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 Rv1251c/-:

update plot	correlation	link to info on gene
Rv1182/papA3	(cc=0.621)	info on Rv1182/papA3
Rv0936/pstA2	(cc=0.5548)	info on Rv0936/pstA2
Rv2917/-	(cc=0.5493)	info on Rv2917/-
Rv1250/-	(cc=0.5489)	info on Rv1250/-
Rv2089c/pepE	(cc=0.5464)	info on Rv2089c/pepE
Rv1514c/-	(cc=0.5402)	info on Rv1514c/-
Rv2340c/PE_PGRS39	(cc=0.5305)	info on Rv2340c/PE_PGRS39
Rv2867c/-	(cc=0.528)	info on Rv2867c/-
Rv2282c/-	(cc=0.5223)	info on Rv2282c/-
Rv2432c/-	(cc=0.519)	info on Rv2432c/-

Correlation of Rv1251c/- with Rv2917/-

Normalized LFCs for Rv1251c/-:
(description and provenance of datasets)

	Rv1251c/-	Rv2917/-
Fe_supp_jason_reseq	-0.343	-0.085
low_pH_jason_reseq	0.435	-0.395
NO_jason_reseq	0.572	-0.181
B6_jason_reseq	0.611	1.063
MHCII_jason_reseq	1.169	0.894
Isoniazid02	0.469	0.57
Rifampicin4	0.184	0.089
Ethambutol3	0.635	0.99
Meropenem3	1.521	1.087
Vancomycin16	-0.125	0.231
Rv2680_day32	-0.822	-0.055
H37Rv_KO_MarP	0.251	0.051
hypoxia_3wks	-0.116	0.323
hypoxia_6wks	0.029	0.169
glycerol	0.418	0.623
cholesterol	0.343	0.27
AJ	0.41	0.061
Bibs02	0.433	0.49
Bibs02c	0.541	0.652
BL6	0.171	-0.73
BL6a	0.271	-0.009
BXD01	0.0	-0.198
BXD010	-0.378	-1.009
BXD011	-0.257	-0.867
BXD03	-0.592	-0.669
BXD04	0.0	-0.998
BXD05	0.036	-0.538
BXD06	-0.494	-0.516
BXD07	-0.326	-0.675
BXD08	-0.037	-0.558
BXD09	-0.414	-1.094
CAST	0.143	0.496
CCcont	-0.173	-0.884
DS01	0.66	0.601
DS02	0.594	0.085
DS04	0.762	0.928
DS0c	0.561	0.338
GP01	-0.221	0.068
GP02	-0.889	0.161
GP0c	-0.464	-0.041
NOD	0.159	0.376
NZO	0.399	0.273
PWK	0.392	0.618
H37Rv_KO_CtpC	-0.076	-0.166
H37Rv_KO_CtpD	-0.608	-0.952
H37Rv_KO_Rv1272	-0.135	0.148
H37Rv_KO_SugABC	0.592	0.876
H37Rv_KO_MbtN	0.174	-0.392
Trans05	0.0	-0.065
macrophage_unactivated	-0.309	-0.063
IL1	-0.193	-0.792
Rapamycin	-0.049	0.061
Tcell	-0.052	-0.238
GMCSF	0.203	0.0
IFNab	-0.508	-0.317
IFNg	-0.043	0.027
IFNg_GMCSF1	-0.258	0.063
Rv1432_day32	0.0	0.112
Rv1565c_day32	0.635	-0.174
secA2_input	-0.348	-0.501
delta_Rv3594	0.162	0.395
delta_Rv3717	0.277	0.792
delta_Rv3811	0.106	0.327
delta_Rv0954	-0.147	0.684
PonA1	-0.178	0.854
EccD1_KO	0.97	0.753
EspI_KO	0.633	0.436
PE35_KO	0.368	0.123
PPE68_KO	0.653	0.202
glycerol2	-0.126	-0.091
lignocerate	0.213	-0.387
oleate	-0.264	0.379
phosphatidylcholine	0.167	0.16
acetate	0.02	-0.416
glucAc	0.012	-0.97
Rv0950ko	-0.772	-0.163
Rv1096ko	0.0	0.793
Rv3684ko	-0.432	0.272
delta_otsA_trehalose	-0.232	0.718