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 Rv2804c/-:

update plot	correlation	link to info on gene
Rv3607c/folB	(cc=0.5178)	info on Rv3607c/folB
Rv1646/PE17	(cc=0.5149)	info on Rv1646/PE17
Rv3026c/-	(cc=0.4881)	info on Rv3026c/-
Rv1163/narJ	(cc=0.4738)	info on Rv1163/narJ
Rv0985c/mscL	(cc=0.47)	info on Rv0985c/mscL
Rv0613c/-	(cc=0.4674)	info on Rv0613c/-
Rv2669/-	(cc=0.4642)	info on Rv2669/-
Rv2974c/-	(cc=0.4551)	info on Rv2974c/-
Rv3297/nei	(cc=0.4534)	info on Rv3297/nei
Rv0359/-	(cc=0.438)	info on Rv0359/-

Correlation of Rv2804c/- with Rv2669/-

Normalized LFCs for Rv2804c/-:
(description and provenance of datasets)

	Rv2804c/-	Rv2669/-
Fe_supp_jason_reseq	-0.661	-0.069
low_pH_jason_reseq	0.211	-1.332
NO_jason_reseq	-0.087	-1.205
B6_jason_reseq	-0.134	3.037
MHCII_jason_reseq	0.891	2.498
Isoniazid02	0.422	0.706
Rifampicin4	1.27	0.49
Ethambutol3	0.158	-0.122
Meropenem3	0.247	0.0
Vancomycin16	0.345	0.698
Rv2680_day32	0.806	-0.875
H37Rv_KO_MarP	0.435	2.138
hypoxia_3wks	0.064	-0.961
hypoxia_6wks	-0.113	0.309
glycerol	0.521	1.34
cholesterol	0.516	1.133
AJ	0.916	-0.398
Bibs02	0.903	0.126
Bibs02c	0.196	0.191
BL6	0.421	0.227
BL6a	0.309	-1.116
BXD01	-0.454	-1.807
BXD010	0.11	-2.339
BXD011	0.404	-2.809
BXD03	-0.486	-3.074
BXD04	0.12	-0.599
BXD05	0.016	-2.654
BXD06	-0.374	-2.704
BXD07	0.048	-3.148
BXD08	0.553	-1.028
BXD09	-0.126	-1.753
CAST	0.958	-0.27
CCcont	-0.504	-1.547
DS01	0.423	1.702
DS02	0.561	1.15
DS04	1.235	1.428
DS0c	1.119	0.506
GP01	-0.366	-2.315
GP02	1.241	-0.686
GP0c	0.064	-0.337
NOD	0.566	2.193
NZO	0.207	0.0
PWK	0.732	-0.74
H37Rv_KO_CtpC	1.116	-0.85
H37Rv_KO_CtpD	0.039	-3.068
H37Rv_KO_Rv1272	-1.693	-3.802
H37Rv_KO_SugABC	0.353	0.268
H37Rv_KO_MbtN	-0.847	-2.497
Trans05	-0.386	-3.393
macrophage_unactivated	-0.208	-1.31
IL1	-0.658	-3.921
Rapamycin	-0.7	-4.057
Tcell	-0.622	-1.678
GMCSF	-0.38	-1.497
IFNab	-0.405	-2.606
IFNg	-0.77	-4.049
IFNg_GMCSF1	0.016	-1.012
Rv1432_day32	-0.631	0.0
Rv1565c_day32	-0.52	0.284
secA2_input	0.307	0.302
delta_Rv3594	-0.216	1.741
delta_Rv3717	0.301	1.995
delta_Rv3811	-0.082	1.787
delta_Rv0954	0.886	-0.096
PonA1	0.293	0.372
EccD1_KO	0.237	-0.181
EspI_KO	0.784	-1.708
PE35_KO	0.254	0.155
PPE68_KO	-0.134	-0.176
glycerol2	0.496	1.014
lignocerate	0.566	0.216
oleate	0.254	0.366
phosphatidylcholine	0.515	0.667
acetate	0.414	-0.336
glucAc	-0.205	0.239
Rv0950ko	-0.552	0.229
Rv1096ko	-0.688	0.947
Rv3684ko	0.151	2.204
delta_otsA_trehalose	-0.576	0.075