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 Rv0613c/-:

update plot	correlation	link to info on gene
Rv1163/narJ	(cc=0.6212)	info on Rv1163/narJ
Rv0614/-	(cc=0.6192)	info on Rv0614/-
Rv2490c/PE_PGRS43	(cc=0.6173)	info on Rv2490c/PE_PGRS43
Rv0648/-	(cc=0.5761)	info on Rv0648/-
Rv2741/PE_PGRS47	(cc=0.5704)	info on Rv2741/PE_PGRS47
Rv1378c/-	(cc=0.5572)	info on Rv1378c/-
Rv2669/-	(cc=0.5507)	info on Rv2669/-
Rv3026c/-	(cc=0.5366)	info on Rv3026c/-
Rv3897c/-	(cc=0.5273)	info on Rv3897c/-
Rv3590c/PE_PGRS58	(cc=0.5228)	info on Rv3590c/PE_PGRS58

Correlation of Rv0613c/- with Rv0648/-

Normalized LFCs for Rv0613c/-:
(description and provenance of datasets)

	Rv0613c/-	Rv0648/-
Fe_supp_jason_reseq	-1.264	-0.423
low_pH_jason_reseq	-2.106	-0.159
NO_jason_reseq	-0.643	-0.06
B6_jason_reseq	0.221	0.75
MHCII_jason_reseq	0.773	0.848
Isoniazid02	-0.576	0.311
Rifampicin4	0.187	0.485
Ethambutol3	0.77	0.174
Meropenem3	-0.367	0.625
Vancomycin16	0.183	-0.077
Rv2680_day32	1.226	0.089
H37Rv_KO_MarP	0.676	0.251
hypoxia_3wks	-0.538	0.124
hypoxia_6wks	-0.505	0.127
glycerol	1.002	1.027
cholesterol	0.774	0.486
AJ	0.59	0.624
Bibs02	0.188	0.148
Bibs02c	0.45	0.374
BL6	-0.553	0.278
BL6a	-0.339	-0.053
BXD01	-0.472	-0.387
BXD010	-0.253	-0.353
BXD011	-0.238	-0.149
BXD03	-0.886	-0.036
BXD04	0.215	-0.124
BXD05	-1.429	0.102
BXD06	-0.675	-0.164
BXD07	-0.7	-0.154
BXD08	-0.024	0.055
BXD09	-1.03	-0.341
CAST	0.496	0.454
CCcont	-0.65	-0.201
DS01	0.659	0.756
DS02	0.523	0.548
DS04	0.758	1.15
DS0c	0.24	0.492
GP01	0.23	0.365
GP02	0.881	0.819
GP0c	-0.06	0.238
NOD	-0.041	0.5
NZO	0.549	0.426
PWK	0.678	0.253
H37Rv_KO_CtpC	-0.786	-0.331
H37Rv_KO_CtpD	-0.119	0.762
H37Rv_KO_Rv1272	-0.459	-0.371
H37Rv_KO_SugABC	-1.183	0.753
H37Rv_KO_MbtN	-1.082	-0.022
Trans05	-2.271	0.034
macrophage_unactivated	-0.208	-0.603
IL1	-0.403	0.314
Rapamycin	-0.144	-0.193
Tcell	-1.043	-0.622
GMCSF	-0.277	0.211
IFNab	-0.967	0.042
IFNg	-1.563	-0.305
IFNg_GMCSF1	-0.239	0.022
Rv1432_day32	-0.07	-0.242
Rv1565c_day32	0.349	0.27
secA2_input	0.03	0.969
delta_Rv3594	0.364	0.754
delta_Rv3717	0.086	0.673
delta_Rv3811	0.076	0.344
delta_Rv0954	-0.068	0.098
PonA1	-0.429	0.188
EccD1_KO	0.283	0.437
EspI_KO	0.317	-0.094
PE35_KO	-0.158	-0.324
PPE68_KO	-0.262	-0.47
glycerol2	0.419	0.154
lignocerate	0.799	0.639
oleate	0.618	0.237
phosphatidylcholine	0.322	0.282
acetate	-0.143	0.387
glucAc	0.238	0.468
Rv0950ko	-0.063	0.386
Rv1096ko	1.164	1.276
Rv3684ko	0.069	0.108
delta_otsA_trehalose	-1.054	-0.912