtN	-0.49	-0.296
Trans05	0.907	-1.121
macrophage_unactivated	0.227	0.234
IL1	-0.795	-2.337
Rapamycin	1.004	-2.418
Tcell	0.0	1.098
GMCSF	-0.787	-2.445
IFNab	-0.469	-2.382
IFNg	0.767	-2.475
IFNg_GMCSF1	-1.329	-2.476
Rv1432_day32	-0.338	-0.18
Rv1565c_day32	0.382	-0.706
secA2_input	0.211	0.0
delta_Rv3594	1.45	2.213
delta_Rv3717	0.123	1.562
delta_Rv3811	0.315	1.487
delta_Rv0954	0.216	0.311
PonA1	-0.675	-0.159
EccD1_KO	1.316	0.697
EspI_KO	-0.297	0.605
PE35_KO	0.0	1.779
PPE68_KO	0.544	1.789
glycerol2	0.092	3.845
lignocerate	1.218	3.444
oleate	0.508	0.0
phosphatidylcholine	0.755	3.37
acetate	0.818	3.661
glucAc	0.938	3.26
Rv0950ko	-0.519	-2.433
Rv1096ko	0.464	-2.021
Rv3684ko	0.596	-0.573
delta_otsA_trehalose	0.214	0.321